One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/11/25/peak-motifs.2025-11-25.143236_2025-11-25.143236_C5OFib/results/discovered_motifs/peak-motifs_motifs_discovered.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -mode matches -strand DR -uth offset_rank 1 -lth w 5 -lth Wr 0.3 -lth cor 0.7 -lth Ncor 0.4 -return matrix_name,matrix_id,cor,Ncor,width,strand,offset,alignments_1ton -sort Ncor -quick -o $RSAT/public_html/tmp/www-data/2025/11/25/peak-motifs.2025-11-25.143236_2025-11-25.143236_C5OFib/results/discovered_vs_db/peak-motifs_motifs_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.tab

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m3_shift2 ; 37 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m3_shift2 (oligos_7nt_mkv5_m3)
; oligos_7nt_mkv5_m3; m=0 (reference); ncol1=11; shift=2; ncol=13; --amCCACACChh ; Alignment reference a 0 0 3215 2716 992 343 7936 266 7685 324 776 2740 2512 c 0 0 1814 2390 7337 8251 380 8203 358 7862 7545 2399 2759 g 0 0 2006 1694 348 130 199 115 366 294 207 1019 1351 t 0 0 2000 2235 358 311 520 451 626 555 507 2877 2413

MA0689.1_rc_shift2 (TBX20_rc)
; oligos_7nt_mkv5_m3 versus MA0689.1_rc (TBX20_rc); m=1/36; ncol2=11; w=0; offset=0; strand=R; shift=2; score=0.73174; --yTTCACACCTw ; cor=; Ncor= a 0 0 59.0 170.0 10.0 82.0 572.0 4.0 572.0 40.0 26.0 24.0 250.0 c 0 0 300.0 53.0 6.0 572.0 11.0 572.0 10.0 572.0 572.0 54.0 121.0 g 0 0 60.0 16.0 1.0 10.0 1.0 1.0 0.0 0.0 34.0 23.0 4.0 t 0 0 154.0 572.0 572.0 48.0 8.0 0.0 0.0 0.0 50.0 572.0 197.0

MA1107.3_shift3 (KLF9)
; oligos_7nt_mkv5_m3 versus MA1107.3 (KLF9); m=2/36; ncol2=11; w=0; offset=1; strand=D; shift=3; score=0.710277; ---gCCACACCCA ; cor=; Ncor= a 0 0 0 2862.0 4664.0 287.0 21899.0 221.0 19187.0 224.0 2428.0 146.0 18837.0 c 0 0 0 4342.0 17839.0 24709.0 2559.0 24863.0 1070.0 24365.0 22117.0 24682.0 4339.0 g 0 0 0 16852.0 1660.0 291.0 708.0 353.0 4340.0 735.0 605.0 205.0 852.0 t 0 0 0 1523.0 1416.0 292.0 413.0 142.0 982.0 255.0 429.0 546.0 1551.0

MA0599.1_shift3 (KLF5)
; oligos_7nt_mkv5_m3 versus MA0599.1 (KLF5); m=3/36; ncol2=10; w=0; offset=1; strand=D; shift=3; score=0.670326; ---gCCMCrCCCh ; cor=; Ncor= a 0 0 0 1429.0 0.0 0.0 3477.0 0.0 5051.0 0.0 0.0 0.0 3915.0 c 0 0 0 2023.0 11900.0 12008.0 9569.0 13611.0 0.0 13611.0 13611.0 13135.0 5595.0 g 0 0 0 7572.0 0.0 0.0 0.0 0.0 5182.0 0.0 0.0 0.0 0.0 t 0 0 0 2587.0 1711.0 1603.0 565.0 0.0 3378.0 0.0 0.0 476.0 4101.0

MA1517.2_shift4 (KLF6)
; oligos_7nt_mkv5_m3 versus MA1517.2 (KLF6); m=4/36; ncol2=9; w=0; offset=2; strand=D; shift=4; score=0.661108; ----cCACRCCCm ; cor=; Ncor= a 0 0 0 0 569.0 432.0 2192.0 0.0 1024.0 0.0 25.0 71.0 955.0 c 0 0 0 0 2192.0 2192.0 284.0 2192.0 0.0 2192.0 2192.0 2192.0 665.0 g 0 0 0 0 332.0 298.0 60.0 0.0 2192.0 0.0 60.0 12.0 52.0 t 0 0 0 0 219.0 140.0 60.0 24.0 0.0 0.0 0.0 64.0 520.0

MA0690.3_shift3 (TBX21)
; oligos_7nt_mkv5_m3 versus MA0690.3 (TBX21); m=5/36; ncol2=10; w=0; offset=1; strand=D; shift=3; score=0.660892; ---TTCACACCTt ; cor=; Ncor= a 0 0 0 499.0 10.0 375.0 3685.0 0.0 3685.0 8.0 179.0 145.0 489.0 c 0 0 0 276.0 60.0 3685.0 37.0 3685.0 54.0 3685.0 3685.0 664.0 490.0 g 0 0 0 376.0 4.0 344.0 460.0 0.0 163.0 28.0 302.0 36.0 254.0 t 0 0 0 3685.0 3685.0 50.0 124.0 0.0 3.0 2.0 310.0 3685.0 2452.0

MA1516.2_shift2 (KLF3)
; oligos_7nt_mkv5_m3 versus MA1516.2 (KLF3); m=6/36; ncol2=10; w=0; offset=0; strand=D; shift=2; score=0.643194; --grCCrCGCCC- ; cor=; Ncor= a 0 0 7717.0 24771.0 1442.0 298.0 26757.0 2261.0 4245.0 202.0 83.0 77.0 0 c 0 0 2655.0 615.0 43259.0 43259.0 707.0 43259.0 334.0 43259.0 43259.0 43259.0 0 g 0 0 26568.0 18489.0 1954.0 248.0 16503.0 21.0 43259.0 31.0 29.0 48.0 0 t 0 0 6319.0 207.0 705.0 335.0 419.0 1409.0 1212.0 0.0 0.0 1218.0 0

MA0741.1_shift3 (KLF16)
; oligos_7nt_mkv5_m3 versus MA0741.1 (KLF16); m=7/36; ncol2=11; w=0; offset=1; strand=D; shift=3; score=0.629471; ---gmCMCgCCCM ; cor=; Ncor= a 0 0 0 666.0 901.0 62.0 1150.0 66.0 497.0 8.0 2.0 16.0 437.0 c 0 0 0 535.0 1612.0 1612.0 461.0 1612.0 173.0 1612.0 1612.0 1612.0 1175.0 g 0 0 0 1612.0 77.0 6.0 32.0 17.0 1612.0 0.0 8.0 3.0 19.0 t 0 0 0 240.0 116.0 45.0 0.0 19.0 403.0 0.0 0.0 97.0 40.0

MA1567.3_rc_shift3 (Tbx6_rc)
; oligos_7nt_mkv5_m3 versus MA1567.3_rc (Tbx6_rc); m=8/36; ncol2=9; w=0; offset=1; strand=R; shift=3; score=0.626512; ---TTCACACCy- ; cor=; Ncor= a 0 0 0 373.0 92.0 457.0 8037.0 101.0 9113.0 71.0 361.0 1500.0 0 c 0 0 0 898.0 332.0 8237.0 676.0 9393.0 152.0 9131.0 8347.0 2541.0 0 g 0 0 0 492.0 165.0 775.0 229.0 119.0 229.0 347.0 186.0 643.0 0 t 0 0 0 7889.0 9063.0 183.0 710.0 39.0 158.0 103.0 758.0 4968.0 0

MA0746.3_shift3 (SP3)
; oligos_7nt_mkv5_m3 versus MA0746.3 (SP3); m=9/36; ncol2=11; w=0; offset=1; strand=D; shift=3; score=0.623744; ---rCCACGCCCm ; cor=; Ncor= a 0 0 0 2146.0 664.0 160.0 5253.0 6.0 465.0 0.0 0.0 2.0 3430.0 c 0 0 0 531.0 6591.0 6591.0 1338.0 6591.0 0.0 6591.0 6591.0 6591.0 3160.0 g 0 0 0 4445.0 226.0 54.0 2.0 0.0 6591.0 0.0 0.0 2.0 39.0 t 0 0 0 421.0 345.0 202.0 11.0 12.0 504.0 0.0 9.0 718.0 552.0

MA2123.1_shift3 (Hand1)
; oligos_7nt_mkv5_m3 versus MA2123.1 (Hand1); m=10/36; ncol2=9; w=0; offset=1; strand=D; shift=3; score=0.619993; ---tCCAGACCt- ; cor=; Ncor= a 0 0 0 177.0 84.0 8.0 1016.0 8.0 908.0 28.0 40.0 153.0 0 c 0 0 0 128.0 850.0 1036.0 16.0 24.0 33.0 955.0 962.0 235.0 0 g 0 0 0 148.0 101.0 12.0 10.0 1016.0 104.0 46.0 46.0 61.0 0 t 0 0 0 609.0 27.0 6.0 20.0 14.0 17.0 33.0 14.0 613.0 0

MA0800.2_rc_shift3 (EOMES_rc)
; oligos_7nt_mkv5_m3 versus MA0800.2_rc (EOMES_rc); m=11/36; ncol2=9; w=0; offset=1; strand=R; shift=3; score=0.606776; ---tTCACACCT- ; cor=; Ncor= a 0 0 0 3351.0 24.0 980.0 9832.0 3.0 9832.0 94.0 1305.0 653.0 0 c 0 0 0 1022.0 99.0 9832.0 98.0 9832.0 50.0 9832.0 9832.0 1259.0 0 g 0 0 0 1956.0 28.0 550.0 1540.0 8.0 600.0 92.0 1004.0 158.0 0 t 0 0 0 9832.0 9832.0 210.0 495.0 9.0 19.0 23.0 1775.0 9832.0 0

MA1565.2_rc_shift3 (TBX18_rc)
; oligos_7nt_mkv5_m3 versus MA1565.2_rc (TBX18_rc); m=12/36; ncol2=9; w=0; offset=1; strand=R; shift=3; score=0.602938; ---tTCACACCT- ; cor=; Ncor= a 0 0 0 95.0 34.0 32.0 778.0 2.0 778.0 0.0 47.0 59.0 0 c 0 0 0 265.0 5.0 778.0 109.0 778.0 0.0 778.0 778.0 159.0 0 g 0 0 0 62.0 1.0 161.0 98.0 6.0 80.0 0.0 57.0 62.0 0 t 0 0 0 778.0 778.0 52.0 100.0 21.0 7.0 14.0 73.0 778.0 0

MA1515.2_shift4 (KLF2)
; oligos_7nt_mkv5_m3 versus MA1515.2 (KLF2); m=13/36; ncol2=8; w=0; offset=2; strand=D; shift=4; score=0.598329; ----CCmCrCCC- ; cor=; Ncor= a 0 0 0 0 741.0 403.0 4622.0 0.0 1702.0 0.0 128.0 68.0 0 c 0 0 0 0 4622.0 4622.0 2265.0 4622.0 274.0 4622.0 4622.0 4622.0 0 g 0 0 0 0 495.0 186.0 1060.0 0.0 2920.0 49.0 195.0 105.0 0 t 0 0 0 0 346.0 312.0 214.0 78.0 167.0 22.0 9.0 444.0 0

MA1512.2_shift4 (KLF11)
; oligos_7nt_mkv5_m3 versus MA1512.2 (KLF11); m=14/36; ncol2=10; w=0; offset=2; strand=D; shift=4; score=0.594539; ----cCACGCCCm ; cor=; Ncor= a 0 0 0 0 2022.0 650.0 8655.0 0.0 2426.0 11.0 1.0 0.0 4689.0 c 0 0 0 0 5549.0 8662.0 1289.0 9142.0 52.0 9161.0 9166.0 8941.0 4226.0 g 0 0 0 0 401.0 156.0 115.0 0.0 8291.0 18.0 20.0 4.0 69.0 t 0 0 0 0 1192.0 506.0 27.0 38.0 349.0 23.0 7.0 885.0 761.0

MA1566.3_rc_shift3 (TBX3_rc)
; oligos_7nt_mkv5_m3 versus MA1566.3_rc (TBX3_rc); m=15/36; ncol2=9; w=0; offset=1; strand=R; shift=3; score=0.590987; ---TTCACACCT- ; cor=; Ncor= a 0 0 0 470.0 5.0 717.0 4271.0 0.0 4271.0 0.0 129.0 176.0 0 c 0 0 0 425.0 25.0 4271.0 18.0 4271.0 0.0 4271.0 4271.0 682.0 0 g 0 0 0 340.0 4.0 873.0 528.0 2.0 293.0 14.0 455.0 77.0 0 t 0 0 0 4271.0 4271.0 90.0 91.0 0.0 2.0 0.0 482.0 4271.0 0

MA0688.2_rc_shift3 (TBX2_rc)
; oligos_7nt_mkv5_m3 versus MA0688.2_rc (TBX2_rc); m=16/36; ncol2=9; w=0; offset=1; strand=R; shift=3; score=0.588869; ---tTcACACCT- ; cor=; Ncor= a 0 0 0 656.0 120.0 1409.0 3181.0 12.0 3181.0 14.0 353.0 442.0 0 c 0 0 0 527.0 125.0 3181.0 27.0 3181.0 21.0 3181.0 3181.0 716.0 0 g 0 0 0 491.0 26.0 1289.0 392.0 0.0 329.0 36.0 519.0 59.0 0 t 0 0 0 2525.0 3181.0 310.0 307.0 26.0 0.0 9.0 602.0 3181.0 0

MA0802.2_rc_shift3 (TBR1_rc)
; oligos_7nt_mkv5_m3 versus MA0802.2_rc (TBR1_rc); m=17/36; ncol2=9; w=0; offset=1; strand=R; shift=3; score=0.588447; ---TTCACACCT- ; cor=; Ncor= a 0 0 0 4576.0 205.0 7001.0 34509.0 4.0 34509.0 213.0 4480.0 1433.0 0 c 0 0 0 1488.0 584.0 34509.0 157.0 34509.0 88.0 34509.0 34509.0 3329.0 0 g 0 0 0 2575.0 90.0 2551.0 4742.0 6.0 1759.0 254.0 3255.0 359.0 0 t 0 0 0 25869.0 34509.0 1175.0 2386.0 0.0 39.0 70.0 6880.0 34509.0 0

MA0807.1_rc_shift4 (TBX5_rc)
; oligos_7nt_mkv5_m3 versus MA0807.1_rc (TBX5_rc); m=18/36; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.576366; ----TmACACCT- ; cor=; Ncor= a 0 0 0 0 283.0 915.0 1804.0 0.0 1804.0 28.0 133.0 207.0 0 c 0 0 0 0 343.0 1804.0 201.0 1804.0 166.0 1804.0 1804.0 409.0 0 g 0 0 0 0 76.0 616.0 225.0 0.0 131.0 0.0 190.0 89.0 0 t 0 0 0 0 1804.0 126.0 162.0 27.0 45.0 0.0 235.0 1804.0 0

MA0803.1_rc_shift4 (TBX15_rc)
; oligos_7nt_mkv5_m3 versus MA0803.1_rc (TBX15_rc); m=19/36; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.567238; ----TCACACCT- ; cor=; Ncor= a 0 0 0 0 96.0 937.0 10502.0 0.0 10502.0 0.0 103.0 112.0 0 c 0 0 0 0 306.0 10502.0 324.0 10502.0 245.0 10502.0 10502.0 664.0 0 g 0 0 0 0 71.0 454.0 435.0 8.0 175.0 7.0 101.0 74.0 0 t 0 0 0 0 10502.0 44.0 140.0 0.0 61.0 19.0 458.0 10502.0 0

MA0039.5_shift4 (KLF4)
; oligos_7nt_mkv5_m3 versus MA0039.5 (KLF4); m=20/36; ncol2=8; w=0; offset=2; strand=D; shift=4; score=0.56606; ----CCCCACCC- ; cor=; Ncor= a 0 0 0 0 2465.0 2105.0 7021.0 1173.0 45602.0 852.0 1617.0 1202.0 0 c 0 0 0 0 49209.0 47865.0 45405.0 52875.0 161.0 52366.0 51112.0 51045.0 0 g 0 0 0 0 1583.0 1214.0 1422.0 793.0 6598.0 1470.0 1870.0 1005.0 0 t 0 0 0 0 2560.0 4633.0 1969.0 976.0 3456.0 1129.0 1218.0 2565.0 0

MA0801.1_rc_shift4 (MGA_rc)
; oligos_7nt_mkv5_m3 versus MA0801.1_rc (MGA_rc); m=21/36; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.564691; ----TCACACCT- ; cor=; Ncor= a 0 0 0 0 274.0 6465.0 30489.0 11.0 30489.0 104.0 1929.0 4160.0 0 c 0 0 0 0 920.0 30489.0 381.0 30489.0 96.0 30489.0 30489.0 8873.0 0 g 0 0 0 0 110.0 1753.0 3089.0 1.0 3534.0 509.0 3737.0 1151.0 0 t 0 0 0 0 30489.0 689.0 1042.0 14.0 12.0 16.0 4310.0 30489.0 0

MA0805.1_rc_shift4 (TBX1_rc)
; oligos_7nt_mkv5_m3 versus MA0805.1_rc (TBX1_rc); m=22/36; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.558011; ----TCACACCT- ; cor=; Ncor= a 0 0 0 0 0.0 1039.0 11931.0 0.0 11931.0 0.0 669.0 564.0 0 c 0 0 0 0 18.0 11931.0 109.0 11931.0 141.0 11931.0 11931.0 1007.0 0 g 0 0 0 0 33.0 720.0 613.0 5.0 214.0 0.0 711.0 113.0 0 t 0 0 0 0 11931.0 141.0 142.0 0.0 28.0 0.0 1560.0 11931.0 0

MA1564.2_shift4 (SP9)
; oligos_7nt_mkv5_m3 versus MA1564.2 (SP9); m=23/36; ncol2=10; w=0; offset=2; strand=D; shift=4; score=0.556945; ----cCmCGCCCm ; cor=; Ncor= a 0 0 0 0 566.0 321.0 2451.0 2.0 211.0 22.0 0.0 39.0 1192.0 c 0 0 0 0 2451.0 2451.0 1127.0 2451.0 200.0 2451.0 2451.0 2451.0 1259.0 g 0 0 0 0 309.0 113.0 56.0 17.0 2451.0 0.0 0.0 24.0 38.0 t 0 0 0 0 518.0 284.0 96.0 9.0 173.0 14.0 30.0 412.0 353.0

MA0493.3_rc_shift4 (KLF1_rc)
; oligos_7nt_mkv5_m3 versus MA0493.3_rc (KLF1_rc); m=24/36; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.552267; ----CCmCrCCC- ; cor=; Ncor= a 0 0 0 0 1.0 21.0 324.0 1.0 346.0 1.0 1.0 1.0 0 c 0 0 0 0 998.0 896.0 675.0 998.0 1.0 998.0 998.0 998.0 0 g 0 0 0 0 1.0 1.0 1.0 1.0 529.0 1.0 1.0 1.0 0 t 0 0 0 0 1.0 82.0 1.0 1.0 125.0 1.0 1.0 1.0 0

MA0806.1_rc_shift4 (TBX4_rc)
; oligos_7nt_mkv5_m3 versus MA0806.1_rc (TBX4_rc); m=25/36; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.54966; ----TcACACCT- ; cor=; Ncor= a 0 0 0 0 965.0 8384.0 18646.0 0.0 18646.0 33.0 1162.0 1283.0 0 c 0 0 0 0 1733.0 18646.0 304.0 18646.0 191.0 18646.0 18646.0 2353.0 0 g 0 0 0 0 588.0 5396.0 2859.0 0.0 1644.0 189.0 2328.0 437.0 0 t 0 0 0 0 18646.0 1355.0 1551.0 0.0 0.0 38.0 3082.0 18646.0 0

MA0002.3_rc_shift1 (Runx1_rc)
; oligos_7nt_mkv5_m3 versus MA0002.3_rc (Runx1_rc); m=26/36; ncol2=9; w=-1; offset=-1; strand=R; shift=1; score=0.536546; -waaCCACAr--- ; cor=; Ncor= a 0 1053.0 1325.0 1339.0 93.0 13.0 1716.0 53.0 1936.0 656.0 0 0 0 c 0 289.0 81.0 251.0 1848.0 1987.0 70.0 1872.0 7.0 149.0 0 0 0 g 0 158.0 463.0 400.0 42.0 0.0 127.0 75.0 0.0 1072.0 0 0 0 t 0 500.0 131.0 10.0 17.0 0.0 87.0 0.0 57.0 123.0 0 0 0

MA0747.2_shift4 (SP8)
; oligos_7nt_mkv5_m3 versus MA0747.2 (SP8); m=27/36; ncol2=11; w=0; offset=2; strand=D; shift=4; score=0.530551; ----mCACgCCCm ; cor=; Ncor= a 0 0 0 0 54.0 25.0 133.0 7.0 25.0 5.0 2.0 0.0 90.0 c 0 0 0 0 113.0 167.0 33.0 167.0 37.0 167.0 167.0 167.0 77.0 g 0 0 0 0 0.0 0.0 1.0 1.0 167.0 6.0 3.0 4.0 6.0 t 0 0 0 0 4.0 13.0 2.0 5.0 39.0 2.0 0.0 15.0 3.0

MA0130.1_shift2 (ZNF354C)
; oligos_7nt_mkv5_m3 versus MA0130.1 (ZNF354C); m=28/36; ncol2=6; w=0; offset=0; strand=D; shift=2; score= 0.5129; --mTCCAC----- ; cor=; Ncor= a 0 0 7.0 3.0 0.0 0.0 16.0 0.0 0 0 0 0 0 c 0 0 6.0 2.0 16.0 16.0 0.0 15.0 0 0 0 0 0 g 0 0 3.0 0.0 0.0 0.0 0.0 1.0 0 0 0 0 0 t 0 0 0.0 11.0 0.0 0.0 0.0 0.0 0 0 0 0 0

MA1989.2_shift1 (Bcl11B)
; oligos_7nt_mkv5_m3 versus MA1989.2 (Bcl11B); m=29/36; ncol2=9; w=-1; offset=-1; strand=D; shift=1; score=0.51283; -aAACCACAa--- ; cor=; Ncor= a 0 24743.0 31408.0 36130.0 1391.0 1058.0 36734.0 1718.0 36053.0 23689.0 0 0 0 c 0 5084.0 2339.0 1397.0 36798.0 37476.0 940.0 35985.0 1397.0 3546.0 0 0 0 g 0 3712.0 3044.0 1662.0 762.0 416.0 796.0 1217.0 1246.0 7120.0 0 0 0 t 0 6252.0 3000.0 602.0 840.0 841.0 1321.0 871.0 1095.0 5436.0 0 0 0

MA0479.2_shift1 (FOXH1)
; oligos_7nt_mkv5_m3 versus MA0479.2 (FOXH1); m=30/36; ncol2=8; w=-1; offset=-1; strand=D; shift=1; score=0.484392; -AATMCACA---- ; cor=; Ncor= a 0 8211.0 7547.0 0.0 2374.0 1414.0 8211.0 0.0 7138.0 0 0 0 0 c 0 0.0 0.0 0.0 5773.0 6797.0 0.0 8211.0 0.0 0 0 0 0 g 0 0.0 229.0 0.0 0.0 0.0 0.0 0.0 0.0 0 0 0 0 t 0 0.0 435.0 8211.0 64.0 0.0 0.0 0.0 1073.0 0 0 0 0

MA1620.2_shift6 (Ptf1A)
; oligos_7nt_mkv5_m3 versus MA1620.2 (Ptf1A); m=31/36; ncol2=8; w=0; offset=4; strand=D; shift=6; score=0.454613; ------aCACCTG ; cor=; Ncor= a 0 0 0 0 0 0 6867.0 184.0 10033.0 116.0 256.0 85.0 68.0 c 0 0 0 0 0 0 1188.0 9887.0 60.0 8567.0 9612.0 94.0 109.0 g 0 0 0 0 0 0 1410.0 113.0 84.0 1182.0 294.0 98.0 9972.0 t 0 0 0 0 0 0 826.0 107.0 114.0 426.0 129.0 10014.0 142.0

MA0162.5_shift0 (EGR1)
; oligos_7nt_mkv5_m3 versus MA0162.5 (EGR1); m=32/36; ncol2=10; w=-2; offset=-2; strand=D; shift=0; score=0.446602; mCGCCCACgC--- ; cor=; Ncor= a 14508.0 642.0 5110.0 227.0 1440.0 314.0 22297.0 153.0 4696.0 969.0 0 0 0 c 10303.0 28403.0 1131.0 29338.0 27321.0 28958.0 5420.0 29507.0 2806.0 25196.0 0 0 0 g 3854.0 756.0 22237.0 665.0 1455.0 698.0 2122.0 699.0 20544.0 2157.0 0 0 0 t 1933.0 797.0 2120.0 368.0 382.0 628.0 759.0 239.0 2552.0 2276.0 0 0 0

MA0103.4_shift7 (ZEB1)
; oligos_7nt_mkv5_m3 versus MA0103.4 (ZEB1); m=33/36; ncol2=6; w=0; offset=5; strand=D; shift=7; score=0.436156; -------CACCTG ; cor=; Ncor= a 0 0 0 0 0 0 0 114.0 19905.0 32.0 193.0 4.0 441.0 c 0 0 0 0 0 0 0 19195.0 0.0 19878.0 19257.0 501.0 178.0 g 0 0 0 0 0 0 0 158.0 223.0 97.0 649.0 355.0 19381.0 t 0 0 0 0 0 0 0 662.0 1.0 122.0 30.0 19269.0 129.0

MA0820.2_shift7 (FIGLA)
; oligos_7nt_mkv5_m3 versus MA0820.2 (FIGLA); m=34/36; ncol2=6; w=0; offset=5; strand=D; shift=7; score=0.417117; -------CACCTG ; cor=; Ncor= a 0 0 0 0 0 0 0 0.0 1780.0 0.0 9.0 56.0 36.0 c 0 0 0 0 0 0 0 1780.0 46.0 1780.0 1780.0 0.0 33.0 g 0 0 0 0 0 0 0 0.0 0.0 527.0 311.0 17.0 1780.0 t 0 0 0 0 0 0 0 29.0 14.0 0.0 0.0 1780.0 65.0

MA0695.2_shift1 (ZBTB7C)
; oligos_7nt_mkv5_m3 versus MA0695.2 (ZBTB7C); m=35/36; ncol2=8; w=-1; offset=-1; strand=D; shift=1; score=0.412371; -cgACCACC---- ; cor=; Ncor= a 0 183.0 351.0 1018.0 39.0 0.0 1018.0 18.0 90.0 0 0 0 0 c 0 1018.0 128.0 225.0 1018.0 1018.0 269.0 1018.0 1018.0 0 0 0 0 g 0 215.0 1018.0 8.0 0.0 5.0 8.0 7.0 54.0 0 0 0 0 t 0 110.0 137.0 24.0 0.0 14.0 10.0 17.0 90.0 0 0 0 0

MA1964.2_shift4 (SMAD2)
; oligos_7nt_mkv5_m3 versus MA1964.2 (SMAD2); m=36/36; ncol2=6; w=0; offset=2; strand=D; shift=4; score=0.409148; ----CCAGAC--- ; cor=; Ncor= a 0 0 0 0 42.0 6.0 3447.0 7.0 3747.0 1.0 0 0 0 c 0 0 0 0 3610.0 3484.0 149.0 30.0 0.0 3757.0 0 0 0 g 0 0 0 0 86.0 171.0 154.0 3703.0 0.0 0.0 0 0 0 t 0 0 0 0 20.0 97.0 8.0 18.0 11.0 0.0 0 0 0

One-to-n matrix alignment; reference matrix: positions_7nt_m2_shift2 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m2_shift2 (positions_7nt_m2)
; positions_7nt_m2; m=0 (reference); ncol1=11; shift=2; ncol=13; --AaAAAAAAAaA ; Alignment reference a 0 0 19250 18525 26699 26379 26277 25271 26112 26259 26647 18371 19321 c 0 0 2006 1667 22 44 57 77 32 58 365 2091 2333 g 0 0 2115 1773 85 61 56 54 32 38 17 1868 2269 t 0 0 3902 5308 467 789 883 1871 1097 918 244 4943 3350

MA1125.2_shift5 (ZNF384)
; positions_7nt_m2 versus MA1125.2 (ZNF384); m=1/4; ncol2=8; w=0; offset=3; strand=D; shift=5; score=0.725447; -----AAAAAAaa ; cor=; Ncor= a 0 0 0 0 0 30354.0 30191.0 30072.0 30252.0 30202.0 30406.0 20322.0 18916.0 c 0 0 0 0 0 7.0 35.0 21.0 13.0 26.0 6.0 2908.0 3963.0 g 0 0 0 0 0 13.0 19.0 26.0 15.0 14.0 0.0 2767.0 2898.0 t 0 0 0 0 0 59.0 188.0 314.0 153.0 191.0 21.0 4436.0 4656.0

MA1487.3_shift0 (FOXE1)
; positions_7nt_m2 versus MA1487.3 (FOXE1); m=2/4; ncol2=12; w=-2; offset=-2; strand=D; shift=0; score=0.538882; yTAARyAAACAa- ; cor=; Ncor= a 86.0 581.0 3126.0 2547.0 2255.0 587.0 3126.0 3126.0 3126.0 0.0 3126.0 2026.0 0 c 1646.0 43.0 28.0 113.0 117.0 1062.0 362.0 90.0 0.0 3126.0 32.0 392.0 0 g 57.0 0.0 402.0 116.0 871.0 17.0 0.0 0.0 23.0 0.0 18.0 258.0 0 t 1479.0 2545.0 43.0 579.0 27.0 2064.0 20.0 53.0 9.0 85.0 110.0 450.0 0

MA2124.1_rc_shift6 (Hmga1_rc)
; positions_7nt_m2 versus MA2124.1_rc (Hmga1_rc); m=3/4; ncol2=8; w=0; offset=4; strand=R; shift=6; score=0.422334; ------wTAAAAA ; cor=; Ncor= a 0 0 0 0 0 0 11340.0 542.0 24333.0 24654.0 24779.0 24269.0 24172.0 c 0 0 0 0 0 0 2438.0 358.0 294.0 237.0 138.0 303.0 421.0 g 0 0 0 0 0 0 2348.0 473.0 409.0 264.0 194.0 200.0 393.0 t 0 0 0 0 0 0 9680.0 24433.0 770.0 651.0 695.0 1034.0 820.0

MA0901.3_shift0 (HOXB13)
; positions_7nt_m2 versus MA0901.3 (HOXB13); m=4/4; ncol2=9; w=-2; offset=-2; strand=D; shift=0; score=0.407978; cCAATAAAA---- ; cor=; Ncor= a 11896.0 4212.0 66409.0 73044.0 421.0 73612.0 75997.0 76077.0 70230.0 0 0 0 0 c 47674.0 65312.0 4611.0 726.0 550.0 523.0 599.0 760.0 2465.0 0 0 0 0 g 9096.0 582.0 351.0 1913.0 586.0 1083.0 490.0 625.0 1882.0 0 0 0 0 t 10048.0 8608.0 7343.0 3031.0 77157.0 3496.0 1628.0 1252.0 4137.0 0 0 0 0

One-to-n matrix alignment; reference matrix: positions_6nt_m2_shift6 ; 12 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m2_shift6 (positions_6nt_m2)
; positions_6nt_m2; m=0 (reference); ncol1=11; shift=6; ncol=17; ------wwCCCCTTAwh ; Alignment reference a 0 0 0 0 0 0 1279 1282 330 190 247 317 365 181 3656 1030 1099 c 0 0 0 0 0 0 608 697 2744 3508 3434 3235 139 61 61 824 1116 g 0 0 0 0 0 0 729 669 314 35 57 51 118 43 35 754 504 t 0 0 0 0 0 0 1251 1219 479 134 129 264 3245 3582 115 1259 1148

MA0122.4_shift6 (Nkx3-2)
; positions_6nt_m2 versus MA0122.4 (Nkx3-2); m=1/11; ncol2=10; w=0; offset=0; strand=D; shift=6; score=0.695855; ------aamCACTTAa- ; cor=; Ncor= a 0 0 0 0 0 0 5714.0 5598.0 2604.0 79.0 9907.0 151.0 50.0 95.0 9680.0 5620.0 0 c 0 0 0 0 0 0 952.0 1109.0 5079.0 9900.0 82.0 9965.0 32.0 138.0 147.0 991.0 0 g 0 0 0 0 0 0 1466.0 1154.0 1504.0 23.0 19.0 10.0 29.0 68.0 68.0 1368.0 0 t 0 0 0 0 0 0 2088.0 2359.0 1033.0 218.0 212.0 94.0 10109.0 9919.0 325.0 2241.0 0

MA0124.3_shift8 (Nkx3-1)
; positions_6nt_m2 versus MA0124.3 (Nkx3-1); m=2/11; ncol2=7; w=0; offset=2; strand=D; shift=8; score=0.495266; --------cCACTTA-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 981.0 0.0 5335.0 59.0 0.0 0.0 5335.0 0 0 c 0 0 0 0 0 0 0 0 5335.0 5335.0 28.0 5335.0 1.0 254.0 273.0 0 0 g 0 0 0 0 0 0 0 0 1776.0 10.0 10.0 9.0 0.0 0.0 173.0 0 0 t 0 0 0 0 0 0 0 0 275.0 336.0 88.0 9.0 5335.0 5335.0 523.0 0 0

MA0482.3_shift10 (GATA4)
; positions_6nt_m2 versus MA0482.3 (GATA4); m=3/11; ncol2=8; w=0; offset=4; strand=D; shift=10; score=0.479321; ----------cCTTATC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 3977.0 3150.0 1586.0 1650.0 54420.0 770.0 480.0 c 0 0 0 0 0 0 0 0 0 0 38289.0 50062.0 1429.0 1377.0 1703.0 582.0 56544.0 g 0 0 0 0 0 0 0 0 0 0 5099.0 1103.0 749.0 808.0 1245.0 539.0 568.0 t 0 0 0 0 0 0 0 0 0 0 11649.0 4699.0 55250.0 55179.0 1646.0 57123.0 1422.0

MA1608.2_shift9 (Isl1)
; positions_6nt_m2 versus MA1608.2 (Isl1); m=4/11; ncol2=7; w=0; offset=3; strand=D; shift=9; score=0.478611; ---------CCATTAg- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 356.0 432.0 5476.0 67.0 64.0 5462.0 1089.0 0 c 0 0 0 0 0 0 0 0 0 4710.0 4885.0 30.0 54.0 104.0 45.0 410.0 0 g 0 0 0 0 0 0 0 0 0 192.0 54.0 99.0 34.0 39.0 20.0 3702.0 0 t 0 0 0 0 0 0 0 0 0 379.0 266.0 32.0 5482.0 5430.0 110.0 436.0 0

MA1545.2_shift8 (OVOL2)
; positions_6nt_m2 versus MA1545.2 (OVOL2); m=5/11; ncol2=7; w=0; offset=2; strand=D; shift=8; score=0.450066; --------aCCGTTA-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 8885.0 3.0 0.0 0.0 0.0 0.0 12491.0 0 0 c 0 0 0 0 0 0 0 0 1602.0 12491.0 12491.0 0.0 1402.0 0.0 13.0 0 0 g 0 0 0 0 0 0 0 0 450.0 24.0 41.0 12491.0 0.0 9.0 151.0 0 0 t 0 0 0 0 0 0 0 0 3607.0 0.0 0.0 0.0 12491.0 12491.0 0.0 0 0

MA1117.2_shift5 (RELB)
; positions_6nt_m2 versus MA1117.2 (RELB); m=6/11; ncol2=7; w=-1; offset=-1; strand=D; shift=5; score=0.429345; -----ATTCCCC----- ; cor=; Ncor= a 0 0 0 0 0 2833.0 210.0 90.0 144.0 92.0 146.0 79.0 0 0 0 0 0 c 0 0 0 0 0 127.0 107.0 103.0 2928.0 3098.0 3013.0 3035.0 0 0 0 0 0 g 0 0 0 0 0 157.0 159.0 53.0 40.0 28.0 58.0 107.0 0 0 0 0 0 t 0 0 0 0 0 173.0 2814.0 3044.0 178.0 72.0 73.0 69.0 0 0 0 0 0

MA1578.2_shift6 (VEZF1)
; positions_6nt_m2 versus MA1578.2 (VEZF1); m=7/11; ncol2=6; w=0; offset=0; strand=D; shift=6; score=0.423548; ------CCCCCC----- ; cor=; Ncor= a 0 0 0 0 0 0 71.0 1.0 4.0 2.0 6.0 10.0 0 0 0 0 0 c 0 0 0 0 0 0 790.0 997.0 995.0 997.0 989.0 977.0 0 0 0 0 0 g 0 0 0 0 0 0 137.0 0.0 0.0 0.0 0.0 3.0 0 0 0 0 0 t 0 0 0 0 0 0 0.0 0.0 0.0 0.0 4.0 8.0 0 0 0 0 0

MA0056.3_shift5 (MZF1)
; positions_6nt_m2 versus MA0056.3 (MZF1); m=8/11; ncol2=8; w=-1; offset=-1; strand=D; shift=5; score=0.420223; -----AATCCCCA---- ; cor=; Ncor= a 0 0 0 0 0 5855.0 7149.0 106.0 100.0 135.0 111.0 117.0 6036.0 0 0 0 0 c 0 0 0 0 0 1016.0 426.0 56.0 7949.0 7939.0 7919.0 7673.0 611.0 0 0 0 0 g 0 0 0 0 0 999.0 385.0 98.0 100.0 54.0 58.0 83.0 484.0 0 0 0 0 t 0 0 0 0 0 372.0 282.0 7982.0 93.0 114.0 154.0 369.0 1111.0 0 0 0 0

MA0766.3_rc_shift10 (GATA5_rc)
; positions_6nt_m2 versus MA0766.3_rc (GATA5_rc); m=9/11; ncol2=8; w=0; offset=4; strand=R; shift=10; score=0.413754; ----------ysTTATC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 668.0 586.0 204.0 331.0 15369.0 0.0 0.0 c 0 0 0 0 0 0 0 0 0 0 8179.0 7774.0 200.0 0.0 0.0 0.0 15369.0 g 0 0 0 0 0 0 0 0 0 0 3215.0 7594.0 0.0 0.0 0.0 0.0 0.0 t 0 0 0 0 0 0 0 0 0 0 7190.0 212.0 15369.0 15369.0 0.0 15369.0 0.0

MA0036.4_shift11 (GATA2)
; positions_6nt_m2 versus MA0036.4 (GATA2); m=10/11; ncol2=7; w=0; offset=5; strand=D; shift=11; score=0.410576; -----------CTTATC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 940.0 444.0 417.0 14098.0 145.0 96.0 c 0 0 0 0 0 0 0 0 0 0 0 10607.0 259.0 34.0 14.0 77.0 13786.0 g 0 0 0 0 0 0 0 0 0 0 0 1223.0 150.0 21.0 43.0 48.0 126.0 t 0 0 0 0 0 0 0 0 0 0 0 1443.0 13360.0 13741.0 58.0 13943.0 205.0

MA1600.2_shift0 (ZNF684)
; positions_6nt_m2 versus MA1600.2 (ZNF684); m=11/11; ncol2=14; w=-6; offset=-6; strand=D; shift=0; score=0.40504; ACAGTCCACCCCTT--- ; cor=; Ncor= a 1238.0 9.0 1184.0 60.0 9.0 13.0 40.0 1012.0 3.0 44.0 7.0 0.0 249.0 56.0 0 0 0 c 24.0 1253.0 11.0 216.0 14.0 1236.0 1221.0 9.0 1226.0 1253.0 1229.0 1263.0 129.0 59.0 0 0 0 g 68.0 9.0 110.0 1135.0 59.0 25.0 2.0 57.0 63.0 10.0 7.0 0.0 18.0 14.0 0 0 0 t 19.0 19.0 131.0 74.0 1259.0 10.0 67.0 220.0 61.0 6.0 92.0 3.0 1107.0 1224.0 0 0 0

One-to-n matrix alignment; reference matrix: positions_6nt_m4_shift2 ; 38 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m4_shift2 (positions_6nt_m4)
; positions_6nt_m4; m=0 (reference); ncol1=11; shift=2; ncol=13; --syACGTGCTaa ; Alignment reference a 0 0 1190 868 4086 236 453 115 108 189 234 1779 1550 c 0 0 1250 2027 218 4003 221 294 788 4446 358 1014 1164 g 0 0 1317 771 455 253 3996 93 3876 125 562 909 1090 t 0 0 1170 1261 168 435 257 4425 155 167 3773 1225 1123

MA2325.1_rc_shift2 (EPAS1_rc)
; positions_6nt_m4 versus MA2325.1_rc (EPAS1_rc); m=1/37; ncol2=9; w=0; offset=0; strand=R; shift=2; score=0.692566; --skACGTGCg-- ; cor=; Ncor= a 0 0 48.0 13.0 583.0 5.0 3.0 1.0 3.0 44.0 100.0 0 0 c 0 0 255.0 43.0 16.0 626.0 6.0 15.0 1.0 545.0 115.0 0 0 g 0 0 323.0 174.0 36.0 2.0 629.0 4.0 635.0 23.0 352.0 0 0 t 0 0 14.0 410.0 5.0 7.0 2.0 620.0 1.0 28.0 73.0 0 0

MA1560.2_shift2 (SOHLH2)
; positions_6nt_m4 versus MA1560.2 (SOHLH2); m=2/37; ncol2=8; w=0; offset=0; strand=D; shift=2; score=0.669276; --gCACGTGc--- ; cor=; Ncor= a 0 0 172.0 45.0 1212.0 0.0 14.0 36.0 41.0 272.0 0 0 0 c 0 0 264.0 1212.0 0.0 1212.0 0.0 65.0 4.0 1212.0 0 0 0 g 0 0 1212.0 29.0 41.0 11.0 1212.0 0.0 1212.0 172.0 0 0 0 t 0 0 276.0 70.0 0.0 7.0 15.0 1212.0 4.0 153.0 0 0 0

MA0616.3_rc_shift2 (HES2_rc)
; positions_6nt_m4 versus MA0616.3_rc (HES2_rc); m=3/37; ncol2=9; w=0; offset=0; strand=R; shift=2; score=0.638323; --rCACGTGcC-- ; cor=; Ncor= a 0 0 3849.0 0.0 8483.0 0.0 129.0 0.0 73.0 1581.0 798.0 0 0 c 0 0 1289.0 8483.0 0.0 8483.0 0.0 2028.0 85.0 8483.0 8483.0 0 0 g 0 0 4634.0 15.0 1098.0 0.0 8483.0 0.0 8483.0 1107.0 1193.0 0 0 t 0 0 512.0 53.0 0.0 0.0 0.0 6455.0 118.0 1501.0 775.0 0 0

MA0626.2_rc_shift2 (Npas2_rc)
; positions_6nt_m4 versus MA0626.2_rc (Npas2_rc); m=4/37; ncol2=8; w=0; offset=0; strand=R; shift=2; score=0.635606; --aCACGTGs--- ; cor=; Ncor= a 0 0 566.0 0.0 999.0 0.0 0.0 0.0 0.0 48.0 0 0 0 c 0 0 188.0 918.0 0.0 918.0 0.0 0.0 0.0 420.0 0 0 0 g 0 0 172.0 0.0 0.0 0.0 918.0 0.0 999.0 377.0 0 0 0 t 0 0 74.0 81.0 0.0 81.0 81.0 999.0 0.0 154.0 0 0 0

MA0147.4_shift2 (MYC)
; positions_6nt_m4 versus MA0147.4 (MYC); m=5/37; ncol2=8; w=0; offset=0; strand=D; shift=2; score=0.635348; --CCACGTGc--- ; cor=; Ncor= a 0 0 438.0 44.0 4600.0 54.0 169.0 59.0 23.0 419.0 0 0 0 c 0 0 3746.0 4840.0 59.0 4525.0 157.0 162.0 56.0 2801.0 0 0 0 g 0 0 472.0 31.0 170.0 70.0 4578.0 63.0 4817.0 1198.0 0 0 0 t 0 0 286.0 27.0 113.0 293.0 38.0 4658.0 46.0 524.0 0 0 0

MA0059.2_rc_shift1 (MAX::MYC_rc)
; positions_6nt_m4 versus MA0059.2_rc (MAX::MYC_rc); m=6/37; ncol2=10; w=-1; offset=-1; strand=R; shift=1; score=0.629193; -aCCACGTGsT-- ; cor=; Ncor= a 0 13.0 1.0 0.0 20.0 0.0 1.0 0.0 0.0 1.0 1.0 0 0 c 0 0.0 18.0 21.0 0.0 20.0 0.0 0.0 0.0 9.0 4.0 0 0 g 0 5.0 1.0 0.0 1.0 0.0 20.0 0.0 20.0 9.0 1.0 0 0 t 0 3.0 1.0 0.0 0.0 1.0 0.0 21.0 1.0 2.0 15.0 0 0

MA0464.3_shift2 (BHLHE40)
; positions_6nt_m4 versus MA0464.3 (BHLHE40); m=7/37; ncol2=8; w=0; offset=0; strand=D; shift=2; score=0.628422; --kCACGTGm--- ; cor=; Ncor= a 0 0 1391.0 59.0 11222.0 23.0 66.0 167.0 4.0 5927.0 0 0 0 c 0 0 481.0 11222.0 130.0 11222.0 30.0 248.0 12.0 5295.0 0 0 0 g 0 0 5000.0 0.0 78.0 2.0 11222.0 87.0 11222.0 129.0 0 0 0 t 0 0 6222.0 14.0 77.0 32.0 0.0 11222.0 72.0 500.0 0 0 0

MA0649.2_shift1 (HEY2)
; positions_6nt_m4 versus MA0649.2 (HEY2); m=8/37; ncol2=9; w=-1; offset=-1; strand=D; shift=1; score=0.603367; -GrCACGTGy--- ; cor=; Ncor= a 0 107.0 651.0 84.0 1800.0 7.0 27.0 36.0 0.0 50.0 0 0 0 c 0 99.0 305.0 1800.0 0.0 1800.0 72.0 120.0 34.0 1047.0 0 0 0 g 0 1800.0 620.0 83.0 128.0 0.0 1800.0 0.0 1800.0 128.0 0 0 0 t 0 101.0 224.0 58.0 0.0 0.0 0.0 1800.0 30.0 753.0 0 0 0

MA0823.1_shift1 (HEY1)
; positions_6nt_m4 versus MA0823.1 (HEY1); m=9/37; ncol2=10; w=-1; offset=-1; strand=D; shift=1; score=0.592677; -grCACGTGyc-- ; cor=; Ncor= a 0 437.0 1373.0 1.0 3338.0 0.0 0.0 0.0 32.0 333.0 475.0 0 0 c 0 761.0 656.0 3338.0 30.0 3338.0 18.0 474.0 19.0 1762.0 2172.0 0 0 g 0 1788.0 1199.0 3.0 123.0 0.0 3338.0 10.0 3338.0 380.0 373.0 0 0 t 0 352.0 110.0 15.0 21.0 0.0 0.0 3338.0 22.0 863.0 318.0 0 0

MA0821.2_shift1 (HES5)
; positions_6nt_m4 versus MA0821.2 (HES5); m=10/37; ncol2=10; w=-1; offset=-1; strand=D; shift=1; score=0.58585; -grCACGTGyc-- ; cor=; Ncor= a 0 2390.0 4529.0 212.0 9037.0 49.0 467.0 159.0 66.0 339.0 1439.0 0 0 c 0 2209.0 2601.0 10849.0 204.0 10849.0 164.0 1804.0 121.0 6325.0 8460.0 0 0 g 0 8459.0 6320.0 113.0 1812.0 193.0 10849.0 199.0 10849.0 2606.0 2240.0 0 0 t 0 1455.0 358.0 74.0 146.0 472.0 68.0 9045.0 231.0 4524.0 2389.0 0 0

MA0822.1_shift0 (HES7)
; positions_6nt_m4 versus MA0822.1 (HES7); m=11/37; ncol2=12; w=-2; offset=-2; strand=D; shift=0; score=0.585353; yGGCACGTGCCr- ; cor=; Ncor= a 168.0 24.0 160.0 1.0 1864.0 0.0 4.0 3.0 2.0 8.0 0.0 946.0 0 c 790.0 19.0 29.0 1864.0 3.0 1864.0 1.0 3.0 1.0 1864.0 1864.0 47.0 0 g 43.0 1864.0 1864.0 0.0 7.0 0.0 1864.0 1.0 1864.0 5.0 9.0 734.0 0 t 863.0 3.0 2.0 3.0 0.0 0.0 1.0 1864.0 0.0 93.0 9.0 137.0 0

MA0819.3_shift2 (CLOCK)
; positions_6nt_m4 versus MA0819.3 (CLOCK); m=12/37; ncol2=7; w=0; offset=0; strand=D; shift=2; score=0.584375; --aCACGTG---- ; cor=; Ncor= a 0 0 2009.0 146.0 2009.0 0.0 244.0 7.0 5.0 0 0 0 0 c 0 0 584.0 2009.0 3.0 2009.0 11.0 87.0 1.0 0 0 0 0 g 0 0 383.0 0.0 52.0 4.0 2009.0 6.0 2009.0 0 0 0 0 t 0 0 89.0 0.0 0.0 302.0 0.0 2009.0 52.0 0 0 0 0

MA0664.2_rc_shift3 (MLXIPL_rc)
; positions_6nt_m4 versus MA0664.2_rc (MLXIPL_rc); m=13/37; ncol2=8; w=0; offset=1; strand=R; shift=3; score=0.580302; ---CACGTGay-- ; cor=; Ncor= a 0 0 0 0.0 562.0 0.0 0.0 5.0 0.0 468.0 113.0 0 0 c 0 0 0 727.0 3.0 735.0 12.0 2.0 11.0 133.0 220.0 0 0 g 0 0 0 0.0 0.0 2.0 452.0 0.0 448.0 28.0 31.0 0 0 t 0 0 0 0.0 0.0 20.0 2.0 411.0 0.0 126.0 345.0 0 0

MA1493.1_rc_shift1 (HES6_rc)
; positions_6nt_m4 versus MA1493.1_rc (HES6_rc); m=14/37; ncol2=10; w=-1; offset=-1; strand=R; shift=1; score=0.571988; -rACACGTGCC-- ; cor=; Ncor= a 0 209.0 439.0 0.0 439.0 0.0 16.0 11.0 15.0 13.0 43.0 0 0 c 0 0.0 0.0 439.0 29.0 439.0 9.0 9.0 19.0 439.0 439.0 0 0 g 0 152.0 21.0 0.0 7.0 12.0 439.0 0.0 439.0 35.0 39.0 0 0 t 0 79.0 33.0 0.0 0.0 10.0 2.0 439.0 17.0 16.0 12.0 0 0

MA0663.1_rc_shift1 (MLX_rc)
; positions_6nt_m4 versus MA0663.1_rc (MLX_rc); m=15/37; ncol2=10; w=-1; offset=-1; strand=R; shift=1; score=0.559955; -aTCACGTGAy-- ; cor=; Ncor= a 0 235.0 16.0 5.0 315.0 1.0 0.0 0.0 4.0 322.0 41.0 0 0 c 0 6.0 35.0 555.0 1.0 558.0 0.0 6.0 3.0 61.0 110.0 0 0 g 0 84.0 9.0 0.0 1.0 0.0 257.0 0.0 251.0 17.0 4.0 0 0 t 0 23.0 240.0 2.0 2.0 1.0 0.0 234.0 3.0 0.0 177.0 0 0

MA0632.3_shift2 (TCFL5)
; positions_6nt_m4 versus MA0632.3 (TCFL5); m=16/37; ncol2=8; w=0; offset=0; strand=D; shift=2; score=0.553779; --kCrCGCGC--- ; cor=; Ncor= a 0 0 2810.0 0.0 72543.0 0.0 1566.0 1765.0 3520.0 1593.0 0 0 0 c 0 0 10582.0 72543.0 0.0 72543.0 0.0 57092.0 657.0 72543.0 0 0 0 g 0 0 22297.0 0.0 29710.0 0.0 72543.0 0.0 72543.0 4594.0 0 0 0 t 0 0 36854.0 0.0 9359.0 1643.0 0.0 15451.0 0.0 635.0 0 0 0

MA0636.1_rc_shift1 (BHLHE41_rc)
; positions_6nt_m4 versus MA0636.1_rc (BHLHE41_rc); m=17/37; ncol2=10; w=-1; offset=-1; strand=R; shift=1; score=0.548071; -gTCACGTGAy-- ; cor=; Ncor= a 0 1963.0 23.0 0.0 5574.0 0.0 5.0 3.0 1.0 5574.0 59.0 0 0 c 0 985.0 7.0 5574.0 16.0 5574.0 1.0 21.0 3.0 1831.0 5574.0 0 0 g 0 5574.0 1229.0 1.0 16.0 1.0 5574.0 12.0 5574.0 17.0 1046.0 0 0 t 0 74.0 5574.0 1.0 19.0 2.0 1.0 5574.0 2.0 98.0 2894.0 0 0

MA1464.2_rc_shift3 (ARNT2_rc)
; positions_6nt_m4 versus MA1464.2_rc (ARNT2_rc); m=18/37; ncol2=8; w=0; offset=1; strand=R; shift=3; score=0.541639; ---CACGTGay-- ; cor=; Ncor= a 0 0 0 971.0 40622.0 0.0 148.0 460.0 0.0 40622.0 1951.0 0 0 c 0 0 0 40622.0 111.0 40622.0 0.0 532.0 115.0 9525.0 28841.0 0 0 g 0 0 0 0.0 932.0 0.0 40622.0 122.0 40622.0 4901.0 4265.0 0 0 t 0 0 0 14.0 651.0 84.0 0.0 40622.0 505.0 9572.0 11781.0 0 0

MA1106.2_shift4 (HIF1A)
; positions_6nt_m4 versus MA1106.2 (HIF1A); m=19/37; ncol2=6; w=0; offset=2; strand=D; shift=4; score=0.538709; ----ACGTGC--- ; cor=; Ncor= a 0 0 0 0 976.0 0.0 1.0 2.0 84.0 88.0 0 0 0 c 0 0 0 0 0.0 979.0 0.0 33.0 41.0 837.0 0 0 0 g 0 0 0 0 2.0 0.0 979.0 11.0 844.0 20.0 0 0 0 t 0 0 0 0 2.0 1.0 0.0 934.0 11.0 35.0 0 0 0

MA0104.5_shift2 (MYCN)
; positions_6nt_m4 versus MA0104.5 (MYCN); m=20/37; ncol2=8; w=0; offset=0; strand=D; shift=2; score=0.536556; --CCACGTGG--- ; cor=; Ncor= a 0 0 480.0 34.0 6369.0 22.0 323.0 274.0 7.0 420.0 0 0 0 c 0 0 5341.0 6929.0 56.0 6517.0 122.0 285.0 14.0 743.0 0 0 0 g 0 0 743.0 14.0 285.0 122.0 6517.0 56.0 6929.0 5341.0 0 0 0 t 0 0 420.0 7.0 274.0 323.0 22.0 6369.0 34.0 480.0 0 0 0

MA1099.3_rc_shift3 (HES1_rc)
; positions_6nt_m4 versus MA1099.3_rc (HES1_rc); m=21/37; ncol2=8; w=0; offset=1; strand=R; shift=3; score=0.536077; ---CACGyGcc-- ; cor=; Ncor= a 0 0 0 53.0 18526.0 0.0 791.0 232.0 18.0 8007.0 4239.0 0 0 c 0 0 0 18526.0 0.0 18526.0 0.0 9081.0 0.0 18526.0 18526.0 0 0 g 0 0 0 0.0 4057.0 0.0 18526.0 0.0 18526.0 2072.0 3492.0 0 0 t 0 0 0 1.0 253.0 21.0 0.0 9446.0 464.0 5858.0 3321.0 0 0

MA0603.2_rc_shift3 (Arntl_rc)
; positions_6nt_m4 versus MA0603.2_rc (Arntl_rc); m=22/37; ncol2=8; w=0; offset=1; strand=R; shift=3; score=0.529345; ---CACGTGAc-- ; cor=; Ncor= a 0 0 0 48.0 837.0 3.0 24.0 21.0 0.0 752.0 71.0 0 0 c 0 0 0 938.0 51.0 946.0 9.0 10.0 0.0 143.0 558.0 0 0 g 0 0 0 4.0 58.0 3.0 965.0 16.0 997.0 44.0 125.0 0 0 t 0 0 0 9.0 54.0 48.0 2.0 953.0 3.0 62.0 246.0 0 0

MA0004.1_shift3 (Arnt)
; positions_6nt_m4 versus MA0004.1 (Arnt); m=23/37; ncol2=6; w=0; offset=1; strand=D; shift=3; score=0.528741; ---CACGTG---- ; cor=; Ncor= a 0 0 0 4.0 19.0 0.0 0.0 0.0 0.0 0 0 0 0 c 0 0 0 16.0 0.0 20.0 0.0 0.0 0.0 0 0 0 0 g 0 0 0 0.0 1.0 0.0 20.0 0.0 20.0 0 0 0 0 t 0 0 0 0.0 0.0 0.0 0.0 20.0 0.0 0 0 0 0

MA0692.2_shift3 (TFEB)
; positions_6nt_m4 versus MA0692.2 (TFEB); m=24/37; ncol2=8; w=0; offset=1; strand=D; shift=3; score=0.526513; ---CACGTGAy-- ; cor=; Ncor= a 0 0 0 17.0 8715.0 0.0 2762.0 454.0 9.0 8715.0 283.0 0 0 c 0 0 0 8715.0 286.0 8715.0 288.0 169.0 10.0 2342.0 5889.0 0 0 g 0 0 0 0.0 62.0 83.0 8715.0 150.0 8715.0 872.0 558.0 0 0 t 0 0 0 3.0 274.0 1155.0 5.0 8715.0 11.0 807.0 2826.0 0 0

MA0825.2_shift3 (MNT)
; positions_6nt_m4 versus MA0825.2 (MNT); m=25/37; ncol2=6; w=0; offset=1; strand=D; shift=3; score=0.519037; ---CACGTG---- ; cor=; Ncor= a 0 0 0 27.0 681.0 0.0 15.0 0.0 0.0 0 0 0 0 c 0 0 0 681.0 0.0 681.0 0.0 0.0 0.0 0 0 0 0 g 0 0 0 0.0 0.0 7.0 681.0 15.0 681.0 0 0 0 0 t 0 0 0 5.0 21.0 16.0 0.0 681.0 25.0 0 0 0 0

MA0622.2_shift3 (Mlxip)
; positions_6nt_m4 versus MA0622.2 (Mlxip); m=26/37; ncol2=6; w=0; offset=1; strand=D; shift=3; score=0.518024; ---CACGTG---- ; cor=; Ncor= a 0 0 0 0.0 999.0 0.0 0.0 0.0 0.0 0 0 0 0 c 0 0 0 999.0 0.0 999.0 0.0 0.0 0.0 0 0 0 0 g 0 0 0 0.0 0.0 0.0 999.0 0.0 999.0 0 0 0 0 t 0 0 0 0.0 0.0 0.0 0.0 999.0 0.0 0 0 0 0

MA0058.4_rc_shift3 (MAX_rc)
; positions_6nt_m4 versus MA0058.4_rc (MAX_rc); m=27/37; ncol2=6; w=0; offset=1; strand=R; shift=3; score=0.516607; ---CACGTG---- ; cor=; Ncor= a 0 0 0 36.0 6876.0 19.0 229.0 38.0 0.0 0 0 0 0 c 0 0 0 6876.0 20.0 6876.0 7.0 87.0 0.0 0 0 0 0 g 0 0 0 27.0 159.0 39.0 6876.0 0.0 6876.0 0 0 0 0 t 0 0 0 0.0 69.0 329.0 0.0 6876.0 39.0 0 0 0 0

MA0871.3_rc_shift1 (TFEC_rc)
; positions_6nt_m4 versus MA0871.3_rc (TFEC_rc); m=28/37; ncol2=8; w=-1; offset=-1; strand=R; shift=1; score=0.513718; -GTCACGTG---- ; cor=; Ncor= a 0 1052.0 47.0 0.0 7952.0 0.0 210.0 374.0 0.0 0 0 0 0 c 0 58.0 143.0 7952.0 0.0 7952.0 0.0 145.0 3.0 0 0 0 0 g 0 6900.0 411.0 4.0 0.0 0.0 7952.0 0.0 7952.0 0 0 0 0 t 0 17.0 7952.0 0.0 0.0 69.0 0.0 7952.0 0.0 0 0 0 0

MA0830.3_shift2 (TCF4)
; positions_6nt_m4 versus MA0830.3 (TCF4); m=29/37; ncol2=8; w=0; offset=0; strand=D; shift=2; score=0.511691; --gCACCTGc--- ; cor=; Ncor= a 0 0 4168.0 243.0 27023.0 216.0 356.0 372.0 251.0 1694.0 0 0 0 c 0 0 5062.0 28686.0 635.0 26765.0 27724.0 1016.0 540.0 18935.0 0 0 0 g 0 0 18498.0 321.0 1295.0 1733.0 1197.0 679.0 28432.0 5281.0 0 0 0 t 0 0 1737.0 215.0 512.0 751.0 188.0 27398.0 242.0 3555.0 0 0 0

MA0608.1_shift1 (Creb3l2)
; positions_6nt_m4 versus MA0608.1 (Creb3l2); m=30/37; ncol2=9; w=-1; offset=-1; strand=D; shift=1; score=0.510688; -KmCACGTGd--- ; cor=; Ncor= a 0 2.0 250.0 1.0 996.0 1.0 1.0 1.0 1.0 250.0 0 0 0 c 0 2.0 623.0 872.0 1.0 996.0 1.0 1.0 143.0 2.0 0 0 0 g 0 745.0 1.0 126.0 1.0 1.0 996.0 1.0 854.0 250.0 0 0 0 t 0 250.0 126.0 1.0 1.0 1.0 1.0 996.0 1.0 498.0 0 0 0

MA0522.4_shift3 (TCF3)
; positions_6nt_m4 versus MA0522.4 (TCF3); m=31/37; ncol2=7; w=0; offset=1; strand=D; shift=3; score=0.492087; ---CACCTGC--- ; cor=; Ncor= a 0 0 0 469.0 28916.0 309.0 1127.0 380.0 1089.0 295.0 0 0 0 c 0 0 0 29379.0 396.0 28640.0 27199.0 2003.0 1038.0 28742.0 0 0 0 g 0 0 0 708.0 1574.0 1362.0 2652.0 1339.0 28642.0 987.0 0 0 0 t 0 0 0 705.0 375.0 950.0 283.0 27539.0 492.0 1237.0 0 0 0

MA1648.2_shift3 (TCF12)
; positions_6nt_m4 versus MA1648.2 (TCF12); m=32/37; ncol2=7; w=0; offset=1; strand=D; shift=3; score=0.478865; ---CACCTGC--- ; cor=; Ncor= a 0 0 0 955.0 52529.0 744.0 1913.0 1380.0 2819.0 1089.0 0 0 0 c 0 0 0 57848.0 2007.0 55598.0 55765.0 3886.0 2088.0 55061.0 0 0 0 g 0 0 0 1186.0 5607.0 3780.0 3536.0 2625.0 55922.0 2314.0 0 0 0 t 0 0 0 1887.0 1733.0 1754.0 662.0 53985.0 1047.0 3412.0 0 0 0

MA2336.1_rc_shift5 (ZSCAN21_rc)
; positions_6nt_m4 versus MA2336.1_rc (ZSCAN21_rc); m=33/37; ncol2=7; w=0; offset=3; strand=R; shift=5; score= 0.4598; -----AGTGCTT- ; cor=; Ncor= a 0 0 0 0 0 885.0 11.0 11.0 154.0 41.0 10.0 65.0 0 c 0 0 0 0 0 16.0 30.0 22.0 32.0 853.0 25.0 55.0 0 g 0 0 0 0 0 9.0 881.0 21.0 744.0 25.0 16.0 124.0 0 t 0 0 0 0 0 37.0 25.0 893.0 17.0 28.0 896.0 703.0 0

MA1558.2_shift2 (SNAI1)
; positions_6nt_m4 versus MA1558.2 (SNAI1); m=34/37; ncol2=7; w=0; offset=0; strand=D; shift=2; score=0.458495; --rCAGGTG---- ; cor=; Ncor= a 0 0 6993.0 446.0 19982.0 1766.0 72.0 38.0 706.0 0 0 0 0 c 0 0 501.0 19982.0 297.0 517.0 5.0 0.0 0.0 0 0 0 0 g 0 0 12989.0 275.0 91.0 19982.0 19982.0 42.0 19982.0 0 0 0 0 t 0 0 3518.0 340.0 568.0 306.0 28.0 19982.0 311.0 0 0 0 0

MA0259.2_shift4 (ARNT::HIF1A)
; positions_6nt_m4 versus MA0259.2 (ARNT::HIF1A); m=35/37; ncol2=5; w=0; offset=2; strand=D; shift=4; score=0.44664; ----ACGTG---- ; cor=; Ncor= a 0 0 0 0 78.0 0.0 0.0 0.0 0.0 0 0 0 0 c 0 0 0 0 2.0 103.0 0.0 0.0 0.0 0 0 0 0 g 0 0 0 0 23.0 0.0 104.0 0.0 104.0 0 0 0 0 t 0 0 0 0 1.0 1.0 0.0 104.0 0.0 0 0 0 0

MA1108.3_rc_shift3 (MXI1_rc)
; positions_6nt_m4 versus MA1108.3_rc (MXI1_rc); m=36/37; ncol2=6; w=0; offset=1; strand=R; shift=3; score=0.408798; ---CATGTG---- ; cor=; Ncor= a 0 0 0 175.0 21541.0 0.0 468.0 7.0 460.0 0 0 0 0 c 0 0 0 21232.0 0.0 1542.0 18.0 170.0 97.0 0 0 0 0 g 0 0 0 114.0 507.0 0.0 21552.0 1.0 21382.0 0 0 0 0 t 0 0 0 527.0 0.0 20506.0 10.0 21870.0 109.0 0 0 0 0

MA0820.2_rc_shift3 (FIGLA_rc)
; positions_6nt_m4 versus MA0820.2_rc (FIGLA_rc); m=37/37; ncol2=6; w=0; offset=1; strand=R; shift=3; score=0.407122; ---CAGGTG---- ; cor=; Ncor= a 0 0 0 65.0 1780.0 0.0 0.0 14.0 29.0 0 0 0 0 c 0 0 0 1780.0 17.0 311.0 527.0 0.0 0.0 0 0 0 0 g 0 0 0 33.0 0.0 1780.0 1780.0 46.0 1780.0 0 0 0 0 t 0 0 0 36.0 56.0 9.0 0.0 1780.0 0.0 0 0 0 0

One-to-n matrix alignment; reference matrix: positions_6nt_m1_shift4 ; 23 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m1_shift4 (positions_6nt_m1)
; positions_6nt_m1; m=0 (reference); ncol1=11; shift=4; ncol=15; ----ywCCCCCAayc ; Alignment reference a 0 0 0 0 1278 1381 138 72 156 139 84 4559 2672 1224 1273 c 0 0 0 0 1545 1091 4886 4954 4843 4824 4695 168 1000 1674 1681 g 0 0 0 0 989 1147 63 90 109 172 195 184 823 929 1140 t 0 0 0 0 1364 1557 89 60 68 41 202 265 681 1349 1082

MA0155.1_rc_shift4 (INSM1_rc)
; positions_6nt_m1 versus MA0155.1_rc (INSM1_rc); m=1/22; ncol2=12; w=0; offset=0; strand=R; shift=4; score=0.681642; ----ygmCCCCwkrC ; cor=; Ncor= a 0 0 0 0 2.0 5.0 6.0 0.0 0.0 0.0 0.0 8.0 3.0 13.0 4.0 c 0 0 0 0 12.0 0.0 16.0 24.0 24.0 23.0 24.0 0.0 0.0 3.0 20.0 g 0 0 0 0 0.0 16.0 2.0 0.0 0.0 1.0 0.0 0.0 15.0 8.0 0.0 t 0 0 0 0 10.0 3.0 0.0 0.0 0.0 0.0 0.0 16.0 6.0 0.0 0.0

MA0753.3_shift4 (ZNF740)
; positions_6nt_m1 versus MA0753.3 (ZNF740); m=2/22; ncol2=10; w=0; offset=0; strand=D; shift=4; score=0.664841; ----CCCCCCCCAc- ; cor=; Ncor= a 0 0 0 0 60.0 110.0 18.0 22.0 23.0 10.0 2.0 115.0 1055.0 207.0 0 c 0 0 0 0 1055.0 1055.0 1055.0 1055.0 1055.0 1055.0 1055.0 1055.0 239.0 1055.0 0 g 0 0 0 0 37.0 14.0 4.0 7.0 3.0 7.0 3.0 6.0 68.0 54.0 0 t 0 0 0 0 49.0 1.0 16.0 15.0 11.0 6.0 3.0 4.0 134.0 246.0 0

MA1627.2_shift3 (Wt1)
; positions_6nt_m1 versus MA1627.2 (Wt1); m=3/22; ncol2=10; w=-1; offset=-1; strand=D; shift=3; score=0.599509; ---cCTCCCCCAC-- ; cor=; Ncor= a 0 0 0 839.0 48.0 120.0 21.0 40.0 43.0 850.0 31.0 3294.0 158.0 0 0 c 0 0 0 2948.0 4546.0 69.0 4602.0 4354.0 4252.0 3636.0 4573.0 53.0 3749.0 0 0 g 0 0 0 404.0 58.0 319.0 42.0 75.0 120.0 101.0 46.0 990.0 436.0 0 0 t 0 0 0 500.0 39.0 4183.0 26.0 222.0 276.0 104.0 41.0 354.0 348.0 0 0

MA0737.1_shift3 (GLIS3)
; positions_6nt_m1 versus MA0737.1 (GLIS3); m=4/22; ncol2=14; w=-1; offset=-1; strand=D; shift=3; score=0.575014; ---KACCCCCCACgA ; cor=; Ncor= a 0 0 0 8.0 422.0 0.0 0.0 2.0 0.0 4.0 0.0 886.0 1.0 226.0 529.0 c 0 0 0 41.0 2.0 289.0 280.0 309.0 288.0 200.0 211.0 1.0 204.0 17.0 2.0 g 0 0 0 674.0 13.0 1.0 0.0 0.0 0.0 0.0 0.0 67.0 8.0 648.0 31.0 t 0 0 0 258.0 0.0 1.0 0.0 9.0 1.0 0.0 20.0 9.0 17.0 78.0 87.0

MA0039.5_shift7 (KLF4)
; positions_6nt_m1 versus MA0039.5 (KLF4); m=5/22; ncol2=8; w=0; offset=3; strand=D; shift=7; score= 0.5567; -------CCCCACCC ; cor=; Ncor= a 0 0 0 0 0 0 0 2465.0 2105.0 7021.0 1173.0 45602.0 852.0 1617.0 1202.0 c 0 0 0 0 0 0 0 49209.0 47865.0 45405.0 52875.0 161.0 52366.0 51112.0 51045.0 g 0 0 0 0 0 0 0 1583.0 1214.0 1422.0 793.0 6598.0 1470.0 1870.0 1005.0 t 0 0 0 0 0 0 0 2560.0 4633.0 1969.0 976.0 3456.0 1129.0 1218.0 2565.0

MA0767.2_rc_shift5 (GCM2_rc)
; positions_6nt_m1 versus MA0767.2_rc (GCM2_rc); m=6/22; ncol2=8; w=0; offset=1; strand=R; shift=5; score=0.523425; -----rCCCGCAT-- ; cor=; Ncor= a 0 0 0 0 0 1320.0 0.0 13.0 66.0 127.0 0.0 1320.0 45.0 0 0 c 0 0 0 0 0 91.0 1320.0 1320.0 1320.0 138.0 1320.0 24.0 299.0 0 0 g 0 0 0 0 0 533.0 0.0 0.0 1.0 1320.0 32.0 41.0 77.0 0 0 t 0 0 0 0 0 92.0 1.0 0.0 51.0 84.0 263.0 23.0 1320.0 0 0

MA0735.2_shift2 (GLIS1)
; positions_6nt_m1 versus MA0735.2 (GLIS1); m=7/22; ncol2=15; w=-2; offset=-2; strand=D; shift=2; score=0.519282; --mGACCCCCCACGW ; cor=; Ncor= a 0 0 3236.0 3.0 6314.0 0.0 4.0 0.0 3.0 0.0 6.0 6781.0 0.0 7.0 5759.0 c 0 0 1842.0 44.0 0.0 4807.0 4769.0 4796.0 4817.0 4702.0 4505.0 3.0 4549.0 0.0 4.0 g 0 0 100.0 8617.0 6.0 2.0 2.0 11.0 5.0 0.0 5.0 160.0 0.0 10081.0 32.0 t 0 0 891.0 1016.0 8.0 0.0 3.0 0.0 2.0 7.0 2.0 6.0 0.0 51.0 2024.0

MA1578.2_shift5 (VEZF1)
; positions_6nt_m1 versus MA1578.2 (VEZF1); m=8/22; ncol2=6; w=0; offset=1; strand=D; shift=5; score=0.512218; -----CCCCCC---- ; cor=; Ncor= a 0 0 0 0 0 71.0 1.0 4.0 2.0 6.0 10.0 0 0 0 0 c 0 0 0 0 0 790.0 997.0 995.0 997.0 989.0 977.0 0 0 0 0 g 0 0 0 0 0 137.0 0.0 0.0 0.0 0.0 3.0 0 0 0 0 t 0 0 0 0 0 0.0 0.0 0.0 0.0 4.0 8.0 0 0 0 0

MA1987.2_rc_shift4 (ZNF701_rc)
; positions_6nt_m1 versus MA1987.2_rc (ZNF701_rc); m=9/22; ncol2=17; w=0; offset=0; strand=R; shift=4; score=0.490143; ----TyCCCCCyttr ; cor=; Ncor= a 0 0 0 0 110.0 27.0 15.0 62.0 15.0 3.0 27.0 86.0 217.0 205.0 265.0 c 0 0 0 0 146.0 455.0 872.0 753.0 920.0 979.0 896.0 384.0 217.0 193.0 146.0 g 0 0 0 0 51.0 86.0 3.0 3.0 51.0 3.0 3.0 98.0 122.0 158.0 503.0 t 0 0 0 0 693.0 432.0 110.0 182.0 15.0 15.0 74.0 432.0 443.0 443.0 86.0

MA1630.3_rc_shift1 (ZNF281_rc)
; positions_6nt_m1 versus MA1630.3_rc (ZNF281_rc); m=10/22; ncol2=10; w=-3; offset=-3; strand=R; shift=1; score=0.467465; -CCCCTCCCCC---- ; cor=; Ncor= a 0 7.0 18.0 1.0 105.0 96.0 1.0 1.0 1.0 1.0 1.0 0 0 0 0 c 0 920.0 940.0 998.0 772.0 1.0 998.0 998.0 963.0 998.0 998.0 0 0 0 0 g 0 27.0 1.0 1.0 1.0 183.0 1.0 1.0 1.0 1.0 1.0 0 0 0 0 t 0 47.0 41.0 1.0 122.0 720.0 1.0 1.0 35.0 1.0 1.0 0 0 0 0

MA1548.2_shift3 (PLAGL2)
; positions_6nt_m1 versus MA1548.2 (PLAGL2); m=11/22; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.458662; ---GGGCCCCC---- ; cor=; Ncor= a 0 0 0 39.0 0.0 0.0 0.0 0.0 0.0 0.0 90.0 0 0 0 0 c 0 0 0 39.0 0.0 151.0 799.0 999.0 999.0 925.0 684.0 0 0 0 0 g 0 0 0 813.0 999.0 848.0 200.0 0.0 0.0 0.0 25.0 0 0 0 0 t 0 0 0 107.0 0.0 0.0 0.0 0.0 0.0 74.0 198.0 0 0 0 0

MA0695.2_shift3 (ZBTB7C)
; positions_6nt_m1 versus MA0695.2 (ZBTB7C); m=12/22; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.427002; ---cgACCACC---- ; cor=; Ncor= a 0 0 0 183.0 351.0 1018.0 39.0 0.0 1018.0 18.0 90.0 0 0 0 0 c 0 0 0 1018.0 128.0 225.0 1018.0 1018.0 269.0 1018.0 1018.0 0 0 0 0 g 0 0 0 215.0 1018.0 8.0 0.0 5.0 8.0 7.0 54.0 0 0 0 0 t 0 0 0 110.0 137.0 24.0 0.0 14.0 10.0 17.0 90.0 0 0 0 0

MA1515.2_shift3 (KLF2)
; positions_6nt_m1 versus MA1515.2 (KLF2); m=13/22; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.423117; ---CCmCrCCC---- ; cor=; Ncor= a 0 0 0 741.0 403.0 4622.0 0.0 1702.0 0.0 128.0 68.0 0 0 0 0 c 0 0 0 4622.0 4622.0 2265.0 4622.0 274.0 4622.0 4622.0 4622.0 0 0 0 0 g 0 0 0 495.0 186.0 1060.0 0.0 2920.0 49.0 195.0 105.0 0 0 0 0 t 0 0 0 346.0 312.0 214.0 78.0 167.0 22.0 9.0 444.0 0 0 0 0

MA1117.2_shift3 (RELB)
; positions_6nt_m1 versus MA1117.2 (RELB); m=14/22; ncol2=7; w=-1; offset=-1; strand=D; shift=3; score=0.421854; ---ATTCCCC----- ; cor=; Ncor= a 0 0 0 2833.0 210.0 90.0 144.0 92.0 146.0 79.0 0 0 0 0 0 c 0 0 0 127.0 107.0 103.0 2928.0 3098.0 3013.0 3035.0 0 0 0 0 0 g 0 0 0 157.0 159.0 53.0 40.0 28.0 58.0 107.0 0 0 0 0 0 t 0 0 0 173.0 2814.0 3044.0 178.0 72.0 73.0 69.0 0 0 0 0 0

MA2341.1_shift8 (FEZF2)
; positions_6nt_m1 versus MA2341.1 (FEZF2); m=15/22; ncol2=8; w=0; offset=4; strand=D; shift=8; score=0.413345; --------CCCAGCC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 17.0 5.0 4.0 231.0 6.0 8.0 7.0 c 0 0 0 0 0 0 0 0 202.0 206.0 258.0 15.0 8.0 224.0 247.0 g 0 0 0 0 0 0 0 0 10.0 9.0 0.0 14.0 251.0 28.0 2.0 t 0 0 0 0 0 0 0 0 36.0 45.0 3.0 5.0 0.0 5.0 9.0

MA1604.2_shift8 (Ebf2)
; positions_6nt_m1 versus MA1604.2 (Ebf2); m=16/22; ncol2=9; w=0; offset=4; strand=D; shift=8; score=0.412817; --------CCCAAGG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 196.0 513.0 435.0 19235.0 19155.0 737.0 1276.0 c 0 0 0 0 0 0 0 0 25497.0 24252.0 25137.0 3744.0 1347.0 239.0 220.0 g 0 0 0 0 0 0 0 0 376.0 259.0 242.0 1427.0 3635.0 25103.0 24386.0 t 0 0 0 0 0 0 0 0 192.0 1237.0 447.0 1855.0 2124.0 182.0 379.0

MA1959.2_rc_shift3 (KLF7_rc)
; positions_6nt_m1 versus MA1959.2_rc (KLF7_rc); m=17/22; ncol2=8; w=-1; offset=-1; strand=R; shift=3; score=0.41211; ---CcMCGCCC---- ; cor=; Ncor= a 0 0 0 1.0 167.0 254.0 1.0 167.0 1.0 1.0 1.0 0 0 0 0 c 0 0 0 997.0 642.0 720.0 997.0 1.0 997.0 997.0 997.0 0 0 0 0 g 0 0 0 1.0 42.0 25.0 1.0 788.0 1.0 1.0 1.0 0 0 0 0 t 0 0 0 1.0 150.0 1.0 1.0 45.0 1.0 1.0 1.0 0 0 0 0

MA1644.2_shift9 (NFYC)
; positions_6nt_m1 versus MA1644.2 (NFYC); m=18/22; ncol2=7; w=0; offset=5; strand=D; shift=9; score=0.410655; ---------CCAATC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 287.0 380.0 12776.0 12317.0 259.0 532.0 c 0 0 0 0 0 0 0 0 0 12507.0 12880.0 325.0 376.0 374.0 11224.0 g 0 0 0 0 0 0 0 0 0 394.0 111.0 103.0 549.0 71.0 1464.0 t 0 0 0 0 0 0 0 0 0 428.0 245.0 412.0 374.0 12912.0 396.0

MA0493.3_rc_shift3 (KLF1_rc)
; positions_6nt_m1 versus MA0493.3_rc (KLF1_rc); m=19/22; ncol2=8; w=-1; offset=-1; strand=R; shift=3; score=0.410368; ---CCmCrCCC---- ; cor=; Ncor= a 0 0 0 1.0 21.0 324.0 1.0 346.0 1.0 1.0 1.0 0 0 0 0 c 0 0 0 998.0 896.0 675.0 998.0 1.0 998.0 998.0 998.0 0 0 0 0 g 0 0 0 1.0 1.0 1.0 1.0 529.0 1.0 1.0 1.0 0 0 0 0 t 0 0 0 1.0 82.0 1.0 1.0 125.0 1.0 1.0 1.0 0 0 0 0

MA1637.2_shift8 (EBF3)
; positions_6nt_m1 versus MA1637.2 (EBF3); m=20/22; ncol2=9; w=0; offset=4; strand=D; shift=8; score=0.408265; --------CCCAAGG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 219.0 382.0 336.0 15089.0 15926.0 515.0 881.0 c 0 0 0 0 0 0 0 0 21297.0 20681.0 21017.0 3634.0 1150.0 260.0 230.0 g 0 0 0 0 0 0 0 0 361.0 261.0 324.0 1436.0 3374.0 21188.0 20589.0 t 0 0 0 0 0 0 0 0 185.0 738.0 385.0 1903.0 1612.0 99.0 362.0

MA0741.1_shift0 (KLF16)
; positions_6nt_m1 versus MA0741.1 (KLF16); m=21/22; ncol2=11; w=-4; offset=-4; strand=D; shift=0; score=0.405945; gmCMCgCCCMC---- ; cor=; Ncor= a 666.0 901.0 62.0 1150.0 66.0 497.0 8.0 2.0 16.0 437.0 32.0 0 0 0 0 c 535.0 1612.0 1612.0 461.0 1612.0 173.0 1612.0 1612.0 1612.0 1175.0 1612.0 0 0 0 0 g 1612.0 77.0 6.0 32.0 17.0 1612.0 0.0 8.0 3.0 19.0 23.0 0 0 0 0 t 240.0 116.0 45.0 0.0 19.0 403.0 0.0 0.0 97.0 40.0 370.0 0 0 0 0

MA0747.2_shift1 (SP8)
; positions_6nt_m1 versus MA0747.2 (SP8); m=22/22; ncol2=11; w=-3; offset=-3; strand=D; shift=1; score=0.402757; -mCACgCCCmCy--- ; cor=; Ncor= a 0 54.0 25.0 133.0 7.0 25.0 5.0 2.0 0.0 90.0 13.0 31.0 0 0 0 c 0 113.0 167.0 33.0 167.0 37.0 167.0 167.0 167.0 77.0 167.0 52.0 0 0 0 g 0 0.0 0.0 1.0 1.0 167.0 6.0 3.0 4.0 6.0 21.0 1.0 0 0 0 t 0 4.0 13.0 2.0 5.0 39.0 2.0 0.0 15.0 3.0 39.0 82.0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m5_shift3 ; 10 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m5_shift3 (oligos_6nt_mkv4_m5)
; oligos_6nt_mkv4_m5; m=0 (reference); ncol1=10; shift=3; ncol=13; ---yyCTGTGAkb ; Alignment reference a 0 0 0 1303 1412 86 40 33 69 42 6357 1418 1469 c 0 0 0 1968 1755 6489 683 9 373 50 193 1545 1717 g 0 0 0 1292 1641 151 627 6694 63 6599 60 1972 1779 t 0 0 0 2195 1950 32 5408 22 6253 67 148 1823 1793

MA0038.3_rc_shift3 (GFI1_rc)
; oligos_6nt_mkv4_m5 versus MA0038.3_rc (GFI1_rc); m=1/9; ncol2=11; w=0; offset=0; strand=R; shift=3; score=0.657347; ---tGChGTGATT ; cor=; Ncor= a 0 0 0 4134.0 3702.0 888.0 13996.0 0.0 1594.0 10.0 30161.0 1.0 0.0 c 0 0 0 4079.0 0.0 27514.0 8349.0 3888.0 0.0 0.0 0.0 0.0 0.0 g 0 0 0 5221.0 27891.0 266.0 54.0 27769.0 0.0 30139.0 0.0 0.0 2.0 t 0 0 0 16713.0 292.0 2294.0 7748.0 838.0 29255.0 15.0 0.0 30150.0 30168.0

MA0483.2_rc_shift4 (Gfi1B_rc)
; oligos_6nt_mkv4_m5 versus MA0483.2_rc (Gfi1B_rc); m=2/9; ncol2=10; w=0; offset=1; strand=R; shift=4; score=0.584354; ----GCwGwGATT ; cor=; Ncor= a 0 0 0 0 215.0 27.0 644.0 0.0 707.0 0.0 1395.0 0.0 0.0 c 0 0 0 0 76.0 1676.0 1.0 388.0 0.0 0.0 28.0 2.0 0.0 g 0 0 0 0 1328.0 1.0 0.0 1312.0 21.0 1761.0 338.0 0.0 0.0 t 0 0 0 0 142.0 57.0 1116.0 61.0 1033.0 0.0 0.0 1759.0 1761.0

MA0774.1_rc_shift4 (MEIS2_rc)
; oligos_6nt_mkv4_m5 versus MA0774.1_rc (MEIS2_rc); m=3/9; ncol2=8; w=0; offset=1; strand=R; shift=4; score=0.569126; ----sCTGTCAa- ; cor=; Ncor= a 0 0 0 0 88.0 67.0 0.0 5.0 62.0 0.0 1351.0 1351.0 0 c 0 0 0 0 650.0 1351.0 4.0 0.0 25.0 1351.0 40.0 314.0 0 g 0 0 0 0 701.0 98.0 7.0 1351.0 3.0 0.0 3.0 264.0 0 t 0 0 0 0 157.0 83.0 1351.0 9.0 1351.0 0.0 31.0 408.0 0

MA0769.3_shift5 (TCF7)
; oligos_6nt_mkv4_m5 versus MA0769.3 (TCF7); m=4/9; ncol2=7; w=0; offset=2; strand=D; shift=5; score=0.51927; -----CTTTGAw- ; cor=; Ncor= a 0 0 0 0 0 252.0 246.0 302.0 360.0 266.0 14577.0 4421.0 0 c 0 0 0 0 0 14379.0 125.0 248.0 62.0 278.0 63.0 855.0 0 g 0 0 0 0 0 206.0 67.0 266.0 83.0 13972.0 115.0 1220.0 0 t 0 0 0 0 0 157.0 14556.0 14178.0 14489.0 478.0 239.0 8498.0 0

MA1629.2_rc_shift1 (Zic2_rc)
; oligos_6nt_mkv4_m5 versus MA1629.2_rc (Zic2_rc); m=5/9; ncol2=9; w=-2; offset=-2; strand=R; shift=1; score=0.473084; -CCTGCTGtG--- ; cor=; Ncor= a 0 154.0 410.0 441.0 298.0 67.0 268.0 120.0 2437.0 240.0 0 0 0 c 0 11465.0 11184.0 735.0 269.0 11484.0 186.0 188.0 829.0 585.0 0 0 0 g 0 204.0 133.0 118.0 11272.0 228.0 391.0 11476.0 1765.0 9933.0 0 0 0 t 0 96.0 192.0 10625.0 80.0 140.0 11074.0 135.0 6888.0 1161.0 0 0 0

MA1593.2_rc_shift1 (ZNF317_rc)
; oligos_6nt_mkv4_m5 versus MA1593.2_rc (ZNF317_rc); m=6/9; ncol2=8; w=-2; offset=-2; strand=R; shift=1; score=0.414664; -TCTGCTGT---- ; cor=; Ncor= a 0 224.0 263.0 1601.0 237.0 206.0 717.0 178.0 1245.0 0 0 0 0 c 0 206.0 10730.0 289.0 223.0 10374.0 317.0 183.0 480.0 0 0 0 0 g 0 208.0 186.0 250.0 10608.0 192.0 85.0 10821.0 357.0 0 0 0 0 t 0 10825.0 284.0 9323.0 395.0 691.0 10344.0 281.0 9381.0 0 0 0 0

MA1646.2_rc_shift1 (OSR2_rc)
; oligos_6nt_mkv4_m5 versus MA1646.2_rc (OSR2_rc); m=7/9; ncol2=8; w=-2; offset=-2; strand=R; shift=1; score=0.409683; -GCTTCTGt---- ; cor=; Ncor= a 0 1192.0 240.0 279.0 1526.0 157.0 275.0 211.0 1950.0 0 0 0 0 c 0 841.0 13982.0 516.0 901.0 14206.0 737.0 406.0 2117.0 0 0 0 0 g 0 12109.0 170.0 288.0 703.0 229.0 197.0 13937.0 2221.0 0 0 0 0 t 0 666.0 416.0 13725.0 11678.0 216.0 13599.0 254.0 8520.0 0 0 0 0

MA1523.2_rc_shift7 (MSANTD3_rc)
; oligos_6nt_mkv4_m5 versus MA1523.2_rc (MSANTD3_rc); m=8/9; ncol2=7; w=0; offset=4; strand=R; shift=7; score=0.401453; -------kTGAGT ; cor=; Ncor= a 0 0 0 0 0 0 0 96.0 59.0 60.0 954.0 45.0 16.0 c 0 0 0 0 0 0 0 63.0 24.0 29.0 0.0 27.0 2.0 g 0 0 0 0 0 0 0 568.0 140.0 862.0 7.0 896.0 0.0 t 0 0 0 0 0 0 0 271.0 775.0 47.0 37.0 31.0 980.0

MA2327.1_shift0 (PGR)
; oligos_6nt_mkv4_m5 versus MA2327.1 (PGR); m=9/9; ncol2=9; w=-3; offset=-3; strand=D; shift=0; score=0.400103; ACAkwmTGT---- ; cor=; Ncor= a 29390.0 299.0 27485.0 5276.0 8275.0 8527.0 328.0 765.0 173.0 0 0 0 0 c 121.0 28612.0 363.0 6470.0 6654.0 9602.0 1695.0 185.0 190.0 0 0 0 0 g 189.0 185.0 1689.0 9598.0 6656.0 6465.0 364.0 28617.0 122.0 0 0 0 0 t 164.0 768.0 327.0 8520.0 8279.0 5270.0 27477.0 297.0 29379.0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m2_shift7 ; 15 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m2_shift7 (oligos_6nt_mkv4_m2)
; oligos_6nt_mkv4_m2; m=0 (reference); ncol1=10; shift=7; ncol=17; -------amACTGAAaa ; Alignment reference a 0 0 0 0 0 0 0 3064 2447 6102 12 38 24 6128 6121 2576 2614 c 0 0 0 0 0 0 0 771 1857 4 6187 223 9 24 65 1166 986 g 0 0 0 0 0 0 0 1146 1006 69 16 291 6160 12 19 1525 1488 t 0 0 0 0 0 0 0 1238 909 44 4 5667 26 55 14 952 1131

MA0050.4_shift5 (Irf1)
; oligos_6nt_mkv4_m2 versus MA0050.4 (Irf1); m=1/14; ncol2=11; w=-2; offset=-2; strand=D; shift=5; score=0.651842; -----tGAAAcTGAAA- ; cor=; Ncor= a 0 0 0 0 0 3724.0 1661.0 13772.0 14795.0 14878.0 1939.0 1900.0 1017.0 14145.0 14424.0 14172.0 0 c 0 0 0 0 0 1292.0 637.0 361.0 253.0 176.0 9822.0 933.0 314.0 298.0 353.0 365.0 0 g 0 0 0 0 0 2035.0 12682.0 1024.0 258.0 240.0 3315.0 274.0 14013.0 775.0 499.0 607.0 0 t 0 0 0 0 0 8589.0 660.0 483.0 334.0 346.0 564.0 12533.0 296.0 422.0 364.0 496.0 0

MA1709.2_shift7 (ZIM3)
; oligos_6nt_mkv4_m2 versus MA1709.2 (ZIM3); m=2/14; ncol2=11; w=0; offset=0; strand=D; shift=7; score=0.645353; -------mAACAGAAAc ; cor=; Ncor= a 0 0 0 0 0 0 0 5336.0 16896.0 16502.0 853.0 17067.0 194.0 15879.0 16933.0 14228.0 2482.0 c 0 0 0 0 0 0 0 8338.0 118.0 107.0 15856.0 38.0 72.0 840.0 90.0 306.0 7474.0 g 0 0 0 0 0 0 0 1327.0 106.0 229.0 435.0 39.0 16877.0 165.0 110.0 575.0 3674.0 t 0 0 0 0 0 0 0 2219.0 100.0 382.0 76.0 76.0 77.0 336.0 87.0 2111.0 3590.0

MA1623.2_shift6 (Stat2)
; oligos_6nt_mkv4_m2 versus MA1623.2 (Stat2); m=3/14; ncol2=10; w=-1; offset=-1; strand=D; shift=6; score=0.623259; ------gAAACAGAAA- ; cor=; Ncor= a 0 0 0 0 0 0 969.0 3554.0 3736.0 3738.0 286.0 3146.0 152.0 3700.0 3747.0 3514.0 0 c 0 0 0 0 0 0 306.0 76.0 75.0 72.0 2907.0 151.0 45.0 49.0 45.0 147.0 0 g 0 0 0 0 0 0 2287.0 168.0 71.0 87.0 524.0 74.0 3707.0 163.0 98.0 157.0 0 t 0 0 0 0 0 0 397.0 161.0 77.0 62.0 242.0 588.0 55.0 47.0 69.0 141.0 0

MA0652.2_shift5 (IRF8)
; oligos_6nt_mkv4_m2 versus MA0652.2 (IRF8); m=4/14; ncol2=13; w=-2; offset=-2; strand=D; shift=5; score=0.562174; -----CGAAACCGAAAC ; cor=; Ncor= a 0 0 0 0 0 63.0 3.0 5878.0 5878.0 5878.0 54.0 6.0 0.0 5878.0 5878.0 5878.0 11.0 c 0 0 0 0 0 5878.0 0.0 2.0 0.0 0.0 5878.0 5878.0 0.0 0.0 0.0 5.0 5878.0 g 0 0 0 0 0 19.0 5878.0 0.0 0.0 0.0 580.0 0.0 5878.0 3.0 2.0 0.0 1061.0 t 0 0 0 0 0 884.0 2.0 0.0 33.0 3.0 6.0 1228.0 0.0 0.0 68.0 0.0 15.0

MA0517.2_rc_shift5 (STAT1::STAT2_rc)
; oligos_6nt_mkv4_m2 versus MA0517.2_rc (STAT1::STAT2_rc); m=5/14; ncol2=13; w=-2; offset=-2; strand=R; shift=5; score=0.547854; -----rGRAAmyGAAAC ; cor=; Ncor= a 0 0 0 0 0 191.0 107.0 442.0 608.0 593.0 241.0 99.0 39.0 600.0 615.0 618.0 2.0 c 0 0 0 0 0 36.0 9.0 4.0 0.0 10.0 161.0 191.0 0.0 4.0 0.0 0.0 467.0 g 0 0 0 0 0 365.0 489.0 170.0 2.0 13.0 111.0 75.0 581.0 13.0 2.0 2.0 148.0 t 0 0 0 0 0 28.0 15.0 4.0 10.0 4.0 107.0 255.0 0.0 3.0 3.0 0.0 3.0

MA0772.2_shift5 (IRF7)
; oligos_6nt_mkv4_m2 versus MA0772.2 (IRF7); m=6/14; ncol2=13; w=-2; offset=-2; strand=D; shift=5; score=0.544209; -----CGAAAryGAAAv ; cor=; Ncor= a 0 0 0 0 0 97.0 36.0 957.0 957.0 957.0 279.0 8.0 30.0 957.0 957.0 957.0 1184.0 c 0 0 0 0 0 957.0 67.0 3.0 0.0 2.0 156.0 582.0 3.0 16.0 3.0 10.0 957.0 g 0 0 0 0 0 50.0 957.0 1.0 0.0 1.0 505.0 2.0 957.0 4.0 3.0 7.0 1235.0 t 0 0 0 0 0 46.0 90.0 0.0 1.0 1.0 17.0 375.0 7.0 5.0 1.0 41.0 301.0

MA1155.1_shift2 (ZSCAN4)
; oligos_6nt_mkv4_m2 versus MA1155.1 (ZSCAN4); m=7/14; ncol2=15; w=-5; offset=-5; strand=D; shift=2; score=0.522338; --tGCACACmCTGaAAa ; cor=; Ncor= a 0 0 257.0 290.0 0.0 1292.0 0.0 1281.0 3.0 772.0 7.0 8.0 3.0 1118.0 1225.0 1269.0 1000.0 c 0 0 383.0 2.0 1676.0 0.0 1665.0 0.0 1702.0 374.0 1684.0 11.0 50.0 107.0 279.0 0.0 200.0 g 0 0 112.0 1737.0 1.0 0.0 0.0 2.0 0.0 320.0 0.0 75.0 1873.0 230.0 0.0 2.0 365.0 t 0 0 1373.0 0.0 0.0 2.0 0.0 2.0 73.0 8.0 2.0 1699.0 218.0 362.0 6.0 1.0 229.0

MA1420.1_shift4 (IRF5)
; oligos_6nt_mkv4_m2 versus MA1420.1 (IRF5); m=8/14; ncol2=14; w=-3; offset=-3; strand=D; shift=4; score=0.52137; ----cCGAAACCGAAmC ; cor=; Ncor= a 0 0 0 0 35.0 10.0 15.0 223.0 224.0 225.0 1.0 0.0 105.0 224.0 206.0 223.0 29.0 c 0 0 0 0 169.0 177.0 3.0 2.0 5.0 0.0 180.0 182.0 30.0 11.0 6.0 84.0 171.0 g 0 0 0 0 22.0 17.0 357.0 6.0 4.0 5.0 0.0 0.0 365.0 7.0 25.0 12.0 25.0 t 0 0 0 0 42.0 38.0 21.0 7.0 44.0 1.0 4.0 37.0 8.0 1.0 40.0 15.0 22.0

MA0063.3_shift8 (NKX2-5)
; oligos_6nt_mkv4_m2 versus MA0063.3 (NKX2-5); m=9/14; ncol2=7; w=0; offset=1; strand=D; shift=8; score=0.515166; --------CACTCAA-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 96.0 5246.0 144.0 135.0 222.0 4819.0 4931.0 0 0 c 0 0 0 0 0 0 0 0 5002.0 48.0 5098.0 82.0 4319.0 120.0 165.0 0 0 g 0 0 0 0 0 0 0 0 24.0 76.0 49.0 61.0 62.0 217.0 98.0 0 0 t 0 0 0 0 0 0 0 0 322.0 74.0 153.0 5166.0 841.0 288.0 250.0 0 0

MA1419.2_shift5 (IRF4)
; oligos_6nt_mkv4_m2 versus MA1419.2 (IRF4); m=10/14; ncol2=14; w=-2; offset=-2; strand=D; shift=5; score=0.506873; -----CGAAACCGAAAC ; cor=; Ncor= a 0 0 0 0 0 364.0 350.0 45331.0 45331.0 45331.0 187.0 27.0 57.0 45331.0 45331.0 45331.0 829.0 c 0 0 0 0 0 45331.0 66.0 124.0 8.0 6.0 45331.0 45331.0 6.0 46.0 11.0 15.0 45331.0 g 0 0 0 0 0 87.0 45331.0 91.0 25.0 4.0 593.0 4.0 45331.0 7.0 23.0 4.0 4251.0 t 0 0 0 0 0 5937.0 31.0 112.0 444.0 8.0 497.0 3801.0 3.0 5.0 1002.0 13.0 80.0

MA0653.1_shift3 (IRF9)
; oligos_6nt_mkv4_m2 versus MA0653.1 (IRF9); m=11/14; ncol2=15; w=-4; offset=-4; strand=D; shift=3; score=0.486427; ---AwCGAAACCGAAAC ; cor=; Ncor= a 0 0 0 3467.0 2392.0 49.0 43.0 3467.0 3467.0 3467.0 43.0 16.0 2.0 3467.0 3467.0 3467.0 4.0 c 0 0 0 52.0 498.0 3467.0 3.0 5.0 0.0 2.0 3467.0 3467.0 0.0 2.0 1.0 0.0 3467.0 g 0 0 0 43.0 204.0 33.0 3467.0 1.0 0.0 0.0 197.0 0.0 3467.0 0.0 0.0 0.0 239.0 t 0 0 0 110.0 1076.0 118.0 5.0 0.0 3.0 1.0 9.0 831.0 1.0 0.0 21.0 3.0 2.0

MA0100.4_shift7 (MYB)
; oligos_6nt_mkv4_m2 versus MA0100.4 (MYB); m=12/14; ncol2=6; w=0; offset=0; strand=D; shift=7; score=0.480571; -------CAACTG---- ; cor=; Ncor= a 0 0 0 0 0 0 0 0.0 1478.0 1519.0 0.0 1.0 8.0 0 0 0 0 c 0 0 0 0 0 0 0 1513.0 3.0 2.0 1527.0 60.0 3.0 0 0 0 0 g 0 0 0 0 0 0 0 5.0 39.0 0.0 0.0 68.0 1516.0 0 0 0 0 t 0 0 0 0 0 0 0 9.0 7.0 6.0 0.0 1398.0 0.0 0 0 0 0

MA1418.2_shift0 (IRF3)
; oligos_6nt_mkv4_m2 versus MA1418.2 (IRF3); m=13/14; ncol2=17; w=-7; offset=-7; strand=D; shift=0; score=0.428181; rrAAmGGAAACCGAAAC ; cor=; Ncor= a 8451.0 12887.0 18311.0 19157.0 14210.0 288.0 154.0 19385.0 19350.0 19428.0 423.0 711.0 394.0 19322.0 19386.0 19410.0 569.0 c 700.0 17.0 83.0 214.0 14600.0 7338.0 14.0 15.0 15.0 22.0 18363.0 18316.0 8.0 137.0 51.0 84.0 17758.0 g 14773.0 9047.0 3484.0 193.0 5575.0 26852.0 27999.0 55.0 59.0 43.0 1150.0 3396.0 27995.0 83.0 36.0 56.0 3274.0 t 2099.0 629.0 2153.0 377.0 6865.0 3058.0 19.0 10.0 54.0 324.0 864.0 2348.0 8.0 26.0 486.0 787.0 516.0

MA0693.4_rc_shift11 (Vdr_rc)
; oligos_6nt_mkv4_m2 versus MA0693.4_rc (Vdr_rc); m=14/14; ncol2=7; w=0; offset=4; strand=R; shift=11; score=0.414732; -----------TGAACT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 750.0 2057.0 35628.0 35489.0 1110.0 813.0 c 0 0 0 0 0 0 0 0 0 0 0 826.0 406.0 574.0 1555.0 36028.0 1137.0 g 0 0 0 0 0 0 0 0 0 0 0 661.0 34477.0 655.0 520.0 599.0 644.0 t 0 0 0 0 0 0 0 0 0 0 0 36305.0 1602.0 1685.0 978.0 805.0 35948.0

One-to-n matrix alignment; reference matrix: positions_6nt_m5_shift1 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m5_shift1 (positions_6nt_m5)
; positions_6nt_m5; m=0 (reference); ncol1=12; shift=1; ncol=13; -csGtCGCGaCsg ; Alignment reference a 0 272 221 187 102 79 63 68 35 823 83 250 233 c 0 481 371 106 217 1034 91 1061 127 132 894 430 295 g 0 293 430 901 131 128 1052 88 1035 215 111 373 481 t 0 231 255 83 827 36 71 60 80 107 189 224 268

MA0749.2_rc_shift0 (ZBED1_rc)
; positions_6nt_m5 versus MA0749.2_rc (ZBED1_rc); m=1/2; ncol2=12; w=-1; offset=-1; strand=R; shift=0; score=0.64978; yATGTCGCGAyA- ; cor=; Ncor= a 608.0 5055.0 144.0 865.0 0.0 0.0 110.0 2.0 18.0 5510.0 8.0 5321.0 0 c 1876.0 635.0 10.0 0.0 12.0 6013.0 0.0 5979.0 6.0 0.0 2065.0 56.0 0 g 270.0 273.0 11.0 4330.0 9.0 4.0 5357.0 3.0 5373.0 8.0 15.0 22.0 0 t 3123.0 118.0 5276.0 6.0 5326.0 4.0 4.0 127.0 0.0 6.0 3841.0 441.0 0

MA1995.2_rc_shift3 (Npas4_rc)
; positions_6nt_m5 versus MA1995.2_rc (Npas4_rc); m=2/2; ncol2=7; w=0; offset=2; strand=R; shift=3; score=0.436912; ---GTCACGA--- ; cor=; Ncor= a 0 0 0 617.0 511.0 118.0 8479.0 126.0 333.0 7226.0 0 0 0 c 0 0 0 647.0 367.0 8602.0 251.0 7969.0 580.0 702.0 0 0 0 g 0 0 0 7292.0 622.0 184.0 106.0 350.0 7713.0 492.0 0 0 0 t 0 0 0 404.0 7460.0 56.0 124.0 515.0 334.0 540.0 0 0 0

One-to-n matrix alignment; reference matrix: positions_7nt_m1_shift0 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m1_shift0 (positions_7nt_m1)
; positions_7nt_m1; m=0 (reference); ncol1=12; shift=0; ncol=12; ACACACACACAc ; Alignment reference a 18178 2471 22621 438 23588 401 23613 537 23428 629 18676 2604 c 1818 17097 413 22221 229 22540 233 22527 281 21839 1962 16031 g 2334 1782 915 539 367 547 301 514 324 740 1382 2134 t 2130 3110 511 1262 276 972 313 882 427 1252 2440 3691

MA1107.3_shift1 (KLF9)
; positions_7nt_m1 versus MA1107.3 (KLF9); m=1/2; ncol2=11; w=0; offset=1; strand=D; shift=1; score=0.64784; -gCCACACCCAC ; cor=; Ncor= a 0 2862.0 4664.0 287.0 21899.0 221.0 19187.0 224.0 2428.0 146.0 18837.0 792.0 c 0 4342.0 17839.0 24709.0 2559.0 24863.0 1070.0 24365.0 22117.0 24682.0 4339.0 20644.0 g 0 16852.0 1660.0 291.0 708.0 353.0 4340.0 735.0 605.0 205.0 852.0 1778.0 t 0 1523.0 1416.0 292.0 413.0 142.0 982.0 255.0 429.0 546.0 1551.0 2365.0

MA1523.2_shift3 (MSANTD3)
; positions_7nt_m1 versus MA1523.2 (MSANTD3); m=2/2; ncol2=7; w=0; offset=3; strand=D; shift=3; score=0.432907; ---CACTCAm-- ; cor=; Ncor= a 0 0 0 64.0 980.0 31.0 37.0 47.0 775.0 271.0 0 0 c 0 0 0 723.0 0.0 896.0 7.0 862.0 140.0 568.0 0 0 g 0 0 0 31.0 2.0 27.0 0.0 29.0 24.0 63.0 0 0 t 0 0 0 180.0 16.0 45.0 954.0 60.0 59.0 96.0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m1_shift4 ; 16 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m1_shift4 (oligos_6nt_mkv4_m1)
; oligos_6nt_mkv4_m1; m=0 (reference); ncol1=11; shift=4; ncol=15; ----wyATTTTCawt ; Alignment reference a 0 0 0 0 3044 2292 10859 90 536 472 470 445 6607 3433 2463 c 0 0 0 0 1685 3133 12 34 50 69 66 10225 2621 1826 1842 g 0 0 0 0 1579 2146 54 32 151 98 49 47 120 2520 1854 t 0 0 0 0 5156 3893 539 11308 10727 10825 10879 747 2116 3685 5305

MA0052.5_rc_shift4 (MEF2A_rc)
; oligos_6nt_mkv4_m1 versus MA0052.5_rc (MEF2A_rc); m=1/15; ncol2=10; w=0; offset=0; strand=R; shift=4; score=0.645453; ----CTATTTTTAg- ; cor=; Ncor= a 0 0 0 0 1432.0 108.0 15157.0 831.0 1237.0 835.0 2167.0 1646.0 12325.0 2252.0 0 c 0 0 0 0 11104.0 422.0 215.0 202.0 241.0 506.0 610.0 1066.0 236.0 1007.0 0 g 0 0 0 0 1060.0 50.0 349.0 173.0 231.0 141.0 253.0 1013.0 2974.0 10919.0 0 t 0 0 0 0 2566.0 15582.0 441.0 14956.0 14453.0 14680.0 13132.0 12437.0 627.0 1984.0 0

MA1525.3_rc_shift6 (NFATC4_rc)
; oligos_6nt_mkv4_m1 versus MA1525.3_rc (NFATC4_rc); m=2/15; ncol2=9; w=0; offset=2; strand=R; shift=6; score=0.606657; ------wkTTTCCrt ; cor=; Ncor= a 0 0 0 0 0 0 3012.0 1164.0 107.0 0.0 0.0 0.0 0.0 4553.0 1505.0 c 0 0 0 0 0 0 138.0 1149.0 42.0 0.0 0.0 7139.0 7139.0 43.0 2590.0 g 0 0 0 0 0 0 1280.0 6522.0 460.0 0.0 0.0 0.0 0.0 2586.0 715.0 t 0 0 0 0 0 0 2709.0 7139.0 7139.0 7139.0 7139.0 0.0 0.0 16.0 7139.0

MA0606.3_rc_shift7 (Nfat5_rc)
; oligos_6nt_mkv4_m1 versus MA0606.3_rc (Nfat5_rc); m=3/15; ncol2=8; w=0; offset=3; strand=R; shift=7; score=0.605097; -------TTTTCCAT ; cor=; Ncor= a 0 0 0 0 0 0 0 14.0 10.0 9.0 5.0 7.0 11.0 302.0 13.0 c 0 0 0 0 0 0 0 19.0 8.0 10.0 15.0 325.0 332.0 9.0 47.0 g 0 0 0 0 0 0 0 8.0 4.0 1.0 8.0 8.0 0.0 10.0 17.0 t 0 0 0 0 0 0 0 315.0 334.0 336.0 328.0 16.0 13.0 35.0 279.0

MA0041.3_rc_shift1 (FOXD3_rc)
; oligos_6nt_mkv4_m1 versus MA0041.3_rc (FOXD3_rc); m=4/15; ncol2=14; w=-3; offset=-3; strand=R; shift=1; score=0.584918; -tGTTTRTTTdywtw ; cor=; Ncor= a 0 47.0 30.0 35.0 11.0 7.0 128.0 2.0 7.0 2.0 171.0 10.0 81.0 22.0 85.0 c 0 30.0 13.0 20.0 8.0 2.0 0.0 7.0 0.0 1.0 8.0 115.0 45.0 52.0 13.0 g 0 20.0 171.0 17.0 11.0 4.0 43.0 1.0 8.0 37.0 109.0 17.0 45.0 17.0 22.0 t 0 125.0 13.0 171.0 171.0 171.0 0.0 171.0 171.0 171.0 99.0 56.0 91.0 120.0 86.0

MA2124.1_shift6 (Hmga1)
; oligos_6nt_mkv4_m1 versus MA2124.1 (Hmga1); m=5/15; ncol2=8; w=0; offset=2; strand=D; shift=6; score=0.57936; ------ATTTTTAw- ; cor=; Ncor= a 0 0 0 0 0 0 25051.0 820.0 1034.0 695.0 651.0 770.0 24433.0 9680.0 0 c 0 0 0 0 0 0 71.0 393.0 200.0 194.0 264.0 409.0 473.0 2348.0 0 g 0 0 0 0 0 0 188.0 421.0 303.0 138.0 237.0 294.0 358.0 2438.0 0 t 0 0 0 0 0 0 496.0 24172.0 24269.0 24779.0 24654.0 24333.0 542.0 11340.0 0

MA0627.3_rc_shift6 (POU2F3_rc)
; oligos_6nt_mkv4_m1 versus MA0627.3_rc (POU2F3_rc); m=6/15; ncol2=9; w=0; offset=2; strand=R; shift=6; score=0.573047; ------ATTTGCATa ; cor=; Ncor= a 0 0 0 0 0 0 43338.0 330.0 3276.0 896.0 3716.0 2827.0 53366.0 931.0 37593.0 c 0 0 0 0 0 0 4098.0 233.0 804.0 138.0 1079.0 51971.0 1251.0 354.0 3029.0 g 0 0 0 0 0 0 3478.0 164.0 567.0 80.0 50288.0 251.0 322.0 194.0 6885.0 t 0 0 0 0 0 0 5115.0 55302.0 51382.0 54915.0 946.0 980.0 1090.0 54550.0 8522.0

MA0050.4_rc_shift2 (Irf1_rc)
; oligos_6nt_mkv4_m1 versus MA0050.4_rc (Irf1_rc); m=7/15; ncol2=11; w=-2; offset=-2; strand=R; shift=2; score=0.519092; --TTTCAgTTTCa-- ; cor=; Ncor= a 0 0 496.0 364.0 422.0 296.0 12533.0 564.0 346.0 334.0 483.0 660.0 8589.0 0 0 c 0 0 607.0 499.0 775.0 14013.0 274.0 3315.0 240.0 258.0 1024.0 12682.0 2035.0 0 0 g 0 0 365.0 353.0 298.0 314.0 933.0 9822.0 176.0 253.0 361.0 637.0 1292.0 0 0 t 0 0 14172.0 14424.0 14145.0 1017.0 1900.0 1939.0 14878.0 14795.0 13772.0 1661.0 3724.0 0 0

MA0152.3_rc_shift7 (Nfatc2_rc)
; oligos_6nt_mkv4_m1 versus MA0152.3_rc (Nfatc2_rc); m=8/15; ncol2=8; w=0; offset=3; strand=R; shift=7; score=0.514543; -------TTTCCATt ; cor=; Ncor= a 0 0 0 0 0 0 0 112.0 35.0 41.0 46.0 26.0 2844.0 121.0 321.0 c 0 0 0 0 0 0 0 79.0 45.0 65.0 3133.0 3118.0 101.0 329.0 292.0 g 0 0 0 0 0 0 0 104.0 19.0 38.0 27.0 17.0 124.0 206.0 460.0 t 0 0 0 0 0 0 0 2944.0 3140.0 3095.0 33.0 78.0 170.0 2583.0 2166.0

MA0772.2_rc_shift6 (IRF7_rc)
; oligos_6nt_mkv4_m1 versus MA0772.2_rc (IRF7_rc); m=9/15; ncol2=13; w=0; offset=2; strand=R; shift=6; score=0.470661; ------AbTTTCryT ; cor=; Ncor= a 0 0 0 0 0 0 804.0 301.0 41.0 1.0 5.0 7.0 375.0 17.0 1.0 c 0 0 0 0 0 0 31.0 1235.0 7.0 3.0 4.0 957.0 2.0 505.0 1.0 g 0 0 0 0 0 0 153.0 957.0 10.0 3.0 16.0 3.0 582.0 156.0 2.0 t 0 0 0 0 0 0 160.0 1184.0 957.0 957.0 957.0 30.0 8.0 279.0 957.0

MA0517.2_shift6 (STAT1::STAT2)
; oligos_6nt_mkv4_m1 versus MA0517.2 (STAT1::STAT2); m=10/15; ncol2=13; w=0; offset=2; strand=D; shift=6; score=0.441144; ------AGTTTCrkT ; cor=; Ncor= a 0 0 0 0 0 0 430.0 3.0 0.0 3.0 3.0 0.0 255.0 107.0 4.0 c 0 0 0 0 0 0 7.0 148.0 2.0 2.0 13.0 581.0 75.0 111.0 13.0 g 0 0 0 0 0 0 151.0 467.0 0.0 0.0 4.0 0.0 191.0 161.0 10.0 t 0 0 0 0 0 0 32.0 2.0 618.0 615.0 600.0 39.0 99.0 241.0 593.0

MA0624.3_rc_shift8 (Nfatc1_rc)
; oligos_6nt_mkv4_m1 versus MA0624.3_rc (Nfatc1_rc); m=11/15; ncol2=6; w=0; offset=4; strand=R; shift=8; score=0.436371; --------TTTCCA- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 124.0 39.0 54.0 55.0 17.0 5771.0 0 c 0 0 0 0 0 0 0 0 43.0 32.0 27.0 6058.0 6106.0 65.0 0 g 0 0 0 0 0 0 0 0 77.0 13.0 30.0 16.0 13.0 227.0 0 t 0 0 0 0 0 0 0 0 5947.0 6107.0 6080.0 62.0 55.0 128.0 0

MA0625.3_rc_shift8 (NFATC3_rc)
; oligos_6nt_mkv4_m1 versus MA0625.3_rc (NFATC3_rc); m=12/15; ncol2=6; w=0; offset=4; strand=R; shift=8; score=0.424044; --------tTTCCr- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1089.0 0.0 8.0 0.0 0.0 3553.0 0 c 0 0 0 0 0 0 0 0 475.0 184.0 825.0 5866.0 5866.0 451.0 0 g 0 0 0 0 0 0 0 0 1586.0 0.0 261.0 0.0 0.0 2313.0 0 t 0 0 0 0 0 0 0 0 5866.0 5866.0 5866.0 0.0 0.0 289.0 0

MA1125.2_rc_shift3 (ZNF384_rc)
; oligos_6nt_mkv4_m1 versus MA1125.2_rc (ZNF384_rc); m=13/15; ncol2=8; w=-1; offset=-1; strand=R; shift=3; score=0.411367; ---ttTTTTTT---- ; cor=; Ncor= a 0 0 0 4656.0 4436.0 21.0 191.0 153.0 314.0 188.0 59.0 0 0 0 0 c 0 0 0 2898.0 2767.0 0.0 14.0 15.0 26.0 19.0 13.0 0 0 0 0 g 0 0 0 3963.0 2908.0 6.0 26.0 13.0 21.0 35.0 7.0 0 0 0 0 t 0 0 0 18916.0 20322.0 30406.0 30202.0 30252.0 30072.0 30191.0 30354.0 0 0 0 0

MA1623.2_rc_shift8 (Stat2_rc)
; oligos_6nt_mkv4_m1 versus MA1623.2_rc (Stat2_rc); m=14/15; ncol2=10; w=0; offset=4; strand=R; shift=8; score=0.405568; --------TTTCTGT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 141.0 69.0 47.0 55.0 588.0 242.0 62.0 c 0 0 0 0 0 0 0 0 157.0 98.0 163.0 3707.0 74.0 524.0 87.0 g 0 0 0 0 0 0 0 0 147.0 45.0 49.0 45.0 151.0 2907.0 72.0 t 0 0 0 0 0 0 0 0 3514.0 3747.0 3700.0 152.0 3146.0 286.0 3738.0

MA0757.2_rc_shift0 (ONECUT3_rc)
; oligos_6nt_mkv4_m1 versus MA0757.2_rc (ONECUT3_rc); m=15/15; ncol2=12; w=-4; offset=-4; strand=R; shift=0; score=0.404906; tTATyGATTTTt--- ; cor=; Ncor= a 1182.0 345.0 6080.0 22.0 11.0 5.0 6080.0 11.0 54.0 1221.0 878.0 709.0 0 0 0 c 417.0 187.0 7.0 9.0 2130.0 3.0 14.0 41.0 102.0 112.0 498.0 1141.0 0 0 0 g 861.0 105.0 6.0 6.0 20.0 6080.0 103.0 5.0 28.0 173.0 274.0 379.0 0 0 0 t 3620.0 6080.0 43.0 6080.0 3950.0 23.0 32.0 6080.0 6080.0 6080.0 6080.0 3851.0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m2_shift2 ; 30 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m2_shift2 (oligos_7nt_mkv5_m2)
; oligos_7nt_mkv5_m2; m=0 (reference); ncol1=11; shift=2; ncol=13; --wwAACACAAwh ; Alignment reference a 0 0 2000 2180 5040 5744 131 5872 123 5351 5163 2459 1892 c 0 0 979 688 257 135 5513 76 5576 106 245 1100 1683 g 0 0 1315 879 100 104 48 87 49 171 172 736 988 t 0 0 1859 2406 756 170 461 118 405 525 573 1858 1590

MA1623.2_shift2 (Stat2)
; oligos_7nt_mkv5_m2 versus MA1623.2 (Stat2); m=1/29; ncol2=10; w=0; offset=0; strand=D; shift=2; score=0.639227; --gAAACAGAAA- ; cor=; Ncor= a 0 0 969.0 3554.0 3736.0 3738.0 286.0 3146.0 152.0 3700.0 3747.0 3514.0 0 c 0 0 306.0 76.0 75.0 72.0 2907.0 151.0 45.0 49.0 45.0 147.0 0 g 0 0 2287.0 168.0 71.0 87.0 524.0 74.0 3707.0 163.0 98.0 157.0 0 t 0 0 397.0 161.0 77.0 62.0 242.0 588.0 55.0 47.0 69.0 141.0 0

MA1709.2_shift3 (ZIM3)
; oligos_7nt_mkv5_m2 versus MA1709.2 (ZIM3); m=2/29; ncol2=11; w=0; offset=1; strand=D; shift=3; score=0.628023; ---mAACAGAAAc ; cor=; Ncor= a 0 0 0 5336.0 16896.0 16502.0 853.0 17067.0 194.0 15879.0 16933.0 14228.0 2482.0 c 0 0 0 8338.0 118.0 107.0 15856.0 38.0 72.0 840.0 90.0 306.0 7474.0 g 0 0 0 1327.0 106.0 229.0 435.0 39.0 16877.0 165.0 110.0 575.0 3674.0 t 0 0 0 2219.0 100.0 382.0 76.0 76.0 77.0 336.0 87.0 2111.0 3590.0

MA1989.2_shift2 (Bcl11B)
; oligos_7nt_mkv5_m2 versus MA1989.2 (Bcl11B); m=3/29; ncol2=9; w=0; offset=0; strand=D; shift=2; score=0.603613; --aAACCACAa-- ; cor=; Ncor= a 0 0 24743.0 31408.0 36130.0 1391.0 1058.0 36734.0 1718.0 36053.0 23689.0 0 0 c 0 0 5084.0 2339.0 1397.0 36798.0 37476.0 940.0 35985.0 1397.0 3546.0 0 0 g 0 0 3712.0 3044.0 1662.0 762.0 416.0 796.0 1217.0 1246.0 7120.0 0 0 t 0 0 6252.0 3000.0 602.0 840.0 841.0 1321.0 871.0 1095.0 5436.0 0 0

MA0084.2_shift5 (SRY)
; oligos_7nt_mkv5_m2 versus MA0084.2 (SRY); m=4/29; ncol2=7; w=0; offset=3; strand=D; shift=5; score=0.488563; -----waACAAw- ; cor=; Ncor= a 0 0 0 0 0 15.0 18.0 25.0 0.0 28.0 27.0 7.0 0 c 0 0 0 0 0 0.0 3.0 0.0 26.0 0.0 0.0 0.0 0 g 0 0 0 0 0 3.0 3.0 0.0 0.0 0.0 1.0 2.0 0 t 0 0 0 0 0 10.0 4.0 3.0 2.0 0.0 0.0 19.0 0

MA1152.2_rc_shift7 (SOX15_rc)
; oligos_7nt_mkv5_m2 versus MA1152.2_rc (SOX15_rc); m=5/29; ncol2=7; w=0; offset=5; strand=R; shift=7; score=0.468542; -------ACAAwr ; cor=; Ncor= a 0 0 0 0 0 0 0 971.0 5.0 994.0 988.0 362.0 501.0 c 0 0 0 0 0 0 0 3.0 890.0 2.0 6.0 5.0 26.0 g 0 0 0 0 0 0 0 2.0 21.0 2.0 3.0 3.0 412.0 t 0 0 0 0 0 0 0 24.0 83.0 3.0 3.0 631.0 62.0

MA0868.3_shift6 (SOX8)
; oligos_7nt_mkv5_m2 versus MA0868.3 (SOX8); m=6/29; ncol2=7; w=0; offset=4; strand=D; shift=6; score=0.457384; ------AACAATr ; cor=; Ncor= a 0 0 0 0 0 0 1827.0 1827.0 3.0 1827.0 1827.0 273.0 1356.0 c 0 0 0 0 0 0 151.0 0.0 1827.0 0.0 43.0 36.0 208.0 g 0 0 0 0 0 0 263.0 0.0 35.0 0.0 0.0 20.0 1827.0 t 0 0 0 0 0 0 222.0 45.0 70.0 16.0 36.0 1827.0 287.0

MA0442.3_shift7 (SOX10)
; oligos_7nt_mkv5_m2 versus MA0442.3 (SOX10); m=7/29; ncol2=6; w=0; offset=5; strand=D; shift=7; score=0.449729; -------ACAAAG ; cor=; Ncor= a 0 0 0 0 0 0 0 2023.0 3.0 2029.0 1968.0 1959.0 10.0 c 0 0 0 0 0 0 0 4.0 1989.0 7.0 28.0 23.0 13.0 g 0 0 0 0 0 0 0 3.0 11.0 7.0 20.0 12.0 2012.0 t 0 0 0 0 0 0 0 25.0 52.0 12.0 39.0 61.0 20.0

MA0480.3_shift1 (Foxo1)
; oligos_7nt_mkv5_m2 versus MA0480.3 (Foxo1); m=8/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.434595; -GTAAACA----- ; cor=; Ncor= a 0 1411.0 945.0 12408.0 12663.0 12972.0 293.0 13332.0 0 0 0 0 0 c 0 481.0 555.0 934.0 849.0 387.0 12710.0 277.0 0 0 0 0 0 g 0 11670.0 1025.0 478.0 384.0 508.0 356.0 153.0 0 0 0 0 0 t 0 554.0 11591.0 296.0 220.0 249.0 757.0 354.0 0 0 0 0 0

MA0867.3_shift6 (SOX4)
; oligos_7nt_mkv5_m2 versus MA0867.3 (SOX4); m=9/29; ncol2=8; w=0; offset=4; strand=D; shift=6; score=0.432031; ------aACAAwG ; cor=; Ncor= a 0 0 0 0 0 0 5582.0 5582.0 0.0 5582.0 5582.0 5582.0 1018.0 c 0 0 0 0 0 0 951.0 0.0 5582.0 1.0 6.0 120.0 64.0 g 0 0 0 0 0 0 2047.0 0.0 37.0 6.0 11.0 50.0 5582.0 t 0 0 0 0 0 0 431.0 9.0 33.0 0.0 0.0 2719.0 83.0

MA0848.1_shift1 (FOXO4)
; oligos_7nt_mkv5_m2 versus MA0848.1 (FOXO4); m=10/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.431997; -GTAAACA----- ; cor=; Ncor= a 0 1669.0 345.0 5378.0 5378.0 5378.0 58.0 5378.0 0 0 0 0 0 c 0 13.0 69.0 1259.0 146.0 0.0 5378.0 10.0 0 0 0 0 0 g 0 5378.0 123.0 32.0 19.0 90.0 33.0 10.0 0 0 0 0 0 t 0 0.0 5378.0 20.0 20.0 10.0 958.0 40.0 0 0 0 0 0

MA0849.1_shift1 (FOXO6)
; oligos_7nt_mkv5_m2 versus MA0849.1 (FOXO6); m=11/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.429797; -GTAAACA----- ; cor=; Ncor= a 0 1445.0 154.0 7025.0 7025.0 7025.0 0.0 7025.0 0 0 0 0 0 c 0 0.0 0.0 1147.0 195.0 0.0 7025.0 0.0 0 0 0 0 0 g 0 7025.0 32.0 7.0 0.0 0.0 31.0 13.0 0 0 0 0 0 t 0 0.0 7025.0 0.0 26.0 0.0 385.0 0.0 0 0 0 0 0

MA0614.1_shift1 (Foxj2)
; oligos_7nt_mkv5_m2 versus MA0614.1 (Foxj2); m=12/29; ncol2=8; w=-1; offset=-1; strand=D; shift=1; score=0.429216; -rTAAACAa---- ; cor=; Ncor= a 0 461.0 50.0 795.0 977.0 999.0 0.0 999.0 593.0 0 0 0 0 c 0 0.0 25.0 205.0 0.0 0.0 954.0 0.0 125.0 0 0 0 0 g 0 538.0 0.0 0.0 0.0 0.0 0.0 0.0 125.0 0 0 0 0 t 0 0.0 924.0 0.0 22.0 0.0 46.0 0.0 156.0 0 0 0 0

MA0157.4_shift1 (Foxo3)
; oligos_7nt_mkv5_m2 versus MA0157.4 (Foxo3); m=13/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.427969; -GTAAACA----- ; cor=; Ncor= a 0 3470.0 1546.0 22240.0 22288.0 22551.0 403.0 22141.0 0 0 0 0 0 c 0 590.0 435.0 968.0 803.0 483.0 21237.0 587.0 0 0 0 0 0 g 0 19202.0 1199.0 328.0 333.0 464.0 361.0 361.0 0 0 0 0 0 t 0 650.0 20732.0 376.0 488.0 414.0 1911.0 823.0 0 0 0 0 0

MA0852.3_shift1 (FOXK1)
; oligos_7nt_mkv5_m2 versus MA0852.3 (FOXK1); m=14/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.427634; -GTAAACA----- ; cor=; Ncor= a 0 143.0 60.0 1003.0 999.0 1022.0 10.0 1015.0 0 0 0 0 0 c 0 28.0 5.0 37.0 37.0 13.0 958.0 16.0 0 0 0 0 0 g 0 868.0 44.0 10.0 11.0 10.0 12.0 12.0 0 0 0 0 0 t 0 17.0 947.0 6.0 9.0 11.0 76.0 13.0 0 0 0 0 0

MA0613.1_shift1 (FOXG1)
; oligos_7nt_mkv5_m2 versus MA0613.1 (FOXG1); m=15/29; ncol2=8; w=-1; offset=-1; strand=D; shift=1; score=0.425554; -rTAAACAw---- ; cor=; Ncor= a 0 374.0 1.0 997.0 997.0 997.0 1.0 997.0 498.0 0 0 0 0 c 0 1.0 1.0 1.0 1.0 1.0 997.0 1.0 167.0 0 0 0 0 g 0 623.0 1.0 1.0 1.0 1.0 1.0 1.0 2.0 0 0 0 0 t 0 1.0 997.0 1.0 1.0 1.0 1.0 1.0 333.0 0 0 0 0

MA0850.1_shift1 (FOXP3)
; oligos_7nt_mkv5_m2 versus MA0850.1 (FOXP3); m=16/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.424284; -rTAAACA----- ; cor=; Ncor= a 0 74.0 20.0 211.0 211.0 211.0 0.0 211.0 0 0 0 0 0 c 0 0.0 52.0 0.0 0.0 15.0 211.0 0.0 0 0 0 0 0 g 0 137.0 0.0 0.0 9.0 49.0 32.0 18.0 0 0 0 0 0 t 0 0.0 211.0 31.0 8.0 0.0 39.0 0.0 0 0 0 0 0

MA2117.1_shift1 (FOXP4)
; oligos_7nt_mkv5_m2 versus MA2117.1 (FOXP4); m=17/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.423486; -GTAAACA----- ; cor=; Ncor= a 0 2224.0 543.0 19122.0 19613.0 20280.0 379.0 20230.0 0 0 0 0 0 c 0 834.0 793.0 1545.0 1330.0 419.0 18349.0 443.0 0 0 0 0 0 g 0 17315.0 539.0 534.0 368.0 550.0 493.0 218.0 0 0 0 0 0 t 0 1294.0 19792.0 466.0 356.0 418.0 2446.0 776.0 0 0 0 0 0

MA0042.2_shift1 (FOXI1)
; oligos_7nt_mkv5_m2 versus MA0042.2 (FOXI1); m=18/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.422572; -GTAAACA----- ; cor=; Ncor= a 0 618.0 74.0 5175.0 5175.0 5175.0 157.0 5175.0 0 0 0 0 0 c 0 39.0 60.0 540.0 23.0 23.0 5175.0 12.0 0 0 0 0 0 g 0 5175.0 35.0 37.0 0.0 29.0 48.0 25.0 0 0 0 0 0 t 0 0.0 5175.0 0.0 0.0 66.0 810.0 0.0 0 0 0 0 0

MA0033.2_shift1 (FOXL1)
; oligos_7nt_mkv5_m2 versus MA0033.2 (FOXL1); m=19/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.422364; -rTAAACA----- ; cor=; Ncor= a 0 2102.0 10.0 4780.0 4780.0 4780.0 0.0 4780.0 0 0 0 0 0 c 0 13.0 416.0 628.0 38.0 82.0 3723.0 54.0 0 0 0 0 0 g 0 2678.0 0.0 57.0 0.0 50.0 0.0 0.0 0 0 0 0 0 t 0 140.0 4780.0 0.0 15.0 0.0 1057.0 17.0 0 0 0 0 0

MA1606.2_shift1 (Foxf1)
; oligos_7nt_mkv5_m2 versus MA1606.2 (Foxf1); m=20/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.419239; -rTAAACA----- ; cor=; Ncor= a 0 18534.0 568.0 57293.0 53942.0 57167.0 437.0 56436.0 0 0 0 0 0 c 0 3754.0 446.0 899.0 2249.0 475.0 54394.0 745.0 0 0 0 0 0 g 0 33599.0 1158.0 445.0 811.0 1067.0 522.0 443.0 0 0 0 0 0 t 0 3653.0 57368.0 903.0 2538.0 831.0 4187.0 1916.0 0 0 0 0 0

MA0031.2_shift1 (FOXD1)
; oligos_7nt_mkv5_m2 versus MA0031.2 (FOXD1); m=21/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.416524; -GTAAACA----- ; cor=; Ncor= a 0 1.0 0.0 19.0 20.0 18.0 1.0 20.0 0 0 0 0 0 c 0 1.0 0.0 1.0 0.0 1.0 18.0 0.0 0 0 0 0 0 g 0 17.0 0.0 0.0 0.0 1.0 0.0 0.0 0 0 0 0 0 t 0 1.0 20.0 0.0 0.0 0.0 1.0 0.0 0 0 0 0 0

MA1103.3_shift1 (FOXK2)
; oligos_7nt_mkv5_m2 versus MA1103.3 (FOXK2); m=22/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.415545; -GTAAACA----- ; cor=; Ncor= a 0 2697.0 360.0 15913.0 14387.0 15593.0 499.0 15709.0 0 0 0 0 0 c 0 551.0 210.0 277.0 1291.0 330.0 14282.0 295.0 0 0 0 0 0 g 0 12737.0 327.0 148.0 436.0 391.0 426.0 170.0 0 0 0 0 0 t 0 694.0 15782.0 341.0 565.0 365.0 1472.0 505.0 0 0 0 0 0

MA1683.2_shift1 (FOXA3)
; oligos_7nt_mkv5_m2 versus MA1683.2 (FOXA3); m=23/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.414299; -GTAAACA----- ; cor=; Ncor= a 0 4481.0 758.0 45178.0 43099.0 46046.0 951.0 45552.0 0 0 0 0 0 c 0 1464.0 903.0 1980.0 3883.0 973.0 39509.0 933.0 0 0 0 0 0 g 0 40396.0 690.0 636.0 977.0 934.0 1205.0 614.0 0 0 0 0 0 t 0 2596.0 46586.0 1143.0 978.0 984.0 7272.0 1838.0 0 0 0 0 0

MA0481.4_shift1 (FOXP1)
; oligos_7nt_mkv5_m2 versus MA0481.4 (FOXP1); m=24/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.412653; -GTAAACA----- ; cor=; Ncor= a 0 10463.0 1209.0 69603.0 65236.0 70030.0 1336.0 68456.0 0 0 0 0 0 c 0 1573.0 727.0 2095.0 5067.0 1487.0 61094.0 1904.0 0 0 0 0 0 g 0 59571.0 920.0 1073.0 1830.0 1132.0 1493.0 749.0 0 0 0 0 0 t 0 3111.0 71862.0 1947.0 2585.0 2069.0 10795.0 3609.0 0 0 0 0 0

MA1563.2_shift6 (SOX18)
; oligos_7nt_mkv5_m2 versus MA1563.2 (SOX18); m=25/29; ncol2=8; w=0; offset=4; strand=D; shift=6; score=0.412469; ------aACAATd ; cor=; Ncor= a 0 0 0 0 0 0 424.0 424.0 0.0 424.0 424.0 0.0 203.0 c 0 0 0 0 0 0 81.0 0.0 424.0 0.0 35.0 0.0 0.0 g 0 0 0 0 0 0 170.0 0.0 91.0 0.0 17.0 0.0 221.0 t 0 0 0 0 0 0 34.0 0.0 2.0 0.0 0.0 447.0 228.0

MA0514.3_shift7 (Sox3)
; oligos_7nt_mkv5_m2 versus MA0514.3 (Sox3); m=26/29; ncol2=7; w=0; offset=5; strand=D; shift=7; score=0.411815; -------ACAATG ; cor=; Ncor= a 0 0 0 0 0 0 0 11761.0 150.0 11284.0 11623.0 573.0 1617.0 c 0 0 0 0 0 0 0 52.0 11125.0 312.0 143.0 150.0 133.0 g 0 0 0 0 0 0 0 76.0 178.0 93.0 143.0 104.0 10041.0 t 0 0 0 0 0 0 0 89.0 525.0 289.0 69.0 11151.0 187.0

MA1120.2_shift7 (SOX13)
; oligos_7nt_mkv5_m2 versus MA1120.2 (SOX13); m=27/29; ncol2=7; w=0; offset=5; strand=D; shift=7; score=0.410534; -------ACAATG ; cor=; Ncor= a 0 0 0 0 0 0 0 4451.0 55.0 4329.0 4390.0 156.0 585.0 c 0 0 0 0 0 0 0 22.0 4276.0 55.0 48.0 77.0 57.0 g 0 0 0 0 0 0 0 40.0 60.0 50.0 63.0 28.0 3837.0 t 0 0 0 0 0 0 0 39.0 161.0 118.0 51.0 4291.0 73.0

MA0143.5_shift7 (SOX2)
; oligos_7nt_mkv5_m2 versus MA0143.5 (SOX2); m=28/29; ncol2=7; w=0; offset=5; strand=D; shift=7; score=0.40918; -------ACAATG ; cor=; Ncor= a 0 0 0 0 0 0 0 83515.0 1307.0 81587.0 80825.0 4815.0 9926.0 c 0 0 0 0 0 0 0 436.0 78356.0 1205.0 1742.0 732.0 800.0 g 0 0 0 0 0 0 0 418.0 1243.0 550.0 2002.0 930.0 73372.0 t 0 0 0 0 0 0 0 1385.0 4848.0 2412.0 1185.0 79277.0 1656.0

MA0593.2_shift0 (FOXP2)
; oligos_7nt_mkv5_m2 versus MA0593.2 (FOXP2); m=29/29; ncol2=9; w=-2; offset=-2; strand=D; shift=0; score=0.402874; wGTAAACAr---- ; cor=; Ncor= a 340.0 160.0 59.0 766.0 766.0 766.0 0.0 766.0 297.0 0 0 0 0 c 7.0 0.0 0.0 0.0 0.0 0.0 757.0 0.0 154.0 0 0 0 0 g 142.0 606.0 0.0 0.0 0.0 0.0 0.0 0.0 293.0 0 0 0 0 t 277.0 0.0 707.0 0.0 0.0 0.0 9.0 0.0 22.0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m1_shift4 ; 11 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m1_shift4 (oligos_7nt_mkv5_m1)
; oligos_7nt_mkv5_m1; m=0 (reference); ncol1=12; shift=4; ncol=16; ----tyATTTTTCAtk ; Alignment reference a 0 0 0 0 2805 2460 9976 297 593 223 248 290 806 10094 2748 2433 c 0 0 0 0 1446 4401 395 277 208 214 1246 1640 9675 324 2441 1518 g 0 0 0 0 2329 1446 451 230 179 108 197 173 255 220 1744 3406 t 0 0 0 0 4727 3000 485 10503 10327 10762 9616 9204 571 669 4374 3950

MA0606.3_rc_shift7 (Nfat5_rc)
; oligos_7nt_mkv5_m1 versus MA0606.3_rc (Nfat5_rc); m=1/10; ncol2=8; w=0; offset=3; strand=R; shift=7; score=0.554291; -------TTTTCCAT- ; cor=; Ncor= a 0 0 0 0 0 0 0 14.0 10.0 9.0 5.0 7.0 11.0 302.0 13.0 0 c 0 0 0 0 0 0 0 19.0 8.0 10.0 15.0 325.0 332.0 9.0 47.0 0 g 0 0 0 0 0 0 0 8.0 4.0 1.0 8.0 8.0 0.0 10.0 17.0 0 t 0 0 0 0 0 0 0 315.0 334.0 336.0 328.0 16.0 13.0 35.0 279.0 0

MA1525.3_rc_shift6 (NFATC4_rc)
; oligos_7nt_mkv5_m1 versus MA1525.3_rc (NFATC4_rc); m=2/10; ncol2=9; w=0; offset=2; strand=R; shift=6; score=0.537973; ------wkTTTCCrt- ; cor=; Ncor= a 0 0 0 0 0 0 3012.0 1164.0 107.0 0.0 0.0 0.0 0.0 4553.0 1505.0 0 c 0 0 0 0 0 0 138.0 1149.0 42.0 0.0 0.0 7139.0 7139.0 43.0 2590.0 0 g 0 0 0 0 0 0 1280.0 6522.0 460.0 0.0 0.0 0.0 0.0 2586.0 715.0 0 t 0 0 0 0 0 0 2709.0 7139.0 7139.0 7139.0 7139.0 0.0 0.0 16.0 7139.0 0

MA0152.3_rc_shift8 (Nfatc2_rc)
; oligos_7nt_mkv5_m1 versus MA0152.3_rc (Nfatc2_rc); m=3/10; ncol2=8; w=0; offset=4; strand=R; shift=8; score=0.523225; --------TTTCCATt ; cor=; Ncor= a 0 0 0 0 0 0 0 0 112.0 35.0 41.0 46.0 26.0 2844.0 121.0 321.0 c 0 0 0 0 0 0 0 0 79.0 45.0 65.0 3133.0 3118.0 101.0 329.0 292.0 g 0 0 0 0 0 0 0 0 104.0 19.0 38.0 27.0 17.0 124.0 206.0 460.0 t 0 0 0 0 0 0 0 0 2944.0 3140.0 3095.0 33.0 78.0 170.0 2583.0 2166.0

MA2124.1_shift6 (Hmga1)
; oligos_7nt_mkv5_m1 versus MA2124.1 (Hmga1); m=4/10; ncol2=8; w=0; offset=2; strand=D; shift=6; score=0.52265; ------ATTTTTAw-- ; cor=; Ncor= a 0 0 0 0 0 0 25051.0 820.0 1034.0 695.0 651.0 770.0 24433.0 9680.0 0 0 c 0 0 0 0 0 0 71.0 393.0 200.0 194.0 264.0 409.0 473.0 2348.0 0 0 g 0 0 0 0 0 0 188.0 421.0 303.0 138.0 237.0 294.0 358.0 2438.0 0 0 t 0 0 0 0 0 0 496.0 24172.0 24269.0 24779.0 24654.0 24333.0 542.0 11340.0 0 0

MA1125.2_rc_shift4 (ZNF384_rc)
; oligos_7nt_mkv5_m1 versus MA1125.2_rc (ZNF384_rc); m=5/10; ncol2=8; w=0; offset=0; strand=R; shift=4; score=0.503606; ----ttTTTTTT---- ; cor=; Ncor= a 0 0 0 0 4656.0 4436.0 21.0 191.0 153.0 314.0 188.0 59.0 0 0 0 0 c 0 0 0 0 2898.0 2767.0 0.0 14.0 15.0 26.0 19.0 13.0 0 0 0 0 g 0 0 0 0 3963.0 2908.0 6.0 26.0 13.0 21.0 35.0 7.0 0 0 0 0 t 0 0 0 0 18916.0 20322.0 30406.0 30202.0 30252.0 30072.0 30191.0 30354.0 0 0 0 0

MA1563.2_rc_shift4 (SOX18_rc)
; oligos_7nt_mkv5_m1 versus MA1563.2_rc (SOX18_rc); m=6/10; ncol2=8; w=0; offset=0; strand=R; shift=4; score=0.484484; ----bhATTGTt---- ; cor=; Ncor= a 0 0 0 0 0.0 228.0 447.0 0.0 0.0 2.0 0.0 34.0 0 0 0 0 c 0 0 0 0 424.0 221.0 0.0 17.0 0.0 91.0 0.0 170.0 0 0 0 0 g 0 0 0 0 551.0 0.0 0.0 35.0 0.0 424.0 0.0 81.0 0 0 0 0 t 0 0 0 0 382.0 203.0 0.0 424.0 424.0 0.0 424.0 424.0 0 0 0 0

MA1115.2_rc_shift8 (POU5F1_rc)
; oligos_7nt_mkv5_m1 versus MA1115.2_rc (POU5F1_rc); m=7/10; ncol2=7; w=0; offset=4; strand=R; shift=8; score=0.444523; --------TTTGCAT- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 307.0 838.0 1108.0 1723.0 634.0 12834.0 70.0 0 c 0 0 0 0 0 0 0 0 257.0 1026.0 118.0 548.0 11571.0 67.0 229.0 0 g 0 0 0 0 0 0 0 0 270.0 690.0 132.0 10310.0 192.0 130.0 122.0 0 t 0 0 0 0 0 0 0 0 12280.0 10560.0 11756.0 533.0 717.0 83.0 12693.0 0

MA0868.3_rc_shift5 (SOX8_rc)
; oligos_7nt_mkv5_m1 versus MA0868.3_rc (SOX8_rc); m=8/10; ncol2=7; w=0; offset=1; strand=R; shift=5; score=0.427882; -----yATTGTT---- ; cor=; Ncor= a 0 0 0 0 0 287.0 1827.0 36.0 16.0 70.0 45.0 222.0 0 0 0 0 c 0 0 0 0 0 1827.0 20.0 0.0 0.0 35.0 0.0 263.0 0 0 0 0 g 0 0 0 0 0 208.0 36.0 43.0 0.0 1827.0 0.0 151.0 0 0 0 0 t 0 0 0 0 0 1356.0 273.0 1827.0 1827.0 3.0 1827.0 1827.0 0 0 0 0

MA0757.2_rc_shift0 (ONECUT3_rc)
; oligos_7nt_mkv5_m1 versus MA0757.2_rc (ONECUT3_rc); m=9/10; ncol2=12; w=-4; offset=-4; strand=R; shift=0; score=0.413157; tTATyGATTTTt---- ; cor=; Ncor= a 1182.0 345.0 6080.0 22.0 11.0 5.0 6080.0 11.0 54.0 1221.0 878.0 709.0 0 0 0 0 c 417.0 187.0 7.0 9.0 2130.0 3.0 14.0 41.0 102.0 112.0 498.0 1141.0 0 0 0 0 g 861.0 105.0 6.0 6.0 20.0 6080.0 103.0 5.0 28.0 173.0 274.0 379.0 0 0 0 0 t 3620.0 6080.0 43.0 6080.0 3950.0 23.0 32.0 6080.0 6080.0 6080.0 6080.0 3851.0 0 0 0 0

MA0624.3_rc_shift8 (Nfatc1_rc)
; oligos_7nt_mkv5_m1 versus MA0624.3_rc (Nfatc1_rc); m=10/10; ncol2=6; w=0; offset=4; strand=R; shift=8; score=0.408253; --------TTTCCA-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 124.0 39.0 54.0 55.0 17.0 5771.0 0 0 c 0 0 0 0 0 0 0 0 43.0 32.0 27.0 6058.0 6106.0 65.0 0 0 g 0 0 0 0 0 0 0 0 77.0 13.0 30.0 16.0 13.0 227.0 0 0 t 0 0 0 0 0 0 0 0 5947.0 6107.0 6080.0 62.0 55.0 128.0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m4_shift2 ; 9 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m4_shift2 (oligos_6nt_mkv4_m4)
; oligos_6nt_mkv4_m4; m=0 (reference); ncol1=11; shift=2; ncol=13; --awACAAAACwa ; Alignment reference a 0 0 2927 2653 4773 373 6440 6317 6430 6605 75 3122 2659 c 0 0 1632 961 652 5642 83 148 64 59 6570 1157 1408 g 0 0 906 1242 592 482 106 88 66 60 19 770 1168 t 0 0 1345 1954 793 313 181 257 250 86 146 1761 1575

MA0084.2_shift2 (SRY)
; oligos_6nt_mkv4_m4 versus MA0084.2 (SRY); m=1/8; ncol2=7; w=0; offset=0; strand=D; shift=2; score=0.514589; --waACAAw---- ; cor=; Ncor= a 0 0 15.0 18.0 25.0 0.0 28.0 27.0 7.0 0 0 0 0 c 0 0 0.0 3.0 0.0 26.0 0.0 0.0 0.0 0 0 0 0 g 0 0 3.0 3.0 0.0 0.0 0.0 1.0 2.0 0 0 0 0 t 0 0 10.0 4.0 3.0 2.0 0.0 0.0 19.0 0 0 0 0

MA0901.3_shift1 (HOXB13)
; oligos_6nt_mkv4_m4 versus MA0901.3 (HOXB13); m=2/8; ncol2=9; w=-1; offset=-1; strand=D; shift=1; score=0.475872; -cCAATAAAA--- ; cor=; Ncor= a 0 11896.0 4212.0 66409.0 73044.0 421.0 73612.0 75997.0 76077.0 70230.0 0 0 0 c 0 47674.0 65312.0 4611.0 726.0 550.0 523.0 599.0 760.0 2465.0 0 0 0 g 0 9096.0 582.0 351.0 1913.0 586.0 1083.0 490.0 625.0 1882.0 0 0 0 t 0 10048.0 8608.0 7343.0 3031.0 77157.0 3496.0 1628.0 1252.0 4137.0 0 0 0

MA1971.2_shift5 (ZBED2)
; oligos_6nt_mkv4_m4 versus MA1971.2 (ZBED2); m=3/8; ncol2=7; w=0; offset=3; strand=D; shift=5; score=0.451928; -----CGAAACC- ; cor=; Ncor= a 0 0 0 0 0 42.0 19.0 1247.0 1264.0 1131.0 17.0 75.0 0 c 0 0 0 0 0 1195.0 21.0 13.0 13.0 94.0 1217.0 962.0 0 g 0 0 0 0 0 42.0 1252.0 29.0 8.0 41.0 43.0 47.0 0 t 0 0 0 0 0 18.0 5.0 8.0 12.0 31.0 20.0 213.0 0

MA0851.2_shift0 (Foxj3)
; oligos_6nt_mkv4_m4 versus MA0851.2 (Foxj3); m=4/8; ncol2=9; w=-2; offset=-2; strand=D; shift=0; score=0.44963; RTAAACAAw---- ; cor=; Ncor= a 30.0 1.0 91.0 96.0 99.0 0.0 99.0 79.0 57.0 0 0 0 0 c 1.0 2.0 8.0 2.0 0.0 81.0 0.0 7.0 9.0 0 0 0 0 g 68.0 0.0 0.0 0.0 0.0 0.0 0.0 6.0 7.0 0 0 0 0 t 0.0 97.0 0.0 3.0 1.0 18.0 1.0 9.0 27.0 0 0 0 0

MA1616.2_shift5 (Prdm15)
; oligos_6nt_mkv4_m4 versus MA1616.2 (Prdm15); m=5/8; ncol2=11; w=0; offset=3; strand=D; shift=5; score=0.430439; -----gAAAACCT ; cor=; Ncor= a 0 0 0 0 0 252.0 2011.0 2121.0 1942.0 1801.0 67.0 222.0 220.0 c 0 0 0 0 0 325.0 60.0 34.0 47.0 138.0 1941.0 1886.0 361.0 g 0 0 0 0 0 1333.0 135.0 58.0 200.0 152.0 101.0 107.0 28.0 t 0 0 0 0 0 327.0 31.0 24.0 48.0 146.0 128.0 22.0 1628.0

MA1125.2_shift6 (ZNF384)
; oligos_6nt_mkv4_m4 versus MA1125.2 (ZNF384); m=6/8; ncol2=8; w=0; offset=4; strand=D; shift=6; score=0.413755; ------AAAAAAa ; cor=; Ncor= a 0 0 0 0 0 0 30354.0 30191.0 30072.0 30252.0 30202.0 30406.0 20322.0 c 0 0 0 0 0 0 7.0 35.0 21.0 13.0 26.0 6.0 2908.0 g 0 0 0 0 0 0 13.0 19.0 26.0 15.0 14.0 0.0 2767.0 t 0 0 0 0 0 0 59.0 188.0 314.0 153.0 191.0 21.0 4436.0

MA1489.1_shift0 (FOXN3)
; oligos_6nt_mkv4_m4 versus MA1489.1 (FOXN3); m=7/8; ncol2=8; w=-2; offset=-2; strand=D; shift=0; score=0.412421; GTAAACAA----- ; cor=; Ncor= a 9.0 9.0 971.0 971.0 971.0 9.0 971.0 971.0 0 0 0 0 0 c 9.0 9.0 9.0 9.0 9.0 971.0 9.0 9.0 0 0 0 0 0 g 971.0 9.0 9.0 9.0 9.0 9.0 9.0 9.0 0 0 0 0 0 t 9.0 971.0 9.0 9.0 9.0 9.0 9.0 9.0 0 0 0 0 0

MA0442.3_shift4 (SOX10)
; oligos_6nt_mkv4_m4 versus MA0442.3 (SOX10); m=8/8; ncol2=6; w=0; offset=2; strand=D; shift=4; score=0.401423; ----ACAAAG--- ; cor=; Ncor= a 0 0 0 0 2023.0 3.0 2029.0 1968.0 1959.0 10.0 0 0 0 c 0 0 0 0 4.0 1989.0 7.0 28.0 23.0 13.0 0 0 0 g 0 0 0 0 3.0 11.0 7.0 20.0 12.0 2012.0 0 0 0 t 0 0 0 0 25.0 52.0 12.0 39.0 61.0 20.0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m4_shift0 ; 6 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m4_shift0 (oligos_7nt_mkv5_m4)
; oligos_7nt_mkv5_m4; m=0 (reference); ncol1=11; shift=0; ncol=11; gwCGAAATCac ; Alignment reference a 552 1095 226 81 2231 2217 2068 103 67 1103 566 c 479 364 1994 31 41 62 199 75 2173 447 858 g 851 268 75 2055 58 60 62 96 97 283 524 t 534 689 121 249 86 77 87 2142 79 583 468

MA1971.2_shift2 (ZBED2)
; oligos_7nt_mkv5_m4 versus MA1971.2 (ZBED2); m=1/5; ncol2=7; w=0; offset=2; strand=D; shift=2; score=0.501812; --CGAAACC-- ; cor=; Ncor= a 0 0 42.0 19.0 1247.0 1264.0 1131.0 17.0 75.0 0 0 c 0 0 1195.0 21.0 13.0 13.0 94.0 1217.0 962.0 0 0 g 0 0 42.0 1252.0 29.0 8.0 41.0 43.0 47.0 0 0 t 0 0 18.0 5.0 8.0 12.0 31.0 20.0 213.0 0 0

MA2339.1_shift3 (Nanog)
; oligos_7nt_mkv5_m4 versus MA2339.1 (Nanog); m=2/5; ncol2=7; w=0; offset=3; strand=D; shift=3; score=0.471615; ---GCAATCA- ; cor=; Ncor= a 0 0 0 480.0 143.0 6992.0 7959.0 235.0 348.0 8076.0 0 c 0 0 0 164.0 7298.0 400.0 206.0 96.0 7421.0 131.0 0 g 0 0 0 7830.0 93.0 365.0 196.0 124.0 149.0 180.0 0 t 0 0 0 190.0 1130.0 907.0 303.0 8209.0 746.0 277.0 0

MA0483.2_shift4 (Gfi1B)
; oligos_7nt_mkv5_m4 versus MA0483.2 (Gfi1B); m=3/5; ncol2=10; w=0; offset=4; strand=D; shift=4; score=0.459748; ----aAATCwC ; cor=; Ncor= a 0 0 0 0 1124.0 1761.0 1759.0 0.0 0.0 1033.0 61.0 c 0 0 0 0 438.0 0.0 0.0 338.0 1761.0 21.0 1312.0 g 0 0 0 0 104.0 0.0 2.0 28.0 0.0 0.0 388.0 t 0 0 0 0 95.0 0.0 0.0 1395.0 0.0 707.0 0.0

MA0679.3_shift4 (ONECUT1)
; oligos_7nt_mkv5_m4 versus MA0679.3 (ONECUT1); m=4/5; ncol2=9; w=0; offset=4; strand=D; shift=4; score=0.446264; ----aAATCAA ; cor=; Ncor= a 0 0 0 0 37926.0 52146.0 60015.0 482.0 1345.0 59595.0 60870.0 c 0 0 0 0 7555.0 1011.0 358.0 294.0 60181.0 438.0 247.0 g 0 0 0 0 6149.0 7794.0 1166.0 241.0 278.0 1226.0 366.0 t 0 0 0 0 10589.0 1268.0 680.0 61202.0 415.0 960.0 736.0

MA0038.3_shift4 (GFI1)
; oligos_7nt_mkv5_m4 versus MA0038.3 (GFI1); m=5/5; ncol2=11; w=0; offset=4; strand=D; shift=4; score=0.416627; ----mAATCAC ; cor=; Ncor= a 0 0 0 0 19146.0 30168.0 30150.0 0.0 15.0 29255.0 838.0 c 0 0 0 0 10155.0 2.0 0.0 0.0 30139.0 0.0 27769.0 g 0 0 0 0 812.0 0.0 0.0 0.0 0.0 0.0 3888.0 t 0 0 0 0 565.0 0.0 1.0 30161.0 10.0 1594.0 0.0

One-to-n matrix alignment; reference matrix: positions_7nt_m5_shift0 ; 19 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m5_shift0 (positions_7nt_m5)
; positions_7nt_m5; m=0 (reference); ncol1=16; shift=0; ncol=16; rhaaGCACGTGCttdy ; Alignment reference a 147 135 352 346 32 24 422 60 55 14 48 26 53 60 147 116 c 111 133 34 75 26 429 25 393 19 59 22 438 49 75 108 149 g 150 107 78 49 438 22 63 17 389 25 429 26 75 34 133 112 t 115 148 59 53 27 48 13 53 60 425 24 33 346 354 135 146

MA0059.2_rc_shift3 (MAX::MYC_rc)
; positions_7nt_m5 versus MA0059.2_rc (MAX::MYC_rc); m=1/18; ncol2=10; w=0; offset=3; strand=R; shift=3; score=0.498524; ---aCCACGTGsT--- ; cor=; Ncor= a 0 0 0 13.0 1.0 0.0 20.0 0.0 1.0 0.0 0.0 1.0 1.0 0 0 0 c 0 0 0 0.0 18.0 21.0 0.0 20.0 0.0 0.0 0.0 9.0 4.0 0 0 0 g 0 0 0 5.0 1.0 0.0 1.0 0.0 20.0 0.0 20.0 9.0 1.0 0 0 0 t 0 0 0 3.0 1.0 0.0 0.0 1.0 0.0 21.0 1.0 2.0 15.0 0 0 0

MA0821.2_rc_shift3 (HES5_rc)
; positions_7nt_m5 versus MA0821.2_rc (HES5_rc); m=2/18; ncol2=10; w=0; offset=3; strand=R; shift=3; score=0.495112; ---grCACGTGyc--- ; cor=; Ncor= a 0 0 0 2389.0 4524.0 231.0 9045.0 68.0 472.0 146.0 74.0 358.0 1455.0 0 0 0 c 0 0 0 2240.0 2606.0 10849.0 199.0 10849.0 193.0 1812.0 113.0 6320.0 8459.0 0 0 0 g 0 0 0 8460.0 6325.0 121.0 1804.0 164.0 10849.0 204.0 10849.0 2601.0 2209.0 0 0 0 t 0 0 0 1439.0 339.0 66.0 159.0 467.0 49.0 9037.0 212.0 4529.0 2390.0 0 0 0

MA0823.1_rc_shift3 (HEY1_rc)
; positions_7nt_m5 versus MA0823.1_rc (HEY1_rc); m=3/18; ncol2=10; w=0; offset=3; strand=R; shift=3; score=0.485491; ---grCACGTGyc--- ; cor=; Ncor= a 0 0 0 318.0 863.0 22.0 3338.0 0.0 0.0 21.0 15.0 110.0 352.0 0 0 0 c 0 0 0 373.0 380.0 3338.0 10.0 3338.0 0.0 123.0 3.0 1199.0 1788.0 0 0 0 g 0 0 0 2172.0 1762.0 19.0 474.0 18.0 3338.0 30.0 3338.0 656.0 761.0 0 0 0 t 0 0 0 475.0 333.0 32.0 0.0 0.0 0.0 3338.0 1.0 1373.0 437.0 0 0 0

MA1560.2_rc_shift4 (SOHLH2_rc)
; positions_7nt_m5 versus MA1560.2_rc (SOHLH2_rc); m=4/18; ncol2=8; w=0; offset=4; strand=R; shift=4; score=0.482496; ----gCACGTGc---- ; cor=; Ncor= a 0 0 0 0 153.0 4.0 1212.0 15.0 7.0 0.0 70.0 276.0 0 0 0 0 c 0 0 0 0 172.0 1212.0 0.0 1212.0 11.0 41.0 29.0 1212.0 0 0 0 0 g 0 0 0 0 1212.0 4.0 65.0 0.0 1212.0 0.0 1212.0 264.0 0 0 0 0 t 0 0 0 0 272.0 41.0 36.0 14.0 0.0 1212.0 45.0 172.0 0 0 0 0

MA0616.3_shift3 (HES2)
; positions_7nt_m5 versus MA0616.3 (HES2); m=5/18; ncol2=9; w=0; offset=3; strand=D; shift=3; score=0.471853; ---GgCACGTGy---- ; cor=; Ncor= a 0 0 0 775.0 1501.0 118.0 6455.0 0.0 0.0 0.0 53.0 512.0 0 0 0 0 c 0 0 0 1193.0 1107.0 8483.0 0.0 8483.0 0.0 1098.0 15.0 4634.0 0 0 0 0 g 0 0 0 8483.0 8483.0 85.0 2028.0 0.0 8483.0 0.0 8483.0 1289.0 0 0 0 0 t 0 0 0 798.0 1581.0 73.0 0.0 129.0 0.0 8483.0 0.0 3849.0 0 0 0 0

MA1493.1_shift3 (HES6)
; positions_7nt_m5 versus MA1493.1 (HES6); m=6/18; ncol2=10; w=0; offset=3; strand=D; shift=3; score=0.456436; ---GGCACGTGTy--- ; cor=; Ncor= a 0 0 0 12.0 16.0 17.0 439.0 2.0 10.0 0.0 0.0 33.0 79.0 0 0 0 c 0 0 0 39.0 35.0 439.0 0.0 439.0 12.0 7.0 0.0 21.0 152.0 0 0 0 g 0 0 0 439.0 439.0 19.0 9.0 9.0 439.0 29.0 439.0 0.0 0.0 0 0 0 t 0 0 0 43.0 13.0 15.0 11.0 16.0 0.0 439.0 0.0 439.0 209.0 0 0 0

MA0663.1_shift3 (MLX)
; positions_7nt_m5 versus MA0663.1 (MLX); m=7/18; ncol2=10; w=0; offset=3; strand=D; shift=3; score=0.451798; ---rTCACGTGAt--- ; cor=; Ncor= a 0 0 0 177.0 0.0 3.0 234.0 0.0 1.0 2.0 2.0 240.0 23.0 0 0 0 c 0 0 0 4.0 17.0 251.0 0.0 257.0 0.0 1.0 0.0 9.0 84.0 0 0 0 g 0 0 0 110.0 61.0 3.0 6.0 0.0 558.0 1.0 555.0 35.0 6.0 0 0 0 t 0 0 0 41.0 322.0 4.0 0.0 0.0 1.0 315.0 5.0 16.0 235.0 0 0 0

MA0649.2_shift3 (HEY2)
; positions_7nt_m5 versus MA0649.2 (HEY2); m=8/18; ncol2=9; w=0; offset=3; strand=D; shift=3; score=0.445215; ---GrCACGTGy---- ; cor=; Ncor= a 0 0 0 107.0 651.0 84.0 1800.0 7.0 27.0 36.0 0.0 50.0 0 0 0 0 c 0 0 0 99.0 305.0 1800.0 0.0 1800.0 72.0 120.0 34.0 1047.0 0 0 0 0 g 0 0 0 1800.0 620.0 83.0 128.0 0.0 1800.0 0.0 1800.0 128.0 0 0 0 0 t 0 0 0 101.0 224.0 58.0 0.0 0.0 0.0 1800.0 30.0 753.0 0 0 0 0

MA0464.3_rc_shift4 (BHLHE40_rc)
; positions_7nt_m5 versus MA0464.3_rc (BHLHE40_rc); m=9/18; ncol2=8; w=0; offset=4; strand=R; shift=4; score=0.438984; ----kCACGTGm---- ; cor=; Ncor= a 0 0 0 0 500.0 72.0 11222.0 0.0 32.0 77.0 14.0 6222.0 0 0 0 0 c 0 0 0 0 129.0 11222.0 87.0 11222.0 2.0 78.0 0.0 5000.0 0 0 0 0 g 0 0 0 0 5295.0 12.0 248.0 30.0 11222.0 130.0 11222.0 481.0 0 0 0 0 t 0 0 0 0 5927.0 4.0 167.0 66.0 23.0 11222.0 59.0 1391.0 0 0 0 0

MA2325.1_rc_shift4 (EPAS1_rc)
; positions_7nt_m5 versus MA2325.1_rc (EPAS1_rc); m=10/18; ncol2=9; w=0; offset=4; strand=R; shift=4; score=0.433073; ----skACGTGCg--- ; cor=; Ncor= a 0 0 0 0 48.0 13.0 583.0 5.0 3.0 1.0 3.0 44.0 100.0 0 0 0 c 0 0 0 0 255.0 43.0 16.0 626.0 6.0 15.0 1.0 545.0 115.0 0 0 0 g 0 0 0 0 323.0 174.0 36.0 2.0 629.0 4.0 635.0 23.0 352.0 0 0 0 t 0 0 0 0 14.0 410.0 5.0 7.0 2.0 620.0 1.0 28.0 73.0 0 0 0

MA0664.2_shift3 (MLXIPL)
; positions_7nt_m5 versus MA0664.2 (MLXIPL); m=11/18; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.431753; ---rtCACGTG----- ; cor=; Ncor= a 0 0 0 345.0 126.0 0.0 411.0 2.0 20.0 0.0 0.0 0 0 0 0 0 c 0 0 0 31.0 28.0 448.0 0.0 452.0 2.0 0.0 0.0 0 0 0 0 0 g 0 0 0 220.0 133.0 11.0 2.0 12.0 735.0 3.0 727.0 0 0 0 0 0 t 0 0 0 113.0 468.0 0.0 5.0 0.0 0.0 562.0 0.0 0 0 0 0 0

MA1631.2_shift4 (ASCL1)
; positions_7nt_m5 versus MA1631.2 (ASCL1); m=12/18; ncol2=9; w=0; offset=4; strand=D; shift=4; score=0.42429; ----gCACCTGCy--- ; cor=; Ncor= a 0 0 0 0 5836.0 184.0 32315.0 163.0 196.0 368.0 251.0 399.0 4490.0 0 0 0 c 0 0 0 0 6654.0 33562.0 563.0 30169.0 33402.0 740.0 445.0 28844.0 17883.0 0 0 0 g 0 0 0 0 18576.0 321.0 860.0 3209.0 607.0 492.0 33411.0 2719.0 2966.0 0 0 0 t 0 0 0 0 3290.0 289.0 618.0 815.0 151.0 32756.0 249.0 2394.0 9017.0 0 0 0

MA1945.2_rc_shift5 (ETV5::FIGLA_rc)
; positions_7nt_m5 versus MA1945.2_rc (ETV5::FIGLA_rc); m=13/18; ncol2=14; w=0; offset=5; strand=R; shift=5; score=0.423732; -----CACCTGyTTCC ; cor=; Ncor= a 0 0 0 0 0 34.0 1839.0 5.0 10.0 3.0 24.0 35.0 598.0 24.0 98.0 5.0 c 0 0 0 0 0 1839.0 40.0 1839.0 1839.0 26.0 20.0 1139.0 56.0 25.0 1839.0 1839.0 g 0 0 0 0 0 12.0 12.0 477.0 377.0 10.0 1839.0 177.0 47.0 41.0 3.0 4.0 t 0 0 0 0 0 15.0 18.0 64.0 15.0 1839.0 7.0 700.0 1839.0 1839.0 0.0 12.0

MA0626.2_shift4 (Npas2)
; positions_7nt_m5 versus MA0626.2 (Npas2); m=14/18; ncol2=8; w=0; offset=4; strand=D; shift=4; score=0.420876; ----sCACGTGt---- ; cor=; Ncor= a 0 0 0 0 154.0 0.0 999.0 81.0 81.0 0.0 81.0 74.0 0 0 0 0 c 0 0 0 0 377.0 999.0 0.0 918.0 0.0 0.0 0.0 172.0 0 0 0 0 g 0 0 0 0 420.0 0.0 0.0 0.0 918.0 0.0 918.0 188.0 0 0 0 0 t 0 0 0 0 48.0 0.0 0.0 0.0 0.0 999.0 0.0 566.0 0 0 0 0

MA1099.3_shift3 (HES1)
; positions_7nt_m5 versus MA1099.3 (HES1); m=15/18; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.417178; ---ggCrCGTG----- ; cor=; Ncor= a 0 0 0 3321.0 5858.0 464.0 9446.0 0.0 21.0 253.0 1.0 0 0 0 0 0 c 0 0 0 3492.0 2072.0 18526.0 0.0 18526.0 0.0 4057.0 0.0 0 0 0 0 0 g 0 0 0 18526.0 18526.0 0.0 9081.0 0.0 18526.0 0.0 18526.0 0 0 0 0 0 t 0 0 0 4239.0 8007.0 18.0 232.0 791.0 0.0 18526.0 53.0 0 0 0 0 0

MA0147.4_rc_shift4 (MYC_rc)
; positions_7nt_m5 versus MA0147.4_rc (MYC_rc); m=16/18; ncol2=8; w=0; offset=4; strand=R; shift=4; score=0.414379; ----gCACGTGG---- ; cor=; Ncor= a 0 0 0 0 524.0 46.0 4658.0 38.0 293.0 113.0 27.0 286.0 0 0 0 0 c 0 0 0 0 1198.0 4817.0 63.0 4578.0 70.0 170.0 31.0 472.0 0 0 0 0 g 0 0 0 0 2801.0 56.0 162.0 157.0 4525.0 59.0 4840.0 3746.0 0 0 0 0 t 0 0 0 0 419.0 23.0 59.0 169.0 54.0 4600.0 44.0 438.0 0 0 0 0

MA1464.2_shift3 (ARNT2)
; positions_7nt_m5 versus MA1464.2 (ARNT2); m=17/18; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.406626; ---rtCACGTG----- ; cor=; Ncor= a 0 0 0 11781.0 9572.0 505.0 40622.0 0.0 84.0 651.0 14.0 0 0 0 0 0 c 0 0 0 4265.0 4901.0 40622.0 122.0 40622.0 0.0 932.0 0.0 0 0 0 0 0 g 0 0 0 28841.0 9525.0 115.0 532.0 0.0 40622.0 111.0 40622.0 0 0 0 0 0 t 0 0 0 1951.0 40622.0 0.0 460.0 148.0 0.0 40622.0 971.0 0 0 0 0 0

MA0692.2_shift5 (TFEB)
; positions_7nt_m5 versus MA0692.2 (TFEB); m=18/18; ncol2=8; w=0; offset=5; strand=D; shift=5; score=0.402782; -----CACGTGAy--- ; cor=; Ncor= a 0 0 0 0 0 17.0 8715.0 0.0 2762.0 454.0 9.0 8715.0 283.0 0 0 0 c 0 0 0 0 0 8715.0 286.0 8715.0 288.0 169.0 10.0 2342.0 5889.0 0 0 0 g 0 0 0 0 0 0.0 62.0 83.0 8715.0 150.0 8715.0 872.0 558.0 0 0 0 t 0 0 0 0 0 3.0 274.0 1155.0 5.0 8715.0 11.0 807.0 2826.0 0 0 0

One-to-n matrix alignment; reference matrix: positions_7nt_m4_shift1 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m4_shift1 (positions_7nt_m4)
; positions_7nt_m4; m=0 (reference); ncol1=13; shift=1; ncol=14; -caCAaAGACACam ; Alignment reference a 0 624 1332 99 2673 1955 2617 162 2531 140 2594 139 1103 762 c 0 1152 418 2632 51 610 98 445 184 2642 116 2563 629 901 g 0 534 635 98 100 209 125 2129 116 55 116 124 640 655 t 0 617 542 98 103 153 87 191 96 90 101 101 555 609

MA0867.3_shift1 (SOX4)
; positions_7nt_m4 versus MA0867.3 (SOX4); m=1/4; ncol2=8; w=0; offset=0; strand=D; shift=1; score=0.480619; -aACAAwGr----- ; cor=; Ncor= a 0 5582.0 5582.0 0.0 5582.0 5582.0 5582.0 1018.0 2093.0 0 0 0 0 0 c 0 951.0 0.0 5582.0 1.0 6.0 120.0 64.0 1422.0 0 0 0 0 0 g 0 2047.0 0.0 37.0 6.0 11.0 50.0 5582.0 3489.0 0 0 0 0 0 t 0 431.0 9.0 33.0 0.0 0.0 2719.0 83.0 174.0 0 0 0 0 0

MA0769.3_rc_shift1 (TCF7_rc)
; positions_7nt_m4 versus MA0769.3_rc (TCF7_rc); m=2/4; ncol2=7; w=0; offset=0; strand=R; shift=1; score=0.446663; -wTCAAAG------ ; cor=; Ncor= a 0 8498.0 239.0 478.0 14489.0 14178.0 14556.0 157.0 0 0 0 0 0 0 c 0 1220.0 115.0 13972.0 83.0 266.0 67.0 206.0 0 0 0 0 0 0 g 0 855.0 63.0 278.0 62.0 248.0 125.0 14379.0 0 0 0 0 0 0 t 0 4421.0 14577.0 266.0 360.0 302.0 246.0 252.0 0 0 0 0 0 0

MA0869.3_shift0 (Sox11)
; positions_7nt_m4 versus MA0869.3 (Sox11); m=3/4; ncol2=8; w=-1; offset=-1; strand=D; shift=0; score=0.442784; GAACAAAG------ ; cor=; Ncor= a 1014.0 7912.0 9856.0 119.0 10020.0 9676.0 9276.0 506.0 0 0 0 0 0 0 c 764.0 766.0 100.0 9471.0 108.0 264.0 61.0 148.0 0 0 0 0 0 0 g 8063.0 1298.0 211.0 501.0 49.0 248.0 233.0 9486.0 0 0 0 0 0 0 t 407.0 272.0 81.0 157.0 71.0 60.0 678.0 108.0 0 0 0 0 0 0

MA0442.3_shift2 (SOX10)
; positions_7nt_m4 versus MA0442.3 (SOX10); m=4/4; ncol2=6; w=0; offset=1; strand=D; shift=2; score=0.436043; --ACAAAG------ ; cor=; Ncor= a 0 0 2023.0 3.0 2029.0 1968.0 1959.0 10.0 0 0 0 0 0 0 c 0 0 4.0 1989.0 7.0 28.0 23.0 13.0 0 0 0 0 0 0 g 0 0 3.0 11.0 7.0 20.0 12.0 2012.0 0 0 0 0 0 0 t 0 0 25.0 52.0 12.0 39.0 61.0 20.0 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: positions_7nt_m3_shift1 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m3_shift1 (positions_7nt_m3)
; positions_7nt_m3; m=0 (reference); ncol1=12; shift=1; ncol=13; -tcTCTCTCTCtc ; Alignment reference a 0 1581 1483 308 226 206 281 174 217 269 331 1718 1781 c 0 2749 10660 571 15644 646 15324 804 15507 643 15449 3521 10306 g 0 1441 1890 379 505 150 810 138 731 116 719 632 2073 t 0 11406 3144 15919 802 16175 762 16061 722 16149 678 11306 3017

MA0508.4_shift4 (PRDM1)
; positions_7nt_m3 versus MA0508.4 (PRDM1); m=1/2; ncol2=7; w=0; offset=3; strand=D; shift=4; score=0.479206; ----CTTTCTC-- ; cor=; Ncor= a 0 0 0 0 1199.0 1283.0 2181.0 1813.0 1377.0 3549.0 1710.0 0 0 c 0 0 0 0 52752.0 467.0 1346.0 488.0 53465.0 1076.0 52821.0 0 0 g 0 0 0 0 701.0 826.0 1011.0 561.0 207.0 1390.0 290.0 0 0 t 0 0 0 0 829.0 52905.0 50943.0 52619.0 432.0 49466.0 660.0 0 0

MA1731.2_shift0 (ZNF768)
; positions_7nt_m3 versus MA1731.2 (ZNF768); m=2/2; ncol2=9; w=-1; offset=-1; strand=D; shift=0; score=0.451133; sCcTCTCTG---- ; cor=; Ncor= a 211.0 29.0 43.0 34.0 1.0 6.0 1.0 1.0 1.0 0 0 0 0 c 478.0 768.0 655.0 39.0 950.0 6.0 987.0 1.0 25.0 0 0 0 0 g 268.0 62.0 179.0 11.0 29.0 43.0 11.0 11.0 973.0 0 0 0 0 t 43.0 141.0 123.0 917.0 20.0 945.0 1.0 987.0 1.0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m3_shift1 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m3_shift1 (oligos_6nt_mkv4_m3)
; oligos_6nt_mkv4_m3; m=0 (reference); ncol1=15; shift=1; ncol=16; -raAAATGAGAAAyay ; Alignment reference a 0 1085 2150 3072 3068 3125 201 127 3239 240 3238 3160 3082 439 1833 776 c 0 259 394 149 159 142 47 125 33 91 49 114 133 1796 338 1047 g 0 1545 423 112 101 64 241 3083 68 2972 106 93 128 197 598 354 t 0 553 475 109 114 111 2953 107 102 139 49 75 99 1010 673 1265

MA0050.4_shift0 (Irf1)
; oligos_6nt_mkv4_m3 versus MA0050.4 (Irf1); m=1/2; ncol2=11; w=-1; offset=-1; strand=D; shift=0; score=0.454549; tGAAAcTGAAA----- ; cor=; Ncor= a 3724.0 1661.0 13772.0 14795.0 14878.0 1939.0 1900.0 1017.0 14145.0 14424.0 14172.0 0 0 0 0 0 c 1292.0 637.0 361.0 253.0 176.0 9822.0 933.0 314.0 298.0 353.0 365.0 0 0 0 0 0 g 2035.0 12682.0 1024.0 258.0 240.0 3315.0 274.0 14013.0 775.0 499.0 607.0 0 0 0 0 0 t 8589.0 660.0 483.0 334.0 346.0 564.0 12533.0 296.0 422.0 364.0 496.0 0 0 0 0 0

MA0508.4_rc_shift7 (PRDM1_rc)
; oligos_6nt_mkv4_m3 versus MA0508.4_rc (PRDM1_rc); m=2/2; ncol2=7; w=0; offset=6; strand=R; shift=7; score=0.400865; -------GAGAAAG-- ; cor=; Ncor= a 0 0 0 0 0 0 0 660.0 49466.0 432.0 52619.0 50943.0 52905.0 829.0 0 0 c 0 0 0 0 0 0 0 290.0 1390.0 207.0 561.0 1011.0 826.0 701.0 0 0 g 0 0 0 0 0 0 0 52821.0 1076.0 53465.0 488.0 1346.0 467.0 52752.0 0 0 t 0 0 0 0 0 0 0 1710.0 3549.0 1377.0 1813.0 2181.0 1283.0 1199.0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m5_shift0 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m5_shift0 (oligos_7nt_mkv5_m5)
; oligos_7nt_mkv5_m5; m=0 (reference); ncol1=12; shift=0; ncol=12; caCGTCCTAcas ; Alignment reference a 469 1181 200 84 80 86 57 54 1945 479 1054 389 c 1103 420 2091 113 107 2276 2341 126 202 1477 539 666 g 325 506 106 2183 88 80 52 110 137 345 485 993 t 630 420 130 147 2252 85 77 2237 243 226 449 479

MA1585.2_rc_shift4 (ZKSCAN1_rc)
; oligos_7nt_mkv5_m5 versus MA1585.2_rc (ZKSCAN1_rc); m=1/2; ncol2=9; w=0; offset=4; strand=R; shift=4; score=0.432662; ----aCCTACTr ; cor=; Ncor= a 0 0 0 0 3469.0 27.0 34.0 0.0 6127.0 12.0 0.0 3308.0 c 0 0 0 0 750.0 6075.0 5980.0 0.0 0.0 6092.0 20.0 364.0 g 0 0 0 0 1303.0 12.0 101.0 48.0 0.0 5.0 53.0 2268.0 t 0 0 0 0 605.0 13.0 12.0 6079.0 0.0 18.0 6054.0 187.0

MA0528.3_rc_shift4 (ZNF263_rc)
; oligos_7nt_mkv5_m5 versus MA0528.3_rc (ZNF263_rc); m=2/2; ncol2=7; w=0; offset=4; strand=R; shift=4; score=0.41534; ----TCCTCCC- ; cor=; Ncor= a 0 0 0 0 638.0 717.0 1672.0 620.0 986.0 1192.0 1270.0 0 c 0 0 0 0 1448.0 52741.0 52875.0 163.0 53435.0 52818.0 51804.0 0 g 0 0 0 0 1758.0 2190.0 966.0 1660.0 972.0 1544.0 1659.0 0 t 0 0 0 0 52499.0 695.0 830.0 53900.0 950.0 789.0 1610.0 0

One-to-n matrix alignment; reference matrix: positions_6nt_m3_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m3_shift0 (positions_6nt_m3)
; positions_6nt_m3; m=0 (reference); ncol1=14; shift=0; ncol=14; wyAGGTTAACCTrw ; Alignment reference a 364 296 1030 118 61 81 69 1131 1086 94 209 111 351 385 c 298 396 46 47 64 80 52 42 49 1080 926 110 255 254 g 254 257 109 922 1079 48 43 55 80 63 47 46 395 299 t 381 348 112 210 93 1088 1133 69 82 60 115 1030 296 359

MA2001.2_shift7 (Six4)
; positions_6nt_m3 versus MA2001.2 (Six4); m=1/1; ncol2=7; w=0; offset=7; strand=D; shift=7; score=0.422354; -------AACCTGA ; cor=; Ncor= a 0 0 0 0 0 0 0 4063.0 3970.0 209.0 480.0 202.0 124.0 4124.0 c 0 0 0 0 0 0 0 99.0 112.0 3506.0 3352.0 268.0 146.0 62.0 g 0 0 0 0 0 0 0 57.0 62.0 115.0 114.0 210.0 3906.0 52.0 t 0 0 0 0 0 0 0 72.0 147.0 461.0 345.0 3611.0 115.0 53.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m3_shift2 (oligos_7nt_mkv5_m3)				; oligos_7nt_mkv5_m3; m=0 (reference); ncol1=11; shift=2; ncol=13; --amCCACACChh ; Alignment reference a 0 0 3215 2716 992 343 7936 266 7685 324 776 2740 2512 c 0 0 1814 2390 7337 8251 380 8203 358 7862 7545 2399 2759 g 0 0 2006 1694 348 130 199 115 366 294 207 1019 1351 t 0 0 2000 2235 358 311 520 451 626 555 507 2877 2413
MA0689.1_rc_shift2 (TBX20_rc)				; oligos_7nt_mkv5_m3 versus MA0689.1_rc (TBX20_rc); m=1/36; ncol2=11; w=0; offset=0; strand=R; shift=2; score=0.73174; --yTTCACACCTw ; cor=; Ncor= a 0 0 59.0 170.0 10.0 82.0 572.0 4.0 572.0 40.0 26.0 24.0 250.0 c 0 0 300.0 53.0 6.0 572.0 11.0 572.0 10.0 572.0 572.0 54.0 121.0 g 0 0 60.0 16.0 1.0 10.0 1.0 1.0 0.0 0.0 34.0 23.0 4.0 t 0 0 154.0 572.0 572.0 48.0 8.0 0.0 0.0 0.0 50.0 572.0 197.0
MA1107.3_shift3 (KLF9)				; oligos_7nt_mkv5_m3 versus MA1107.3 (KLF9); m=2/36; ncol2=11; w=0; offset=1; strand=D; shift=3; score=0.710277; ---gCCACACCCA ; cor=; Ncor= a 0 0 0 2862.0 4664.0 287.0 21899.0 221.0 19187.0 224.0 2428.0 146.0 18837.0 c 0 0 0 4342.0 17839.0 24709.0 2559.0 24863.0 1070.0 24365.0 22117.0 24682.0 4339.0 g 0 0 0 16852.0 1660.0 291.0 708.0 353.0 4340.0 735.0 605.0 205.0 852.0 t 0 0 0 1523.0 1416.0 292.0 413.0 142.0 982.0 255.0 429.0 546.0 1551.0
MA0599.1_shift3 (KLF5)				; oligos_7nt_mkv5_m3 versus MA0599.1 (KLF5); m=3/36; ncol2=10; w=0; offset=1; strand=D; shift=3; score=0.670326; ---gCCMCrCCCh ; cor=; Ncor= a 0 0 0 1429.0 0.0 0.0 3477.0 0.0 5051.0 0.0 0.0 0.0 3915.0 c 0 0 0 2023.0 11900.0 12008.0 9569.0 13611.0 0.0 13611.0 13611.0 13135.0 5595.0 g 0 0 0 7572.0 0.0 0.0 0.0 0.0 5182.0 0.0 0.0 0.0 0.0 t 0 0 0 2587.0 1711.0 1603.0 565.0 0.0 3378.0 0.0 0.0 476.0 4101.0
MA1517.2_shift4 (KLF6)				; oligos_7nt_mkv5_m3 versus MA1517.2 (KLF6); m=4/36; ncol2=9; w=0; offset=2; strand=D; shift=4; score=0.661108; ----cCACRCCCm ; cor=; Ncor= a 0 0 0 0 569.0 432.0 2192.0 0.0 1024.0 0.0 25.0 71.0 955.0 c 0 0 0 0 2192.0 2192.0 284.0 2192.0 0.0 2192.0 2192.0 2192.0 665.0 g 0 0 0 0 332.0 298.0 60.0 0.0 2192.0 0.0 60.0 12.0 52.0 t 0 0 0 0 219.0 140.0 60.0 24.0 0.0 0.0 0.0 64.0 520.0
MA0690.3_shift3 (TBX21)				; oligos_7nt_mkv5_m3 versus MA0690.3 (TBX21); m=5/36; ncol2=10; w=0; offset=1; strand=D; shift=3; score=0.660892; ---TTCACACCTt ; cor=; Ncor= a 0 0 0 499.0 10.0 375.0 3685.0 0.0 3685.0 8.0 179.0 145.0 489.0 c 0 0 0 276.0 60.0 3685.0 37.0 3685.0 54.0 3685.0 3685.0 664.0 490.0 g 0 0 0 376.0 4.0 344.0 460.0 0.0 163.0 28.0 302.0 36.0 254.0 t 0 0 0 3685.0 3685.0 50.0 124.0 0.0 3.0 2.0 310.0 3685.0 2452.0
MA1516.2_shift2 (KLF3)				; oligos_7nt_mkv5_m3 versus MA1516.2 (KLF3); m=6/36; ncol2=10; w=0; offset=0; strand=D; shift=2; score=0.643194; --grCCrCGCCC- ; cor=; Ncor= a 0 0 7717.0 24771.0 1442.0 298.0 26757.0 2261.0 4245.0 202.0 83.0 77.0 0 c 0 0 2655.0 615.0 43259.0 43259.0 707.0 43259.0 334.0 43259.0 43259.0 43259.0 0 g 0 0 26568.0 18489.0 1954.0 248.0 16503.0 21.0 43259.0 31.0 29.0 48.0 0 t 0 0 6319.0 207.0 705.0 335.0 419.0 1409.0 1212.0 0.0 0.0 1218.0 0
MA0741.1_shift3 (KLF16)				; oligos_7nt_mkv5_m3 versus MA0741.1 (KLF16); m=7/36; ncol2=11; w=0; offset=1; strand=D; shift=3; score=0.629471; ---gmCMCgCCCM ; cor=; Ncor= a 0 0 0 666.0 901.0 62.0 1150.0 66.0 497.0 8.0 2.0 16.0 437.0 c 0 0 0 535.0 1612.0 1612.0 461.0 1612.0 173.0 1612.0 1612.0 1612.0 1175.0 g 0 0 0 1612.0 77.0 6.0 32.0 17.0 1612.0 0.0 8.0 3.0 19.0 t 0 0 0 240.0 116.0 45.0 0.0 19.0 403.0 0.0 0.0 97.0 40.0
MA1567.3_rc_shift3 (Tbx6_rc)				; oligos_7nt_mkv5_m3 versus MA1567.3_rc (Tbx6_rc); m=8/36; ncol2=9; w=0; offset=1; strand=R; shift=3; score=0.626512; ---TTCACACCy- ; cor=; Ncor= a 0 0 0 373.0 92.0 457.0 8037.0 101.0 9113.0 71.0 361.0 1500.0 0 c 0 0 0 898.0 332.0 8237.0 676.0 9393.0 152.0 9131.0 8347.0 2541.0 0 g 0 0 0 492.0 165.0 775.0 229.0 119.0 229.0 347.0 186.0 643.0 0 t 0 0 0 7889.0 9063.0 183.0 710.0 39.0 158.0 103.0 758.0 4968.0 0
MA0746.3_shift3 (SP3)				; oligos_7nt_mkv5_m3 versus MA0746.3 (SP3); m=9/36; ncol2=11; w=0; offset=1; strand=D; shift=3; score=0.623744; ---rCCACGCCCm ; cor=; Ncor= a 0 0 0 2146.0 664.0 160.0 5253.0 6.0 465.0 0.0 0.0 2.0 3430.0 c 0 0 0 531.0 6591.0 6591.0 1338.0 6591.0 0.0 6591.0 6591.0 6591.0 3160.0 g 0 0 0 4445.0 226.0 54.0 2.0 0.0 6591.0 0.0 0.0 2.0 39.0 t 0 0 0 421.0 345.0 202.0 11.0 12.0 504.0 0.0 9.0 718.0 552.0
MA2123.1_shift3 (Hand1)				; oligos_7nt_mkv5_m3 versus MA2123.1 (Hand1); m=10/36; ncol2=9; w=0; offset=1; strand=D; shift=3; score=0.619993; ---tCCAGACCt- ; cor=; Ncor= a 0 0 0 177.0 84.0 8.0 1016.0 8.0 908.0 28.0 40.0 153.0 0 c 0 0 0 128.0 850.0 1036.0 16.0 24.0 33.0 955.0 962.0 235.0 0 g 0 0 0 148.0 101.0 12.0 10.0 1016.0 104.0 46.0 46.0 61.0 0 t 0 0 0 609.0 27.0 6.0 20.0 14.0 17.0 33.0 14.0 613.0 0
MA0800.2_rc_shift3 (EOMES_rc)				; oligos_7nt_mkv5_m3 versus MA0800.2_rc (EOMES_rc); m=11/36; ncol2=9; w=0; offset=1; strand=R; shift=3; score=0.606776; ---tTCACACCT- ; cor=; Ncor= a 0 0 0 3351.0 24.0 980.0 9832.0 3.0 9832.0 94.0 1305.0 653.0 0 c 0 0 0 1022.0 99.0 9832.0 98.0 9832.0 50.0 9832.0 9832.0 1259.0 0 g 0 0 0 1956.0 28.0 550.0 1540.0 8.0 600.0 92.0 1004.0 158.0 0 t 0 0 0 9832.0 9832.0 210.0 495.0 9.0 19.0 23.0 1775.0 9832.0 0
MA1565.2_rc_shift3 (TBX18_rc)				; oligos_7nt_mkv5_m3 versus MA1565.2_rc (TBX18_rc); m=12/36; ncol2=9; w=0; offset=1; strand=R; shift=3; score=0.602938; ---tTCACACCT- ; cor=; Ncor= a 0 0 0 95.0 34.0 32.0 778.0 2.0 778.0 0.0 47.0 59.0 0 c 0 0 0 265.0 5.0 778.0 109.0 778.0 0.0 778.0 778.0 159.0 0 g 0 0 0 62.0 1.0 161.0 98.0 6.0 80.0 0.0 57.0 62.0 0 t 0 0 0 778.0 778.0 52.0 100.0 21.0 7.0 14.0 73.0 778.0 0
MA1515.2_shift4 (KLF2)				; oligos_7nt_mkv5_m3 versus MA1515.2 (KLF2); m=13/36; ncol2=8; w=0; offset=2; strand=D; shift=4; score=0.598329; ----CCmCrCCC- ; cor=; Ncor= a 0 0 0 0 741.0 403.0 4622.0 0.0 1702.0 0.0 128.0 68.0 0 c 0 0 0 0 4622.0 4622.0 2265.0 4622.0 274.0 4622.0 4622.0 4622.0 0 g 0 0 0 0 495.0 186.0 1060.0 0.0 2920.0 49.0 195.0 105.0 0 t 0 0 0 0 346.0 312.0 214.0 78.0 167.0 22.0 9.0 444.0 0
MA1512.2_shift4 (KLF11)				; oligos_7nt_mkv5_m3 versus MA1512.2 (KLF11); m=14/36; ncol2=10; w=0; offset=2; strand=D; shift=4; score=0.594539; ----cCACGCCCm ; cor=; Ncor= a 0 0 0 0 2022.0 650.0 8655.0 0.0 2426.0 11.0 1.0 0.0 4689.0 c 0 0 0 0 5549.0 8662.0 1289.0 9142.0 52.0 9161.0 9166.0 8941.0 4226.0 g 0 0 0 0 401.0 156.0 115.0 0.0 8291.0 18.0 20.0 4.0 69.0 t 0 0 0 0 1192.0 506.0 27.0 38.0 349.0 23.0 7.0 885.0 761.0
MA1566.3_rc_shift3 (TBX3_rc)				; oligos_7nt_mkv5_m3 versus MA1566.3_rc (TBX3_rc); m=15/36; ncol2=9; w=0; offset=1; strand=R; shift=3; score=0.590987; ---TTCACACCT- ; cor=; Ncor= a 0 0 0 470.0 5.0 717.0 4271.0 0.0 4271.0 0.0 129.0 176.0 0 c 0 0 0 425.0 25.0 4271.0 18.0 4271.0 0.0 4271.0 4271.0 682.0 0 g 0 0 0 340.0 4.0 873.0 528.0 2.0 293.0 14.0 455.0 77.0 0 t 0 0 0 4271.0 4271.0 90.0 91.0 0.0 2.0 0.0 482.0 4271.0 0
MA0688.2_rc_shift3 (TBX2_rc)				; oligos_7nt_mkv5_m3 versus MA0688.2_rc (TBX2_rc); m=16/36; ncol2=9; w=0; offset=1; strand=R; shift=3; score=0.588869; ---tTcACACCT- ; cor=; Ncor= a 0 0 0 656.0 120.0 1409.0 3181.0 12.0 3181.0 14.0 353.0 442.0 0 c 0 0 0 527.0 125.0 3181.0 27.0 3181.0 21.0 3181.0 3181.0 716.0 0 g 0 0 0 491.0 26.0 1289.0 392.0 0.0 329.0 36.0 519.0 59.0 0 t 0 0 0 2525.0 3181.0 310.0 307.0 26.0 0.0 9.0 602.0 3181.0 0
MA0802.2_rc_shift3 (TBR1_rc)				; oligos_7nt_mkv5_m3 versus MA0802.2_rc (TBR1_rc); m=17/36; ncol2=9; w=0; offset=1; strand=R; shift=3; score=0.588447; ---TTCACACCT- ; cor=; Ncor= a 0 0 0 4576.0 205.0 7001.0 34509.0 4.0 34509.0 213.0 4480.0 1433.0 0 c 0 0 0 1488.0 584.0 34509.0 157.0 34509.0 88.0 34509.0 34509.0 3329.0 0 g 0 0 0 2575.0 90.0 2551.0 4742.0 6.0 1759.0 254.0 3255.0 359.0 0 t 0 0 0 25869.0 34509.0 1175.0 2386.0 0.0 39.0 70.0 6880.0 34509.0 0
MA0807.1_rc_shift4 (TBX5_rc)				; oligos_7nt_mkv5_m3 versus MA0807.1_rc (TBX5_rc); m=18/36; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.576366; ----TmACACCT- ; cor=; Ncor= a 0 0 0 0 283.0 915.0 1804.0 0.0 1804.0 28.0 133.0 207.0 0 c 0 0 0 0 343.0 1804.0 201.0 1804.0 166.0 1804.0 1804.0 409.0 0 g 0 0 0 0 76.0 616.0 225.0 0.0 131.0 0.0 190.0 89.0 0 t 0 0 0 0 1804.0 126.0 162.0 27.0 45.0 0.0 235.0 1804.0 0
MA0803.1_rc_shift4 (TBX15_rc)				; oligos_7nt_mkv5_m3 versus MA0803.1_rc (TBX15_rc); m=19/36; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.567238; ----TCACACCT- ; cor=; Ncor= a 0 0 0 0 96.0 937.0 10502.0 0.0 10502.0 0.0 103.0 112.0 0 c 0 0 0 0 306.0 10502.0 324.0 10502.0 245.0 10502.0 10502.0 664.0 0 g 0 0 0 0 71.0 454.0 435.0 8.0 175.0 7.0 101.0 74.0 0 t 0 0 0 0 10502.0 44.0 140.0 0.0 61.0 19.0 458.0 10502.0 0
MA0039.5_shift4 (KLF4)				; oligos_7nt_mkv5_m3 versus MA0039.5 (KLF4); m=20/36; ncol2=8; w=0; offset=2; strand=D; shift=4; score=0.56606; ----CCCCACCC- ; cor=; Ncor= a 0 0 0 0 2465.0 2105.0 7021.0 1173.0 45602.0 852.0 1617.0 1202.0 0 c 0 0 0 0 49209.0 47865.0 45405.0 52875.0 161.0 52366.0 51112.0 51045.0 0 g 0 0 0 0 1583.0 1214.0 1422.0 793.0 6598.0 1470.0 1870.0 1005.0 0 t 0 0 0 0 2560.0 4633.0 1969.0 976.0 3456.0 1129.0 1218.0 2565.0 0
MA0801.1_rc_shift4 (MGA_rc)				; oligos_7nt_mkv5_m3 versus MA0801.1_rc (MGA_rc); m=21/36; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.564691; ----TCACACCT- ; cor=; Ncor= a 0 0 0 0 274.0 6465.0 30489.0 11.0 30489.0 104.0 1929.0 4160.0 0 c 0 0 0 0 920.0 30489.0 381.0 30489.0 96.0 30489.0 30489.0 8873.0 0 g 0 0 0 0 110.0 1753.0 3089.0 1.0 3534.0 509.0 3737.0 1151.0 0 t 0 0 0 0 30489.0 689.0 1042.0 14.0 12.0 16.0 4310.0 30489.0 0
MA0805.1_rc_shift4 (TBX1_rc)				; oligos_7nt_mkv5_m3 versus MA0805.1_rc (TBX1_rc); m=22/36; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.558011; ----TCACACCT- ; cor=; Ncor= a 0 0 0 0 0.0 1039.0 11931.0 0.0 11931.0 0.0 669.0 564.0 0 c 0 0 0 0 18.0 11931.0 109.0 11931.0 141.0 11931.0 11931.0 1007.0 0 g 0 0 0 0 33.0 720.0 613.0 5.0 214.0 0.0 711.0 113.0 0 t 0 0 0 0 11931.0 141.0 142.0 0.0 28.0 0.0 1560.0 11931.0 0
MA1564.2_shift4 (SP9)				; oligos_7nt_mkv5_m3 versus MA1564.2 (SP9); m=23/36; ncol2=10; w=0; offset=2; strand=D; shift=4; score=0.556945; ----cCmCGCCCm ; cor=; Ncor= a 0 0 0 0 566.0 321.0 2451.0 2.0 211.0 22.0 0.0 39.0 1192.0 c 0 0 0 0 2451.0 2451.0 1127.0 2451.0 200.0 2451.0 2451.0 2451.0 1259.0 g 0 0 0 0 309.0 113.0 56.0 17.0 2451.0 0.0 0.0 24.0 38.0 t 0 0 0 0 518.0 284.0 96.0 9.0 173.0 14.0 30.0 412.0 353.0
MA0493.3_rc_shift4 (KLF1_rc)				; oligos_7nt_mkv5_m3 versus MA0493.3_rc (KLF1_rc); m=24/36; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.552267; ----CCmCrCCC- ; cor=; Ncor= a 0 0 0 0 1.0 21.0 324.0 1.0 346.0 1.0 1.0 1.0 0 c 0 0 0 0 998.0 896.0 675.0 998.0 1.0 998.0 998.0 998.0 0 g 0 0 0 0 1.0 1.0 1.0 1.0 529.0 1.0 1.0 1.0 0 t 0 0 0 0 1.0 82.0 1.0 1.0 125.0 1.0 1.0 1.0 0
MA0806.1_rc_shift4 (TBX4_rc)				; oligos_7nt_mkv5_m3 versus MA0806.1_rc (TBX4_rc); m=25/36; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.54966; ----TcACACCT- ; cor=; Ncor= a 0 0 0 0 965.0 8384.0 18646.0 0.0 18646.0 33.0 1162.0 1283.0 0 c 0 0 0 0 1733.0 18646.0 304.0 18646.0 191.0 18646.0 18646.0 2353.0 0 g 0 0 0 0 588.0 5396.0 2859.0 0.0 1644.0 189.0 2328.0 437.0 0 t 0 0 0 0 18646.0 1355.0 1551.0 0.0 0.0 38.0 3082.0 18646.0 0
MA0002.3_rc_shift1 (Runx1_rc)				; oligos_7nt_mkv5_m3 versus MA0002.3_rc (Runx1_rc); m=26/36; ncol2=9; w=-1; offset=-1; strand=R; shift=1; score=0.536546; -waaCCACAr--- ; cor=; Ncor= a 0 1053.0 1325.0 1339.0 93.0 13.0 1716.0 53.0 1936.0 656.0 0 0 0 c 0 289.0 81.0 251.0 1848.0 1987.0 70.0 1872.0 7.0 149.0 0 0 0 g 0 158.0 463.0 400.0 42.0 0.0 127.0 75.0 0.0 1072.0 0 0 0 t 0 500.0 131.0 10.0 17.0 0.0 87.0 0.0 57.0 123.0 0 0 0
MA0747.2_shift4 (SP8)				; oligos_7nt_mkv5_m3 versus MA0747.2 (SP8); m=27/36; ncol2=11; w=0; offset=2; strand=D; shift=4; score=0.530551; ----mCACgCCCm ; cor=; Ncor= a 0 0 0 0 54.0 25.0 133.0 7.0 25.0 5.0 2.0 0.0 90.0 c 0 0 0 0 113.0 167.0 33.0 167.0 37.0 167.0 167.0 167.0 77.0 g 0 0 0 0 0.0 0.0 1.0 1.0 167.0 6.0 3.0 4.0 6.0 t 0 0 0 0 4.0 13.0 2.0 5.0 39.0 2.0 0.0 15.0 3.0
MA0130.1_shift2 (ZNF354C)				; oligos_7nt_mkv5_m3 versus MA0130.1 (ZNF354C); m=28/36; ncol2=6; w=0; offset=0; strand=D; shift=2; score= 0.5129; --mTCCAC----- ; cor=; Ncor= a 0 0 7.0 3.0 0.0 0.0 16.0 0.0 0 0 0 0 0 c 0 0 6.0 2.0 16.0 16.0 0.0 15.0 0 0 0 0 0 g 0 0 3.0 0.0 0.0 0.0 0.0 1.0 0 0 0 0 0 t 0 0 0.0 11.0 0.0 0.0 0.0 0.0 0 0 0 0 0
MA1989.2_shift1 (Bcl11B)				; oligos_7nt_mkv5_m3 versus MA1989.2 (Bcl11B); m=29/36; ncol2=9; w=-1; offset=-1; strand=D; shift=1; score=0.51283; -aAACCACAa--- ; cor=; Ncor= a 0 24743.0 31408.0 36130.0 1391.0 1058.0 36734.0 1718.0 36053.0 23689.0 0 0 0 c 0 5084.0 2339.0 1397.0 36798.0 37476.0 940.0 35985.0 1397.0 3546.0 0 0 0 g 0 3712.0 3044.0 1662.0 762.0 416.0 796.0 1217.0 1246.0 7120.0 0 0 0 t 0 6252.0 3000.0 602.0 840.0 841.0 1321.0 871.0 1095.0 5436.0 0 0 0
MA0479.2_shift1 (FOXH1)				; oligos_7nt_mkv5_m3 versus MA0479.2 (FOXH1); m=30/36; ncol2=8; w=-1; offset=-1; strand=D; shift=1; score=0.484392; -AATMCACA---- ; cor=; Ncor= a 0 8211.0 7547.0 0.0 2374.0 1414.0 8211.0 0.0 7138.0 0 0 0 0 c 0 0.0 0.0 0.0 5773.0 6797.0 0.0 8211.0 0.0 0 0 0 0 g 0 0.0 229.0 0.0 0.0 0.0 0.0 0.0 0.0 0 0 0 0 t 0 0.0 435.0 8211.0 64.0 0.0 0.0 0.0 1073.0 0 0 0 0
MA1620.2_shift6 (Ptf1A)				; oligos_7nt_mkv5_m3 versus MA1620.2 (Ptf1A); m=31/36; ncol2=8; w=0; offset=4; strand=D; shift=6; score=0.454613; ------aCACCTG ; cor=; Ncor= a 0 0 0 0 0 0 6867.0 184.0 10033.0 116.0 256.0 85.0 68.0 c 0 0 0 0 0 0 1188.0 9887.0 60.0 8567.0 9612.0 94.0 109.0 g 0 0 0 0 0 0 1410.0 113.0 84.0 1182.0 294.0 98.0 9972.0 t 0 0 0 0 0 0 826.0 107.0 114.0 426.0 129.0 10014.0 142.0
MA0162.5_shift0 (EGR1)				; oligos_7nt_mkv5_m3 versus MA0162.5 (EGR1); m=32/36; ncol2=10; w=-2; offset=-2; strand=D; shift=0; score=0.446602; mCGCCCACgC--- ; cor=; Ncor= a 14508.0 642.0 5110.0 227.0 1440.0 314.0 22297.0 153.0 4696.0 969.0 0 0 0 c 10303.0 28403.0 1131.0 29338.0 27321.0 28958.0 5420.0 29507.0 2806.0 25196.0 0 0 0 g 3854.0 756.0 22237.0 665.0 1455.0 698.0 2122.0 699.0 20544.0 2157.0 0 0 0 t 1933.0 797.0 2120.0 368.0 382.0 628.0 759.0 239.0 2552.0 2276.0 0 0 0
MA0103.4_shift7 (ZEB1)				; oligos_7nt_mkv5_m3 versus MA0103.4 (ZEB1); m=33/36; ncol2=6; w=0; offset=5; strand=D; shift=7; score=0.436156; -------CACCTG ; cor=; Ncor= a 0 0 0 0 0 0 0 114.0 19905.0 32.0 193.0 4.0 441.0 c 0 0 0 0 0 0 0 19195.0 0.0 19878.0 19257.0 501.0 178.0 g 0 0 0 0 0 0 0 158.0 223.0 97.0 649.0 355.0 19381.0 t 0 0 0 0 0 0 0 662.0 1.0 122.0 30.0 19269.0 129.0
MA0820.2_shift7 (FIGLA)				; oligos_7nt_mkv5_m3 versus MA0820.2 (FIGLA); m=34/36; ncol2=6; w=0; offset=5; strand=D; shift=7; score=0.417117; -------CACCTG ; cor=; Ncor= a 0 0 0 0 0 0 0 0.0 1780.0 0.0 9.0 56.0 36.0 c 0 0 0 0 0 0 0 1780.0 46.0 1780.0 1780.0 0.0 33.0 g 0 0 0 0 0 0 0 0.0 0.0 527.0 311.0 17.0 1780.0 t 0 0 0 0 0 0 0 29.0 14.0 0.0 0.0 1780.0 65.0
MA0695.2_shift1 (ZBTB7C)				; oligos_7nt_mkv5_m3 versus MA0695.2 (ZBTB7C); m=35/36; ncol2=8; w=-1; offset=-1; strand=D; shift=1; score=0.412371; -cgACCACC---- ; cor=; Ncor= a 0 183.0 351.0 1018.0 39.0 0.0 1018.0 18.0 90.0 0 0 0 0 c 0 1018.0 128.0 225.0 1018.0 1018.0 269.0 1018.0 1018.0 0 0 0 0 g 0 215.0 1018.0 8.0 0.0 5.0 8.0 7.0 54.0 0 0 0 0 t 0 110.0 137.0 24.0 0.0 14.0 10.0 17.0 90.0 0 0 0 0
MA1964.2_shift4 (SMAD2)				; oligos_7nt_mkv5_m3 versus MA1964.2 (SMAD2); m=36/36; ncol2=6; w=0; offset=2; strand=D; shift=4; score=0.409148; ----CCAGAC--- ; cor=; Ncor= a 0 0 0 0 42.0 6.0 3447.0 7.0 3747.0 1.0 0 0 0 c 0 0 0 0 3610.0 3484.0 149.0 30.0 0.0 3757.0 0 0 0 g 0 0 0 0 86.0 171.0 154.0 3703.0 0.0 0.0 0 0 0 t 0 0 0 0 20.0 97.0 8.0 18.0 11.0 0.0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_7nt_m2_shift2 (positions_7nt_m2)				; positions_7nt_m2; m=0 (reference); ncol1=11; shift=2; ncol=13; --AaAAAAAAAaA ; Alignment reference a 0 0 19250 18525 26699 26379 26277 25271 26112 26259 26647 18371 19321 c 0 0 2006 1667 22 44 57 77 32 58 365 2091 2333 g 0 0 2115 1773 85 61 56 54 32 38 17 1868 2269 t 0 0 3902 5308 467 789 883 1871 1097 918 244 4943 3350
MA1125.2_shift5 (ZNF384)				; positions_7nt_m2 versus MA1125.2 (ZNF384); m=1/4; ncol2=8; w=0; offset=3; strand=D; shift=5; score=0.725447; -----AAAAAAaa ; cor=; Ncor= a 0 0 0 0 0 30354.0 30191.0 30072.0 30252.0 30202.0 30406.0 20322.0 18916.0 c 0 0 0 0 0 7.0 35.0 21.0 13.0 26.0 6.0 2908.0 3963.0 g 0 0 0 0 0 13.0 19.0 26.0 15.0 14.0 0.0 2767.0 2898.0 t 0 0 0 0 0 59.0 188.0 314.0 153.0 191.0 21.0 4436.0 4656.0
MA1487.3_shift0 (FOXE1)				; positions_7nt_m2 versus MA1487.3 (FOXE1); m=2/4; ncol2=12; w=-2; offset=-2; strand=D; shift=0; score=0.538882; yTAARyAAACAa- ; cor=; Ncor= a 86.0 581.0 3126.0 2547.0 2255.0 587.0 3126.0 3126.0 3126.0 0.0 3126.0 2026.0 0 c 1646.0 43.0 28.0 113.0 117.0 1062.0 362.0 90.0 0.0 3126.0 32.0 392.0 0 g 57.0 0.0 402.0 116.0 871.0 17.0 0.0 0.0 23.0 0.0 18.0 258.0 0 t 1479.0 2545.0 43.0 579.0 27.0 2064.0 20.0 53.0 9.0 85.0 110.0 450.0 0
MA2124.1_rc_shift6 (Hmga1_rc)				; positions_7nt_m2 versus MA2124.1_rc (Hmga1_rc); m=3/4; ncol2=8; w=0; offset=4; strand=R; shift=6; score=0.422334; ------wTAAAAA ; cor=; Ncor= a 0 0 0 0 0 0 11340.0 542.0 24333.0 24654.0 24779.0 24269.0 24172.0 c 0 0 0 0 0 0 2438.0 358.0 294.0 237.0 138.0 303.0 421.0 g 0 0 0 0 0 0 2348.0 473.0 409.0 264.0 194.0 200.0 393.0 t 0 0 0 0 0 0 9680.0 24433.0 770.0 651.0 695.0 1034.0 820.0
MA0901.3_shift0 (HOXB13)				; positions_7nt_m2 versus MA0901.3 (HOXB13); m=4/4; ncol2=9; w=-2; offset=-2; strand=D; shift=0; score=0.407978; cCAATAAAA---- ; cor=; Ncor= a 11896.0 4212.0 66409.0 73044.0 421.0 73612.0 75997.0 76077.0 70230.0 0 0 0 0 c 47674.0 65312.0 4611.0 726.0 550.0 523.0 599.0 760.0 2465.0 0 0 0 0 g 9096.0 582.0 351.0 1913.0 586.0 1083.0 490.0 625.0 1882.0 0 0 0 0 t 10048.0 8608.0 7343.0 3031.0 77157.0 3496.0 1628.0 1252.0 4137.0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m2_shift6 (positions_6nt_m2)				; positions_6nt_m2; m=0 (reference); ncol1=11; shift=6; ncol=17; ------wwCCCCTTAwh ; Alignment reference a 0 0 0 0 0 0 1279 1282 330 190 247 317 365 181 3656 1030 1099 c 0 0 0 0 0 0 608 697 2744 3508 3434 3235 139 61 61 824 1116 g 0 0 0 0 0 0 729 669 314 35 57 51 118 43 35 754 504 t 0 0 0 0 0 0 1251 1219 479 134 129 264 3245 3582 115 1259 1148
MA0122.4_shift6 (Nkx3-2)				; positions_6nt_m2 versus MA0122.4 (Nkx3-2); m=1/11; ncol2=10; w=0; offset=0; strand=D; shift=6; score=0.695855; ------aamCACTTAa- ; cor=; Ncor= a 0 0 0 0 0 0 5714.0 5598.0 2604.0 79.0 9907.0 151.0 50.0 95.0 9680.0 5620.0 0 c 0 0 0 0 0 0 952.0 1109.0 5079.0 9900.0 82.0 9965.0 32.0 138.0 147.0 991.0 0 g 0 0 0 0 0 0 1466.0 1154.0 1504.0 23.0 19.0 10.0 29.0 68.0 68.0 1368.0 0 t 0 0 0 0 0 0 2088.0 2359.0 1033.0 218.0 212.0 94.0 10109.0 9919.0 325.0 2241.0 0
MA0124.3_shift8 (Nkx3-1)				; positions_6nt_m2 versus MA0124.3 (Nkx3-1); m=2/11; ncol2=7; w=0; offset=2; strand=D; shift=8; score=0.495266; --------cCACTTA-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 981.0 0.0 5335.0 59.0 0.0 0.0 5335.0 0 0 c 0 0 0 0 0 0 0 0 5335.0 5335.0 28.0 5335.0 1.0 254.0 273.0 0 0 g 0 0 0 0 0 0 0 0 1776.0 10.0 10.0 9.0 0.0 0.0 173.0 0 0 t 0 0 0 0 0 0 0 0 275.0 336.0 88.0 9.0 5335.0 5335.0 523.0 0 0
MA0482.3_shift10 (GATA4)				; positions_6nt_m2 versus MA0482.3 (GATA4); m=3/11; ncol2=8; w=0; offset=4; strand=D; shift=10; score=0.479321; ----------cCTTATC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 3977.0 3150.0 1586.0 1650.0 54420.0 770.0 480.0 c 0 0 0 0 0 0 0 0 0 0 38289.0 50062.0 1429.0 1377.0 1703.0 582.0 56544.0 g 0 0 0 0 0 0 0 0 0 0 5099.0 1103.0 749.0 808.0 1245.0 539.0 568.0 t 0 0 0 0 0 0 0 0 0 0 11649.0 4699.0 55250.0 55179.0 1646.0 57123.0 1422.0
MA1608.2_shift9 (Isl1)				; positions_6nt_m2 versus MA1608.2 (Isl1); m=4/11; ncol2=7; w=0; offset=3; strand=D; shift=9; score=0.478611; ---------CCATTAg- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 356.0 432.0 5476.0 67.0 64.0 5462.0 1089.0 0 c 0 0 0 0 0 0 0 0 0 4710.0 4885.0 30.0 54.0 104.0 45.0 410.0 0 g 0 0 0 0 0 0 0 0 0 192.0 54.0 99.0 34.0 39.0 20.0 3702.0 0 t 0 0 0 0 0 0 0 0 0 379.0 266.0 32.0 5482.0 5430.0 110.0 436.0 0
MA1545.2_shift8 (OVOL2)				; positions_6nt_m2 versus MA1545.2 (OVOL2); m=5/11; ncol2=7; w=0; offset=2; strand=D; shift=8; score=0.450066; --------aCCGTTA-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 8885.0 3.0 0.0 0.0 0.0 0.0 12491.0 0 0 c 0 0 0 0 0 0 0 0 1602.0 12491.0 12491.0 0.0 1402.0 0.0 13.0 0 0 g 0 0 0 0 0 0 0 0 450.0 24.0 41.0 12491.0 0.0 9.0 151.0 0 0 t 0 0 0 0 0 0 0 0 3607.0 0.0 0.0 0.0 12491.0 12491.0 0.0 0 0
MA1117.2_shift5 (RELB)				; positions_6nt_m2 versus MA1117.2 (RELB); m=6/11; ncol2=7; w=-1; offset=-1; strand=D; shift=5; score=0.429345; -----ATTCCCC----- ; cor=; Ncor= a 0 0 0 0 0 2833.0 210.0 90.0 144.0 92.0 146.0 79.0 0 0 0 0 0 c 0 0 0 0 0 127.0 107.0 103.0 2928.0 3098.0 3013.0 3035.0 0 0 0 0 0 g 0 0 0 0 0 157.0 159.0 53.0 40.0 28.0 58.0 107.0 0 0 0 0 0 t 0 0 0 0 0 173.0 2814.0 3044.0 178.0 72.0 73.0 69.0 0 0 0 0 0
MA1578.2_shift6 (VEZF1)				; positions_6nt_m2 versus MA1578.2 (VEZF1); m=7/11; ncol2=6; w=0; offset=0; strand=D; shift=6; score=0.423548; ------CCCCCC----- ; cor=; Ncor= a 0 0 0 0 0 0 71.0 1.0 4.0 2.0 6.0 10.0 0 0 0 0 0 c 0 0 0 0 0 0 790.0 997.0 995.0 997.0 989.0 977.0 0 0 0 0 0 g 0 0 0 0 0 0 137.0 0.0 0.0 0.0 0.0 3.0 0 0 0 0 0 t 0 0 0 0 0 0 0.0 0.0 0.0 0.0 4.0 8.0 0 0 0 0 0
MA0056.3_shift5 (MZF1)				; positions_6nt_m2 versus MA0056.3 (MZF1); m=8/11; ncol2=8; w=-1; offset=-1; strand=D; shift=5; score=0.420223; -----AATCCCCA---- ; cor=; Ncor= a 0 0 0 0 0 5855.0 7149.0 106.0 100.0 135.0 111.0 117.0 6036.0 0 0 0 0 c 0 0 0 0 0 1016.0 426.0 56.0 7949.0 7939.0 7919.0 7673.0 611.0 0 0 0 0 g 0 0 0 0 0 999.0 385.0 98.0 100.0 54.0 58.0 83.0 484.0 0 0 0 0 t 0 0 0 0 0 372.0 282.0 7982.0 93.0 114.0 154.0 369.0 1111.0 0 0 0 0
MA0766.3_rc_shift10 (GATA5_rc)				; positions_6nt_m2 versus MA0766.3_rc (GATA5_rc); m=9/11; ncol2=8; w=0; offset=4; strand=R; shift=10; score=0.413754; ----------ysTTATC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 668.0 586.0 204.0 331.0 15369.0 0.0 0.0 c 0 0 0 0 0 0 0 0 0 0 8179.0 7774.0 200.0 0.0 0.0 0.0 15369.0 g 0 0 0 0 0 0 0 0 0 0 3215.0 7594.0 0.0 0.0 0.0 0.0 0.0 t 0 0 0 0 0 0 0 0 0 0 7190.0 212.0 15369.0 15369.0 0.0 15369.0 0.0
MA0036.4_shift11 (GATA2)				; positions_6nt_m2 versus MA0036.4 (GATA2); m=10/11; ncol2=7; w=0; offset=5; strand=D; shift=11; score=0.410576; -----------CTTATC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 940.0 444.0 417.0 14098.0 145.0 96.0 c 0 0 0 0 0 0 0 0 0 0 0 10607.0 259.0 34.0 14.0 77.0 13786.0 g 0 0 0 0 0 0 0 0 0 0 0 1223.0 150.0 21.0 43.0 48.0 126.0 t 0 0 0 0 0 0 0 0 0 0 0 1443.0 13360.0 13741.0 58.0 13943.0 205.0
MA1600.2_shift0 (ZNF684)				; positions_6nt_m2 versus MA1600.2 (ZNF684); m=11/11; ncol2=14; w=-6; offset=-6; strand=D; shift=0; score=0.40504; ACAGTCCACCCCTT--- ; cor=; Ncor= a 1238.0 9.0 1184.0 60.0 9.0 13.0 40.0 1012.0 3.0 44.0 7.0 0.0 249.0 56.0 0 0 0 c 24.0 1253.0 11.0 216.0 14.0 1236.0 1221.0 9.0 1226.0 1253.0 1229.0 1263.0 129.0 59.0 0 0 0 g 68.0 9.0 110.0 1135.0 59.0 25.0 2.0 57.0 63.0 10.0 7.0 0.0 18.0 14.0 0 0 0 t 19.0 19.0 131.0 74.0 1259.0 10.0 67.0 220.0 61.0 6.0 92.0 3.0 1107.0 1224.0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m4_shift2 (positions_6nt_m4)				; positions_6nt_m4; m=0 (reference); ncol1=11; shift=2; ncol=13; --syACGTGCTaa ; Alignment reference a 0 0 1190 868 4086 236 453 115 108 189 234 1779 1550 c 0 0 1250 2027 218 4003 221 294 788 4446 358 1014 1164 g 0 0 1317 771 455 253 3996 93 3876 125 562 909 1090 t 0 0 1170 1261 168 435 257 4425 155 167 3773 1225 1123
MA2325.1_rc_shift2 (EPAS1_rc)				; positions_6nt_m4 versus MA2325.1_rc (EPAS1_rc); m=1/37; ncol2=9; w=0; offset=0; strand=R; shift=2; score=0.692566; --skACGTGCg-- ; cor=; Ncor= a 0 0 48.0 13.0 583.0 5.0 3.0 1.0 3.0 44.0 100.0 0 0 c 0 0 255.0 43.0 16.0 626.0 6.0 15.0 1.0 545.0 115.0 0 0 g 0 0 323.0 174.0 36.0 2.0 629.0 4.0 635.0 23.0 352.0 0 0 t 0 0 14.0 410.0 5.0 7.0 2.0 620.0 1.0 28.0 73.0 0 0
MA1560.2_shift2 (SOHLH2)				; positions_6nt_m4 versus MA1560.2 (SOHLH2); m=2/37; ncol2=8; w=0; offset=0; strand=D; shift=2; score=0.669276; --gCACGTGc--- ; cor=; Ncor= a 0 0 172.0 45.0 1212.0 0.0 14.0 36.0 41.0 272.0 0 0 0 c 0 0 264.0 1212.0 0.0 1212.0 0.0 65.0 4.0 1212.0 0 0 0 g 0 0 1212.0 29.0 41.0 11.0 1212.0 0.0 1212.0 172.0 0 0 0 t 0 0 276.0 70.0 0.0 7.0 15.0 1212.0 4.0 153.0 0 0 0
MA0616.3_rc_shift2 (HES2_rc)				; positions_6nt_m4 versus MA0616.3_rc (HES2_rc); m=3/37; ncol2=9; w=0; offset=0; strand=R; shift=2; score=0.638323; --rCACGTGcC-- ; cor=; Ncor= a 0 0 3849.0 0.0 8483.0 0.0 129.0 0.0 73.0 1581.0 798.0 0 0 c 0 0 1289.0 8483.0 0.0 8483.0 0.0 2028.0 85.0 8483.0 8483.0 0 0 g 0 0 4634.0 15.0 1098.0 0.0 8483.0 0.0 8483.0 1107.0 1193.0 0 0 t 0 0 512.0 53.0 0.0 0.0 0.0 6455.0 118.0 1501.0 775.0 0 0
MA0626.2_rc_shift2 (Npas2_rc)				; positions_6nt_m4 versus MA0626.2_rc (Npas2_rc); m=4/37; ncol2=8; w=0; offset=0; strand=R; shift=2; score=0.635606; --aCACGTGs--- ; cor=; Ncor= a 0 0 566.0 0.0 999.0 0.0 0.0 0.0 0.0 48.0 0 0 0 c 0 0 188.0 918.0 0.0 918.0 0.0 0.0 0.0 420.0 0 0 0 g 0 0 172.0 0.0 0.0 0.0 918.0 0.0 999.0 377.0 0 0 0 t 0 0 74.0 81.0 0.0 81.0 81.0 999.0 0.0 154.0 0 0 0
MA0147.4_shift2 (MYC)				; positions_6nt_m4 versus MA0147.4 (MYC); m=5/37; ncol2=8; w=0; offset=0; strand=D; shift=2; score=0.635348; --CCACGTGc--- ; cor=; Ncor= a 0 0 438.0 44.0 4600.0 54.0 169.0 59.0 23.0 419.0 0 0 0 c 0 0 3746.0 4840.0 59.0 4525.0 157.0 162.0 56.0 2801.0 0 0 0 g 0 0 472.0 31.0 170.0 70.0 4578.0 63.0 4817.0 1198.0 0 0 0 t 0 0 286.0 27.0 113.0 293.0 38.0 4658.0 46.0 524.0 0 0 0
MA0059.2_rc_shift1 (MAX::MYC_rc)				; positions_6nt_m4 versus MA0059.2_rc (MAX::MYC_rc); m=6/37; ncol2=10; w=-1; offset=-1; strand=R; shift=1; score=0.629193; -aCCACGTGsT-- ; cor=; Ncor= a 0 13.0 1.0 0.0 20.0 0.0 1.0 0.0 0.0 1.0 1.0 0 0 c 0 0.0 18.0 21.0 0.0 20.0 0.0 0.0 0.0 9.0 4.0 0 0 g 0 5.0 1.0 0.0 1.0 0.0 20.0 0.0 20.0 9.0 1.0 0 0 t 0 3.0 1.0 0.0 0.0 1.0 0.0 21.0 1.0 2.0 15.0 0 0
MA0464.3_shift2 (BHLHE40)				; positions_6nt_m4 versus MA0464.3 (BHLHE40); m=7/37; ncol2=8; w=0; offset=0; strand=D; shift=2; score=0.628422; --kCACGTGm--- ; cor=; Ncor= a 0 0 1391.0 59.0 11222.0 23.0 66.0 167.0 4.0 5927.0 0 0 0 c 0 0 481.0 11222.0 130.0 11222.0 30.0 248.0 12.0 5295.0 0 0 0 g 0 0 5000.0 0.0 78.0 2.0 11222.0 87.0 11222.0 129.0 0 0 0 t 0 0 6222.0 14.0 77.0 32.0 0.0 11222.0 72.0 500.0 0 0 0
MA0649.2_shift1 (HEY2)				; positions_6nt_m4 versus MA0649.2 (HEY2); m=8/37; ncol2=9; w=-1; offset=-1; strand=D; shift=1; score=0.603367; -GrCACGTGy--- ; cor=; Ncor= a 0 107.0 651.0 84.0 1800.0 7.0 27.0 36.0 0.0 50.0 0 0 0 c 0 99.0 305.0 1800.0 0.0 1800.0 72.0 120.0 34.0 1047.0 0 0 0 g 0 1800.0 620.0 83.0 128.0 0.0 1800.0 0.0 1800.0 128.0 0 0 0 t 0 101.0 224.0 58.0 0.0 0.0 0.0 1800.0 30.0 753.0 0 0 0
MA0823.1_shift1 (HEY1)				; positions_6nt_m4 versus MA0823.1 (HEY1); m=9/37; ncol2=10; w=-1; offset=-1; strand=D; shift=1; score=0.592677; -grCACGTGyc-- ; cor=; Ncor= a 0 437.0 1373.0 1.0 3338.0 0.0 0.0 0.0 32.0 333.0 475.0 0 0 c 0 761.0 656.0 3338.0 30.0 3338.0 18.0 474.0 19.0 1762.0 2172.0 0 0 g 0 1788.0 1199.0 3.0 123.0 0.0 3338.0 10.0 3338.0 380.0 373.0 0 0 t 0 352.0 110.0 15.0 21.0 0.0 0.0 3338.0 22.0 863.0 318.0 0 0
MA0821.2_shift1 (HES5)				; positions_6nt_m4 versus MA0821.2 (HES5); m=10/37; ncol2=10; w=-1; offset=-1; strand=D; shift=1; score=0.58585; -grCACGTGyc-- ; cor=; Ncor= a 0 2390.0 4529.0 212.0 9037.0 49.0 467.0 159.0 66.0 339.0 1439.0 0 0 c 0 2209.0 2601.0 10849.0 204.0 10849.0 164.0 1804.0 121.0 6325.0 8460.0 0 0 g 0 8459.0 6320.0 113.0 1812.0 193.0 10849.0 199.0 10849.0 2606.0 2240.0 0 0 t 0 1455.0 358.0 74.0 146.0 472.0 68.0 9045.0 231.0 4524.0 2389.0 0 0
MA0822.1_shift0 (HES7)				; positions_6nt_m4 versus MA0822.1 (HES7); m=11/37; ncol2=12; w=-2; offset=-2; strand=D; shift=0; score=0.585353; yGGCACGTGCCr- ; cor=; Ncor= a 168.0 24.0 160.0 1.0 1864.0 0.0 4.0 3.0 2.0 8.0 0.0 946.0 0 c 790.0 19.0 29.0 1864.0 3.0 1864.0 1.0 3.0 1.0 1864.0 1864.0 47.0 0 g 43.0 1864.0 1864.0 0.0 7.0 0.0 1864.0 1.0 1864.0 5.0 9.0 734.0 0 t 863.0 3.0 2.0 3.0 0.0 0.0 1.0 1864.0 0.0 93.0 9.0 137.0 0
MA0819.3_shift2 (CLOCK)				; positions_6nt_m4 versus MA0819.3 (CLOCK); m=12/37; ncol2=7; w=0; offset=0; strand=D; shift=2; score=0.584375; --aCACGTG---- ; cor=; Ncor= a 0 0 2009.0 146.0 2009.0 0.0 244.0 7.0 5.0 0 0 0 0 c 0 0 584.0 2009.0 3.0 2009.0 11.0 87.0 1.0 0 0 0 0 g 0 0 383.0 0.0 52.0 4.0 2009.0 6.0 2009.0 0 0 0 0 t 0 0 89.0 0.0 0.0 302.0 0.0 2009.0 52.0 0 0 0 0
MA0664.2_rc_shift3 (MLXIPL_rc)				; positions_6nt_m4 versus MA0664.2_rc (MLXIPL_rc); m=13/37; ncol2=8; w=0; offset=1; strand=R; shift=3; score=0.580302; ---CACGTGay-- ; cor=; Ncor= a 0 0 0 0.0 562.0 0.0 0.0 5.0 0.0 468.0 113.0 0 0 c 0 0 0 727.0 3.0 735.0 12.0 2.0 11.0 133.0 220.0 0 0 g 0 0 0 0.0 0.0 2.0 452.0 0.0 448.0 28.0 31.0 0 0 t 0 0 0 0.0 0.0 20.0 2.0 411.0 0.0 126.0 345.0 0 0
MA1493.1_rc_shift1 (HES6_rc)				; positions_6nt_m4 versus MA1493.1_rc (HES6_rc); m=14/37; ncol2=10; w=-1; offset=-1; strand=R; shift=1; score=0.571988; -rACACGTGCC-- ; cor=; Ncor= a 0 209.0 439.0 0.0 439.0 0.0 16.0 11.0 15.0 13.0 43.0 0 0 c 0 0.0 0.0 439.0 29.0 439.0 9.0 9.0 19.0 439.0 439.0 0 0 g 0 152.0 21.0 0.0 7.0 12.0 439.0 0.0 439.0 35.0 39.0 0 0 t 0 79.0 33.0 0.0 0.0 10.0 2.0 439.0 17.0 16.0 12.0 0 0
MA0663.1_rc_shift1 (MLX_rc)				; positions_6nt_m4 versus MA0663.1_rc (MLX_rc); m=15/37; ncol2=10; w=-1; offset=-1; strand=R; shift=1; score=0.559955; -aTCACGTGAy-- ; cor=; Ncor= a 0 235.0 16.0 5.0 315.0 1.0 0.0 0.0 4.0 322.0 41.0 0 0 c 0 6.0 35.0 555.0 1.0 558.0 0.0 6.0 3.0 61.0 110.0 0 0 g 0 84.0 9.0 0.0 1.0 0.0 257.0 0.0 251.0 17.0 4.0 0 0 t 0 23.0 240.0 2.0 2.0 1.0 0.0 234.0 3.0 0.0 177.0 0 0
MA0632.3_shift2 (TCFL5)				; positions_6nt_m4 versus MA0632.3 (TCFL5); m=16/37; ncol2=8; w=0; offset=0; strand=D; shift=2; score=0.553779; --kCrCGCGC--- ; cor=; Ncor= a 0 0 2810.0 0.0 72543.0 0.0 1566.0 1765.0 3520.0 1593.0 0 0 0 c 0 0 10582.0 72543.0 0.0 72543.0 0.0 57092.0 657.0 72543.0 0 0 0 g 0 0 22297.0 0.0 29710.0 0.0 72543.0 0.0 72543.0 4594.0 0 0 0 t 0 0 36854.0 0.0 9359.0 1643.0 0.0 15451.0 0.0 635.0 0 0 0
MA0636.1_rc_shift1 (BHLHE41_rc)				; positions_6nt_m4 versus MA0636.1_rc (BHLHE41_rc); m=17/37; ncol2=10; w=-1; offset=-1; strand=R; shift=1; score=0.548071; -gTCACGTGAy-- ; cor=; Ncor= a 0 1963.0 23.0 0.0 5574.0 0.0 5.0 3.0 1.0 5574.0 59.0 0 0 c 0 985.0 7.0 5574.0 16.0 5574.0 1.0 21.0 3.0 1831.0 5574.0 0 0 g 0 5574.0 1229.0 1.0 16.0 1.0 5574.0 12.0 5574.0 17.0 1046.0 0 0 t 0 74.0 5574.0 1.0 19.0 2.0 1.0 5574.0 2.0 98.0 2894.0 0 0
MA1464.2_rc_shift3 (ARNT2_rc)				; positions_6nt_m4 versus MA1464.2_rc (ARNT2_rc); m=18/37; ncol2=8; w=0; offset=1; strand=R; shift=3; score=0.541639; ---CACGTGay-- ; cor=; Ncor= a 0 0 0 971.0 40622.0 0.0 148.0 460.0 0.0 40622.0 1951.0 0 0 c 0 0 0 40622.0 111.0 40622.0 0.0 532.0 115.0 9525.0 28841.0 0 0 g 0 0 0 0.0 932.0 0.0 40622.0 122.0 40622.0 4901.0 4265.0 0 0 t 0 0 0 14.0 651.0 84.0 0.0 40622.0 505.0 9572.0 11781.0 0 0
MA1106.2_shift4 (HIF1A)				; positions_6nt_m4 versus MA1106.2 (HIF1A); m=19/37; ncol2=6; w=0; offset=2; strand=D; shift=4; score=0.538709; ----ACGTGC--- ; cor=; Ncor= a 0 0 0 0 976.0 0.0 1.0 2.0 84.0 88.0 0 0 0 c 0 0 0 0 0.0 979.0 0.0 33.0 41.0 837.0 0 0 0 g 0 0 0 0 2.0 0.0 979.0 11.0 844.0 20.0 0 0 0 t 0 0 0 0 2.0 1.0 0.0 934.0 11.0 35.0 0 0 0
MA0104.5_shift2 (MYCN)				; positions_6nt_m4 versus MA0104.5 (MYCN); m=20/37; ncol2=8; w=0; offset=0; strand=D; shift=2; score=0.536556; --CCACGTGG--- ; cor=; Ncor= a 0 0 480.0 34.0 6369.0 22.0 323.0 274.0 7.0 420.0 0 0 0 c 0 0 5341.0 6929.0 56.0 6517.0 122.0 285.0 14.0 743.0 0 0 0 g 0 0 743.0 14.0 285.0 122.0 6517.0 56.0 6929.0 5341.0 0 0 0 t 0 0 420.0 7.0 274.0 323.0 22.0 6369.0 34.0 480.0 0 0 0
MA1099.3_rc_shift3 (HES1_rc)				; positions_6nt_m4 versus MA1099.3_rc (HES1_rc); m=21/37; ncol2=8; w=0; offset=1; strand=R; shift=3; score=0.536077; ---CACGyGcc-- ; cor=; Ncor= a 0 0 0 53.0 18526.0 0.0 791.0 232.0 18.0 8007.0 4239.0 0 0 c 0 0 0 18526.0 0.0 18526.0 0.0 9081.0 0.0 18526.0 18526.0 0 0 g 0 0 0 0.0 4057.0 0.0 18526.0 0.0 18526.0 2072.0 3492.0 0 0 t 0 0 0 1.0 253.0 21.0 0.0 9446.0 464.0 5858.0 3321.0 0 0
MA0603.2_rc_shift3 (Arntl_rc)				; positions_6nt_m4 versus MA0603.2_rc (Arntl_rc); m=22/37; ncol2=8; w=0; offset=1; strand=R; shift=3; score=0.529345; ---CACGTGAc-- ; cor=; Ncor= a 0 0 0 48.0 837.0 3.0 24.0 21.0 0.0 752.0 71.0 0 0 c 0 0 0 938.0 51.0 946.0 9.0 10.0 0.0 143.0 558.0 0 0 g 0 0 0 4.0 58.0 3.0 965.0 16.0 997.0 44.0 125.0 0 0 t 0 0 0 9.0 54.0 48.0 2.0 953.0 3.0 62.0 246.0 0 0
MA0004.1_shift3 (Arnt)				; positions_6nt_m4 versus MA0004.1 (Arnt); m=23/37; ncol2=6; w=0; offset=1; strand=D; shift=3; score=0.528741; ---CACGTG---- ; cor=; Ncor= a 0 0 0 4.0 19.0 0.0 0.0 0.0 0.0 0 0 0 0 c 0 0 0 16.0 0.0 20.0 0.0 0.0 0.0 0 0 0 0 g 0 0 0 0.0 1.0 0.0 20.0 0.0 20.0 0 0 0 0 t 0 0 0 0.0 0.0 0.0 0.0 20.0 0.0 0 0 0 0
MA0692.2_shift3 (TFEB)				; positions_6nt_m4 versus MA0692.2 (TFEB); m=24/37; ncol2=8; w=0; offset=1; strand=D; shift=3; score=0.526513; ---CACGTGAy-- ; cor=; Ncor= a 0 0 0 17.0 8715.0 0.0 2762.0 454.0 9.0 8715.0 283.0 0 0 c 0 0 0 8715.0 286.0 8715.0 288.0 169.0 10.0 2342.0 5889.0 0 0 g 0 0 0 0.0 62.0 83.0 8715.0 150.0 8715.0 872.0 558.0 0 0 t 0 0 0 3.0 274.0 1155.0 5.0 8715.0 11.0 807.0 2826.0 0 0
MA0825.2_shift3 (MNT)				; positions_6nt_m4 versus MA0825.2 (MNT); m=25/37; ncol2=6; w=0; offset=1; strand=D; shift=3; score=0.519037; ---CACGTG---- ; cor=; Ncor= a 0 0 0 27.0 681.0 0.0 15.0 0.0 0.0 0 0 0 0 c 0 0 0 681.0 0.0 681.0 0.0 0.0 0.0 0 0 0 0 g 0 0 0 0.0 0.0 7.0 681.0 15.0 681.0 0 0 0 0 t 0 0 0 5.0 21.0 16.0 0.0 681.0 25.0 0 0 0 0
MA0622.2_shift3 (Mlxip)				; positions_6nt_m4 versus MA0622.2 (Mlxip); m=26/37; ncol2=6; w=0; offset=1; strand=D; shift=3; score=0.518024; ---CACGTG---- ; cor=; Ncor= a 0 0 0 0.0 999.0 0.0 0.0 0.0 0.0 0 0 0 0 c 0 0 0 999.0 0.0 999.0 0.0 0.0 0.0 0 0 0 0 g 0 0 0 0.0 0.0 0.0 999.0 0.0 999.0 0 0 0 0 t 0 0 0 0.0 0.0 0.0 0.0 999.0 0.0 0 0 0 0
MA0058.4_rc_shift3 (MAX_rc)				; positions_6nt_m4 versus MA0058.4_rc (MAX_rc); m=27/37; ncol2=6; w=0; offset=1; strand=R; shift=3; score=0.516607; ---CACGTG---- ; cor=; Ncor= a 0 0 0 36.0 6876.0 19.0 229.0 38.0 0.0 0 0 0 0 c 0 0 0 6876.0 20.0 6876.0 7.0 87.0 0.0 0 0 0 0 g 0 0 0 27.0 159.0 39.0 6876.0 0.0 6876.0 0 0 0 0 t 0 0 0 0.0 69.0 329.0 0.0 6876.0 39.0 0 0 0 0
MA0871.3_rc_shift1 (TFEC_rc)				; positions_6nt_m4 versus MA0871.3_rc (TFEC_rc); m=28/37; ncol2=8; w=-1; offset=-1; strand=R; shift=1; score=0.513718; -GTCACGTG---- ; cor=; Ncor= a 0 1052.0 47.0 0.0 7952.0 0.0 210.0 374.0 0.0 0 0 0 0 c 0 58.0 143.0 7952.0 0.0 7952.0 0.0 145.0 3.0 0 0 0 0 g 0 6900.0 411.0 4.0 0.0 0.0 7952.0 0.0 7952.0 0 0 0 0 t 0 17.0 7952.0 0.0 0.0 69.0 0.0 7952.0 0.0 0 0 0 0
MA0830.3_shift2 (TCF4)				; positions_6nt_m4 versus MA0830.3 (TCF4); m=29/37; ncol2=8; w=0; offset=0; strand=D; shift=2; score=0.511691; --gCACCTGc--- ; cor=; Ncor= a 0 0 4168.0 243.0 27023.0 216.0 356.0 372.0 251.0 1694.0 0 0 0 c 0 0 5062.0 28686.0 635.0 26765.0 27724.0 1016.0 540.0 18935.0 0 0 0 g 0 0 18498.0 321.0 1295.0 1733.0 1197.0 679.0 28432.0 5281.0 0 0 0 t 0 0 1737.0 215.0 512.0 751.0 188.0 27398.0 242.0 3555.0 0 0 0
MA0608.1_shift1 (Creb3l2)				; positions_6nt_m4 versus MA0608.1 (Creb3l2); m=30/37; ncol2=9; w=-1; offset=-1; strand=D; shift=1; score=0.510688; -KmCACGTGd--- ; cor=; Ncor= a 0 2.0 250.0 1.0 996.0 1.0 1.0 1.0 1.0 250.0 0 0 0 c 0 2.0 623.0 872.0 1.0 996.0 1.0 1.0 143.0 2.0 0 0 0 g 0 745.0 1.0 126.0 1.0 1.0 996.0 1.0 854.0 250.0 0 0 0 t 0 250.0 126.0 1.0 1.0 1.0 1.0 996.0 1.0 498.0 0 0 0
MA0522.4_shift3 (TCF3)				; positions_6nt_m4 versus MA0522.4 (TCF3); m=31/37; ncol2=7; w=0; offset=1; strand=D; shift=3; score=0.492087; ---CACCTGC--- ; cor=; Ncor= a 0 0 0 469.0 28916.0 309.0 1127.0 380.0 1089.0 295.0 0 0 0 c 0 0 0 29379.0 396.0 28640.0 27199.0 2003.0 1038.0 28742.0 0 0 0 g 0 0 0 708.0 1574.0 1362.0 2652.0 1339.0 28642.0 987.0 0 0 0 t 0 0 0 705.0 375.0 950.0 283.0 27539.0 492.0 1237.0 0 0 0
MA1648.2_shift3 (TCF12)				; positions_6nt_m4 versus MA1648.2 (TCF12); m=32/37; ncol2=7; w=0; offset=1; strand=D; shift=3; score=0.478865; ---CACCTGC--- ; cor=; Ncor= a 0 0 0 955.0 52529.0 744.0 1913.0 1380.0 2819.0 1089.0 0 0 0 c 0 0 0 57848.0 2007.0 55598.0 55765.0 3886.0 2088.0 55061.0 0 0 0 g 0 0 0 1186.0 5607.0 3780.0 3536.0 2625.0 55922.0 2314.0 0 0 0 t 0 0 0 1887.0 1733.0 1754.0 662.0 53985.0 1047.0 3412.0 0 0 0
MA2336.1_rc_shift5 (ZSCAN21_rc)				; positions_6nt_m4 versus MA2336.1_rc (ZSCAN21_rc); m=33/37; ncol2=7; w=0; offset=3; strand=R; shift=5; score= 0.4598; -----AGTGCTT- ; cor=; Ncor= a 0 0 0 0 0 885.0 11.0 11.0 154.0 41.0 10.0 65.0 0 c 0 0 0 0 0 16.0 30.0 22.0 32.0 853.0 25.0 55.0 0 g 0 0 0 0 0 9.0 881.0 21.0 744.0 25.0 16.0 124.0 0 t 0 0 0 0 0 37.0 25.0 893.0 17.0 28.0 896.0 703.0 0
MA1558.2_shift2 (SNAI1)				; positions_6nt_m4 versus MA1558.2 (SNAI1); m=34/37; ncol2=7; w=0; offset=0; strand=D; shift=2; score=0.458495; --rCAGGTG---- ; cor=; Ncor= a 0 0 6993.0 446.0 19982.0 1766.0 72.0 38.0 706.0 0 0 0 0 c 0 0 501.0 19982.0 297.0 517.0 5.0 0.0 0.0 0 0 0 0 g 0 0 12989.0 275.0 91.0 19982.0 19982.0 42.0 19982.0 0 0 0 0 t 0 0 3518.0 340.0 568.0 306.0 28.0 19982.0 311.0 0 0 0 0
MA0259.2_shift4 (ARNT::HIF1A)				; positions_6nt_m4 versus MA0259.2 (ARNT::HIF1A); m=35/37; ncol2=5; w=0; offset=2; strand=D; shift=4; score=0.44664; ----ACGTG---- ; cor=; Ncor= a 0 0 0 0 78.0 0.0 0.0 0.0 0.0 0 0 0 0 c 0 0 0 0 2.0 103.0 0.0 0.0 0.0 0 0 0 0 g 0 0 0 0 23.0 0.0 104.0 0.0 104.0 0 0 0 0 t 0 0 0 0 1.0 1.0 0.0 104.0 0.0 0 0 0 0
MA1108.3_rc_shift3 (MXI1_rc)				; positions_6nt_m4 versus MA1108.3_rc (MXI1_rc); m=36/37; ncol2=6; w=0; offset=1; strand=R; shift=3; score=0.408798; ---CATGTG---- ; cor=; Ncor= a 0 0 0 175.0 21541.0 0.0 468.0 7.0 460.0 0 0 0 0 c 0 0 0 21232.0 0.0 1542.0 18.0 170.0 97.0 0 0 0 0 g 0 0 0 114.0 507.0 0.0 21552.0 1.0 21382.0 0 0 0 0 t 0 0 0 527.0 0.0 20506.0 10.0 21870.0 109.0 0 0 0 0
MA0820.2_rc_shift3 (FIGLA_rc)				; positions_6nt_m4 versus MA0820.2_rc (FIGLA_rc); m=37/37; ncol2=6; w=0; offset=1; strand=R; shift=3; score=0.407122; ---CAGGTG---- ; cor=; Ncor= a 0 0 0 65.0 1780.0 0.0 0.0 14.0 29.0 0 0 0 0 c 0 0 0 1780.0 17.0 311.0 527.0 0.0 0.0 0 0 0 0 g 0 0 0 33.0 0.0 1780.0 1780.0 46.0 1780.0 0 0 0 0 t 0 0 0 36.0 56.0 9.0 0.0 1780.0 0.0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m1_shift4 (positions_6nt_m1)				; positions_6nt_m1; m=0 (reference); ncol1=11; shift=4; ncol=15; ----ywCCCCCAayc ; Alignment reference a 0 0 0 0 1278 1381 138 72 156 139 84 4559 2672 1224 1273 c 0 0 0 0 1545 1091 4886 4954 4843 4824 4695 168 1000 1674 1681 g 0 0 0 0 989 1147 63 90 109 172 195 184 823 929 1140 t 0 0 0 0 1364 1557 89 60 68 41 202 265 681 1349 1082
MA0155.1_rc_shift4 (INSM1_rc)				; positions_6nt_m1 versus MA0155.1_rc (INSM1_rc); m=1/22; ncol2=12; w=0; offset=0; strand=R; shift=4; score=0.681642; ----ygmCCCCwkrC ; cor=; Ncor= a 0 0 0 0 2.0 5.0 6.0 0.0 0.0 0.0 0.0 8.0 3.0 13.0 4.0 c 0 0 0 0 12.0 0.0 16.0 24.0 24.0 23.0 24.0 0.0 0.0 3.0 20.0 g 0 0 0 0 0.0 16.0 2.0 0.0 0.0 1.0 0.0 0.0 15.0 8.0 0.0 t 0 0 0 0 10.0 3.0 0.0 0.0 0.0 0.0 0.0 16.0 6.0 0.0 0.0
MA0753.3_shift4 (ZNF740)				; positions_6nt_m1 versus MA0753.3 (ZNF740); m=2/22; ncol2=10; w=0; offset=0; strand=D; shift=4; score=0.664841; ----CCCCCCCCAc- ; cor=; Ncor= a 0 0 0 0 60.0 110.0 18.0 22.0 23.0 10.0 2.0 115.0 1055.0 207.0 0 c 0 0 0 0 1055.0 1055.0 1055.0 1055.0 1055.0 1055.0 1055.0 1055.0 239.0 1055.0 0 g 0 0 0 0 37.0 14.0 4.0 7.0 3.0 7.0 3.0 6.0 68.0 54.0 0 t 0 0 0 0 49.0 1.0 16.0 15.0 11.0 6.0 3.0 4.0 134.0 246.0 0
MA1627.2_shift3 (Wt1)				; positions_6nt_m1 versus MA1627.2 (Wt1); m=3/22; ncol2=10; w=-1; offset=-1; strand=D; shift=3; score=0.599509; ---cCTCCCCCAC-- ; cor=; Ncor= a 0 0 0 839.0 48.0 120.0 21.0 40.0 43.0 850.0 31.0 3294.0 158.0 0 0 c 0 0 0 2948.0 4546.0 69.0 4602.0 4354.0 4252.0 3636.0 4573.0 53.0 3749.0 0 0 g 0 0 0 404.0 58.0 319.0 42.0 75.0 120.0 101.0 46.0 990.0 436.0 0 0 t 0 0 0 500.0 39.0 4183.0 26.0 222.0 276.0 104.0 41.0 354.0 348.0 0 0
MA0737.1_shift3 (GLIS3)				; positions_6nt_m1 versus MA0737.1 (GLIS3); m=4/22; ncol2=14; w=-1; offset=-1; strand=D; shift=3; score=0.575014; ---KACCCCCCACgA ; cor=; Ncor= a 0 0 0 8.0 422.0 0.0 0.0 2.0 0.0 4.0 0.0 886.0 1.0 226.0 529.0 c 0 0 0 41.0 2.0 289.0 280.0 309.0 288.0 200.0 211.0 1.0 204.0 17.0 2.0 g 0 0 0 674.0 13.0 1.0 0.0 0.0 0.0 0.0 0.0 67.0 8.0 648.0 31.0 t 0 0 0 258.0 0.0 1.0 0.0 9.0 1.0 0.0 20.0 9.0 17.0 78.0 87.0
MA0039.5_shift7 (KLF4)				; positions_6nt_m1 versus MA0039.5 (KLF4); m=5/22; ncol2=8; w=0; offset=3; strand=D; shift=7; score= 0.5567; -------CCCCACCC ; cor=; Ncor= a 0 0 0 0 0 0 0 2465.0 2105.0 7021.0 1173.0 45602.0 852.0 1617.0 1202.0 c 0 0 0 0 0 0 0 49209.0 47865.0 45405.0 52875.0 161.0 52366.0 51112.0 51045.0 g 0 0 0 0 0 0 0 1583.0 1214.0 1422.0 793.0 6598.0 1470.0 1870.0 1005.0 t 0 0 0 0 0 0 0 2560.0 4633.0 1969.0 976.0 3456.0 1129.0 1218.0 2565.0
MA0767.2_rc_shift5 (GCM2_rc)				; positions_6nt_m1 versus MA0767.2_rc (GCM2_rc); m=6/22; ncol2=8; w=0; offset=1; strand=R; shift=5; score=0.523425; -----rCCCGCAT-- ; cor=; Ncor= a 0 0 0 0 0 1320.0 0.0 13.0 66.0 127.0 0.0 1320.0 45.0 0 0 c 0 0 0 0 0 91.0 1320.0 1320.0 1320.0 138.0 1320.0 24.0 299.0 0 0 g 0 0 0 0 0 533.0 0.0 0.0 1.0 1320.0 32.0 41.0 77.0 0 0 t 0 0 0 0 0 92.0 1.0 0.0 51.0 84.0 263.0 23.0 1320.0 0 0
MA0735.2_shift2 (GLIS1)				; positions_6nt_m1 versus MA0735.2 (GLIS1); m=7/22; ncol2=15; w=-2; offset=-2; strand=D; shift=2; score=0.519282; --mGACCCCCCACGW ; cor=; Ncor= a 0 0 3236.0 3.0 6314.0 0.0 4.0 0.0 3.0 0.0 6.0 6781.0 0.0 7.0 5759.0 c 0 0 1842.0 44.0 0.0 4807.0 4769.0 4796.0 4817.0 4702.0 4505.0 3.0 4549.0 0.0 4.0 g 0 0 100.0 8617.0 6.0 2.0 2.0 11.0 5.0 0.0 5.0 160.0 0.0 10081.0 32.0 t 0 0 891.0 1016.0 8.0 0.0 3.0 0.0 2.0 7.0 2.0 6.0 0.0 51.0 2024.0
MA1578.2_shift5 (VEZF1)				; positions_6nt_m1 versus MA1578.2 (VEZF1); m=8/22; ncol2=6; w=0; offset=1; strand=D; shift=5; score=0.512218; -----CCCCCC---- ; cor=; Ncor= a 0 0 0 0 0 71.0 1.0 4.0 2.0 6.0 10.0 0 0 0 0 c 0 0 0 0 0 790.0 997.0 995.0 997.0 989.0 977.0 0 0 0 0 g 0 0 0 0 0 137.0 0.0 0.0 0.0 0.0 3.0 0 0 0 0 t 0 0 0 0 0 0.0 0.0 0.0 0.0 4.0 8.0 0 0 0 0
MA1987.2_rc_shift4 (ZNF701_rc)				; positions_6nt_m1 versus MA1987.2_rc (ZNF701_rc); m=9/22; ncol2=17; w=0; offset=0; strand=R; shift=4; score=0.490143; ----TyCCCCCyttr ; cor=; Ncor= a 0 0 0 0 110.0 27.0 15.0 62.0 15.0 3.0 27.0 86.0 217.0 205.0 265.0 c 0 0 0 0 146.0 455.0 872.0 753.0 920.0 979.0 896.0 384.0 217.0 193.0 146.0 g 0 0 0 0 51.0 86.0 3.0 3.0 51.0 3.0 3.0 98.0 122.0 158.0 503.0 t 0 0 0 0 693.0 432.0 110.0 182.0 15.0 15.0 74.0 432.0 443.0 443.0 86.0
MA1630.3_rc_shift1 (ZNF281_rc)				; positions_6nt_m1 versus MA1630.3_rc (ZNF281_rc); m=10/22; ncol2=10; w=-3; offset=-3; strand=R; shift=1; score=0.467465; -CCCCTCCCCC---- ; cor=; Ncor= a 0 7.0 18.0 1.0 105.0 96.0 1.0 1.0 1.0 1.0 1.0 0 0 0 0 c 0 920.0 940.0 998.0 772.0 1.0 998.0 998.0 963.0 998.0 998.0 0 0 0 0 g 0 27.0 1.0 1.0 1.0 183.0 1.0 1.0 1.0 1.0 1.0 0 0 0 0 t 0 47.0 41.0 1.0 122.0 720.0 1.0 1.0 35.0 1.0 1.0 0 0 0 0
MA1548.2_shift3 (PLAGL2)				; positions_6nt_m1 versus MA1548.2 (PLAGL2); m=11/22; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.458662; ---GGGCCCCC---- ; cor=; Ncor= a 0 0 0 39.0 0.0 0.0 0.0 0.0 0.0 0.0 90.0 0 0 0 0 c 0 0 0 39.0 0.0 151.0 799.0 999.0 999.0 925.0 684.0 0 0 0 0 g 0 0 0 813.0 999.0 848.0 200.0 0.0 0.0 0.0 25.0 0 0 0 0 t 0 0 0 107.0 0.0 0.0 0.0 0.0 0.0 74.0 198.0 0 0 0 0
MA0695.2_shift3 (ZBTB7C)				; positions_6nt_m1 versus MA0695.2 (ZBTB7C); m=12/22; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.427002; ---cgACCACC---- ; cor=; Ncor= a 0 0 0 183.0 351.0 1018.0 39.0 0.0 1018.0 18.0 90.0 0 0 0 0 c 0 0 0 1018.0 128.0 225.0 1018.0 1018.0 269.0 1018.0 1018.0 0 0 0 0 g 0 0 0 215.0 1018.0 8.0 0.0 5.0 8.0 7.0 54.0 0 0 0 0 t 0 0 0 110.0 137.0 24.0 0.0 14.0 10.0 17.0 90.0 0 0 0 0
MA1515.2_shift3 (KLF2)				; positions_6nt_m1 versus MA1515.2 (KLF2); m=13/22; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.423117; ---CCmCrCCC---- ; cor=; Ncor= a 0 0 0 741.0 403.0 4622.0 0.0 1702.0 0.0 128.0 68.0 0 0 0 0 c 0 0 0 4622.0 4622.0 2265.0 4622.0 274.0 4622.0 4622.0 4622.0 0 0 0 0 g 0 0 0 495.0 186.0 1060.0 0.0 2920.0 49.0 195.0 105.0 0 0 0 0 t 0 0 0 346.0 312.0 214.0 78.0 167.0 22.0 9.0 444.0 0 0 0 0
MA1117.2_shift3 (RELB)				; positions_6nt_m1 versus MA1117.2 (RELB); m=14/22; ncol2=7; w=-1; offset=-1; strand=D; shift=3; score=0.421854; ---ATTCCCC----- ; cor=; Ncor= a 0 0 0 2833.0 210.0 90.0 144.0 92.0 146.0 79.0 0 0 0 0 0 c 0 0 0 127.0 107.0 103.0 2928.0 3098.0 3013.0 3035.0 0 0 0 0 0 g 0 0 0 157.0 159.0 53.0 40.0 28.0 58.0 107.0 0 0 0 0 0 t 0 0 0 173.0 2814.0 3044.0 178.0 72.0 73.0 69.0 0 0 0 0 0
MA2341.1_shift8 (FEZF2)				; positions_6nt_m1 versus MA2341.1 (FEZF2); m=15/22; ncol2=8; w=0; offset=4; strand=D; shift=8; score=0.413345; --------CCCAGCC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 17.0 5.0 4.0 231.0 6.0 8.0 7.0 c 0 0 0 0 0 0 0 0 202.0 206.0 258.0 15.0 8.0 224.0 247.0 g 0 0 0 0 0 0 0 0 10.0 9.0 0.0 14.0 251.0 28.0 2.0 t 0 0 0 0 0 0 0 0 36.0 45.0 3.0 5.0 0.0 5.0 9.0
MA1604.2_shift8 (Ebf2)				; positions_6nt_m1 versus MA1604.2 (Ebf2); m=16/22; ncol2=9; w=0; offset=4; strand=D; shift=8; score=0.412817; --------CCCAAGG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 196.0 513.0 435.0 19235.0 19155.0 737.0 1276.0 c 0 0 0 0 0 0 0 0 25497.0 24252.0 25137.0 3744.0 1347.0 239.0 220.0 g 0 0 0 0 0 0 0 0 376.0 259.0 242.0 1427.0 3635.0 25103.0 24386.0 t 0 0 0 0 0 0 0 0 192.0 1237.0 447.0 1855.0 2124.0 182.0 379.0
MA1959.2_rc_shift3 (KLF7_rc)				; positions_6nt_m1 versus MA1959.2_rc (KLF7_rc); m=17/22; ncol2=8; w=-1; offset=-1; strand=R; shift=3; score=0.41211; ---CcMCGCCC---- ; cor=; Ncor= a 0 0 0 1.0 167.0 254.0 1.0 167.0 1.0 1.0 1.0 0 0 0 0 c 0 0 0 997.0 642.0 720.0 997.0 1.0 997.0 997.0 997.0 0 0 0 0 g 0 0 0 1.0 42.0 25.0 1.0 788.0 1.0 1.0 1.0 0 0 0 0 t 0 0 0 1.0 150.0 1.0 1.0 45.0 1.0 1.0 1.0 0 0 0 0
MA1644.2_shift9 (NFYC)				; positions_6nt_m1 versus MA1644.2 (NFYC); m=18/22; ncol2=7; w=0; offset=5; strand=D; shift=9; score=0.410655; ---------CCAATC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 287.0 380.0 12776.0 12317.0 259.0 532.0 c 0 0 0 0 0 0 0 0 0 12507.0 12880.0 325.0 376.0 374.0 11224.0 g 0 0 0 0 0 0 0 0 0 394.0 111.0 103.0 549.0 71.0 1464.0 t 0 0 0 0 0 0 0 0 0 428.0 245.0 412.0 374.0 12912.0 396.0
MA0493.3_rc_shift3 (KLF1_rc)				; positions_6nt_m1 versus MA0493.3_rc (KLF1_rc); m=19/22; ncol2=8; w=-1; offset=-1; strand=R; shift=3; score=0.410368; ---CCmCrCCC---- ; cor=; Ncor= a 0 0 0 1.0 21.0 324.0 1.0 346.0 1.0 1.0 1.0 0 0 0 0 c 0 0 0 998.0 896.0 675.0 998.0 1.0 998.0 998.0 998.0 0 0 0 0 g 0 0 0 1.0 1.0 1.0 1.0 529.0 1.0 1.0 1.0 0 0 0 0 t 0 0 0 1.0 82.0 1.0 1.0 125.0 1.0 1.0 1.0 0 0 0 0
MA1637.2_shift8 (EBF3)				; positions_6nt_m1 versus MA1637.2 (EBF3); m=20/22; ncol2=9; w=0; offset=4; strand=D; shift=8; score=0.408265; --------CCCAAGG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 219.0 382.0 336.0 15089.0 15926.0 515.0 881.0 c 0 0 0 0 0 0 0 0 21297.0 20681.0 21017.0 3634.0 1150.0 260.0 230.0 g 0 0 0 0 0 0 0 0 361.0 261.0 324.0 1436.0 3374.0 21188.0 20589.0 t 0 0 0 0 0 0 0 0 185.0 738.0 385.0 1903.0 1612.0 99.0 362.0
MA0741.1_shift0 (KLF16)				; positions_6nt_m1 versus MA0741.1 (KLF16); m=21/22; ncol2=11; w=-4; offset=-4; strand=D; shift=0; score=0.405945; gmCMCgCCCMC---- ; cor=; Ncor= a 666.0 901.0 62.0 1150.0 66.0 497.0 8.0 2.0 16.0 437.0 32.0 0 0 0 0 c 535.0 1612.0 1612.0 461.0 1612.0 173.0 1612.0 1612.0 1612.0 1175.0 1612.0 0 0 0 0 g 1612.0 77.0 6.0 32.0 17.0 1612.0 0.0 8.0 3.0 19.0 23.0 0 0 0 0 t 240.0 116.0 45.0 0.0 19.0 403.0 0.0 0.0 97.0 40.0 370.0 0 0 0 0
MA0747.2_shift1 (SP8)				; positions_6nt_m1 versus MA0747.2 (SP8); m=22/22; ncol2=11; w=-3; offset=-3; strand=D; shift=1; score=0.402757; -mCACgCCCmCy--- ; cor=; Ncor= a 0 54.0 25.0 133.0 7.0 25.0 5.0 2.0 0.0 90.0 13.0 31.0 0 0 0 c 0 113.0 167.0 33.0 167.0 37.0 167.0 167.0 167.0 77.0 167.0 52.0 0 0 0 g 0 0.0 0.0 1.0 1.0 167.0 6.0 3.0 4.0 6.0 21.0 1.0 0 0 0 t 0 4.0 13.0 2.0 5.0 39.0 2.0 0.0 15.0 3.0 39.0 82.0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv4_m5_shift3 (oligos_6nt_mkv4_m5)				; oligos_6nt_mkv4_m5; m=0 (reference); ncol1=10; shift=3; ncol=13; ---yyCTGTGAkb ; Alignment reference a 0 0 0 1303 1412 86 40 33 69 42 6357 1418 1469 c 0 0 0 1968 1755 6489 683 9 373 50 193 1545 1717 g 0 0 0 1292 1641 151 627 6694 63 6599 60 1972 1779 t 0 0 0 2195 1950 32 5408 22 6253 67 148 1823 1793
MA0038.3_rc_shift3 (GFI1_rc)				; oligos_6nt_mkv4_m5 versus MA0038.3_rc (GFI1_rc); m=1/9; ncol2=11; w=0; offset=0; strand=R; shift=3; score=0.657347; ---tGChGTGATT ; cor=; Ncor= a 0 0 0 4134.0 3702.0 888.0 13996.0 0.0 1594.0 10.0 30161.0 1.0 0.0 c 0 0 0 4079.0 0.0 27514.0 8349.0 3888.0 0.0 0.0 0.0 0.0 0.0 g 0 0 0 5221.0 27891.0 266.0 54.0 27769.0 0.0 30139.0 0.0 0.0 2.0 t 0 0 0 16713.0 292.0 2294.0 7748.0 838.0 29255.0 15.0 0.0 30150.0 30168.0
MA0483.2_rc_shift4 (Gfi1B_rc)				; oligos_6nt_mkv4_m5 versus MA0483.2_rc (Gfi1B_rc); m=2/9; ncol2=10; w=0; offset=1; strand=R; shift=4; score=0.584354; ----GCwGwGATT ; cor=; Ncor= a 0 0 0 0 215.0 27.0 644.0 0.0 707.0 0.0 1395.0 0.0 0.0 c 0 0 0 0 76.0 1676.0 1.0 388.0 0.0 0.0 28.0 2.0 0.0 g 0 0 0 0 1328.0 1.0 0.0 1312.0 21.0 1761.0 338.0 0.0 0.0 t 0 0 0 0 142.0 57.0 1116.0 61.0 1033.0 0.0 0.0 1759.0 1761.0
MA0774.1_rc_shift4 (MEIS2_rc)				; oligos_6nt_mkv4_m5 versus MA0774.1_rc (MEIS2_rc); m=3/9; ncol2=8; w=0; offset=1; strand=R; shift=4; score=0.569126; ----sCTGTCAa- ; cor=; Ncor= a 0 0 0 0 88.0 67.0 0.0 5.0 62.0 0.0 1351.0 1351.0 0 c 0 0 0 0 650.0 1351.0 4.0 0.0 25.0 1351.0 40.0 314.0 0 g 0 0 0 0 701.0 98.0 7.0 1351.0 3.0 0.0 3.0 264.0 0 t 0 0 0 0 157.0 83.0 1351.0 9.0 1351.0 0.0 31.0 408.0 0
MA0769.3_shift5 (TCF7)				; oligos_6nt_mkv4_m5 versus MA0769.3 (TCF7); m=4/9; ncol2=7; w=0; offset=2; strand=D; shift=5; score=0.51927; -----CTTTGAw- ; cor=; Ncor= a 0 0 0 0 0 252.0 246.0 302.0 360.0 266.0 14577.0 4421.0 0 c 0 0 0 0 0 14379.0 125.0 248.0 62.0 278.0 63.0 855.0 0 g 0 0 0 0 0 206.0 67.0 266.0 83.0 13972.0 115.0 1220.0 0 t 0 0 0 0 0 157.0 14556.0 14178.0 14489.0 478.0 239.0 8498.0 0
MA1629.2_rc_shift1 (Zic2_rc)				; oligos_6nt_mkv4_m5 versus MA1629.2_rc (Zic2_rc); m=5/9; ncol2=9; w=-2; offset=-2; strand=R; shift=1; score=0.473084; -CCTGCTGtG--- ; cor=; Ncor= a 0 154.0 410.0 441.0 298.0 67.0 268.0 120.0 2437.0 240.0 0 0 0 c 0 11465.0 11184.0 735.0 269.0 11484.0 186.0 188.0 829.0 585.0 0 0 0 g 0 204.0 133.0 118.0 11272.0 228.0 391.0 11476.0 1765.0 9933.0 0 0 0 t 0 96.0 192.0 10625.0 80.0 140.0 11074.0 135.0 6888.0 1161.0 0 0 0
MA1593.2_rc_shift1 (ZNF317_rc)				; oligos_6nt_mkv4_m5 versus MA1593.2_rc (ZNF317_rc); m=6/9; ncol2=8; w=-2; offset=-2; strand=R; shift=1; score=0.414664; -TCTGCTGT---- ; cor=; Ncor= a 0 224.0 263.0 1601.0 237.0 206.0 717.0 178.0 1245.0 0 0 0 0 c 0 206.0 10730.0 289.0 223.0 10374.0 317.0 183.0 480.0 0 0 0 0 g 0 208.0 186.0 250.0 10608.0 192.0 85.0 10821.0 357.0 0 0 0 0 t 0 10825.0 284.0 9323.0 395.0 691.0 10344.0 281.0 9381.0 0 0 0 0
MA1646.2_rc_shift1 (OSR2_rc)				; oligos_6nt_mkv4_m5 versus MA1646.2_rc (OSR2_rc); m=7/9; ncol2=8; w=-2; offset=-2; strand=R; shift=1; score=0.409683; -GCTTCTGt---- ; cor=; Ncor= a 0 1192.0 240.0 279.0 1526.0 157.0 275.0 211.0 1950.0 0 0 0 0 c 0 841.0 13982.0 516.0 901.0 14206.0 737.0 406.0 2117.0 0 0 0 0 g 0 12109.0 170.0 288.0 703.0 229.0 197.0 13937.0 2221.0 0 0 0 0 t 0 666.0 416.0 13725.0 11678.0 216.0 13599.0 254.0 8520.0 0 0 0 0
MA1523.2_rc_shift7 (MSANTD3_rc)				; oligos_6nt_mkv4_m5 versus MA1523.2_rc (MSANTD3_rc); m=8/9; ncol2=7; w=0; offset=4; strand=R; shift=7; score=0.401453; -------kTGAGT ; cor=; Ncor= a 0 0 0 0 0 0 0 96.0 59.0 60.0 954.0 45.0 16.0 c 0 0 0 0 0 0 0 63.0 24.0 29.0 0.0 27.0 2.0 g 0 0 0 0 0 0 0 568.0 140.0 862.0 7.0 896.0 0.0 t 0 0 0 0 0 0 0 271.0 775.0 47.0 37.0 31.0 980.0
MA2327.1_shift0 (PGR)				; oligos_6nt_mkv4_m5 versus MA2327.1 (PGR); m=9/9; ncol2=9; w=-3; offset=-3; strand=D; shift=0; score=0.400103; ACAkwmTGT---- ; cor=; Ncor= a 29390.0 299.0 27485.0 5276.0 8275.0 8527.0 328.0 765.0 173.0 0 0 0 0 c 121.0 28612.0 363.0 6470.0 6654.0 9602.0 1695.0 185.0 190.0 0 0 0 0 g 189.0 185.0 1689.0 9598.0 6656.0 6465.0 364.0 28617.0 122.0 0 0 0 0 t 164.0 768.0 327.0 8520.0 8279.0 5270.0 27477.0 297.0 29379.0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv4_m2_shift7 (oligos_6nt_mkv4_m2)				; oligos_6nt_mkv4_m2; m=0 (reference); ncol1=10; shift=7; ncol=17; -------amACTGAAaa ; Alignment reference a 0 0 0 0 0 0 0 3064 2447 6102 12 38 24 6128 6121 2576 2614 c 0 0 0 0 0 0 0 771 1857 4 6187 223 9 24 65 1166 986 g 0 0 0 0 0 0 0 1146 1006 69 16 291 6160 12 19 1525 1488 t 0 0 0 0 0 0 0 1238 909 44 4 5667 26 55 14 952 1131
MA0050.4_shift5 (Irf1)				; oligos_6nt_mkv4_m2 versus MA0050.4 (Irf1); m=1/14; ncol2=11; w=-2; offset=-2; strand=D; shift=5; score=0.651842; -----tGAAAcTGAAA- ; cor=; Ncor= a 0 0 0 0 0 3724.0 1661.0 13772.0 14795.0 14878.0 1939.0 1900.0 1017.0 14145.0 14424.0 14172.0 0 c 0 0 0 0 0 1292.0 637.0 361.0 253.0 176.0 9822.0 933.0 314.0 298.0 353.0 365.0 0 g 0 0 0 0 0 2035.0 12682.0 1024.0 258.0 240.0 3315.0 274.0 14013.0 775.0 499.0 607.0 0 t 0 0 0 0 0 8589.0 660.0 483.0 334.0 346.0 564.0 12533.0 296.0 422.0 364.0 496.0 0
MA1709.2_shift7 (ZIM3)				; oligos_6nt_mkv4_m2 versus MA1709.2 (ZIM3); m=2/14; ncol2=11; w=0; offset=0; strand=D; shift=7; score=0.645353; -------mAACAGAAAc ; cor=; Ncor= a 0 0 0 0 0 0 0 5336.0 16896.0 16502.0 853.0 17067.0 194.0 15879.0 16933.0 14228.0 2482.0 c 0 0 0 0 0 0 0 8338.0 118.0 107.0 15856.0 38.0 72.0 840.0 90.0 306.0 7474.0 g 0 0 0 0 0 0 0 1327.0 106.0 229.0 435.0 39.0 16877.0 165.0 110.0 575.0 3674.0 t 0 0 0 0 0 0 0 2219.0 100.0 382.0 76.0 76.0 77.0 336.0 87.0 2111.0 3590.0
MA1623.2_shift6 (Stat2)				; oligos_6nt_mkv4_m2 versus MA1623.2 (Stat2); m=3/14; ncol2=10; w=-1; offset=-1; strand=D; shift=6; score=0.623259; ------gAAACAGAAA- ; cor=; Ncor= a 0 0 0 0 0 0 969.0 3554.0 3736.0 3738.0 286.0 3146.0 152.0 3700.0 3747.0 3514.0 0 c 0 0 0 0 0 0 306.0 76.0 75.0 72.0 2907.0 151.0 45.0 49.0 45.0 147.0 0 g 0 0 0 0 0 0 2287.0 168.0 71.0 87.0 524.0 74.0 3707.0 163.0 98.0 157.0 0 t 0 0 0 0 0 0 397.0 161.0 77.0 62.0 242.0 588.0 55.0 47.0 69.0 141.0 0
MA0652.2_shift5 (IRF8)				; oligos_6nt_mkv4_m2 versus MA0652.2 (IRF8); m=4/14; ncol2=13; w=-2; offset=-2; strand=D; shift=5; score=0.562174; -----CGAAACCGAAAC ; cor=; Ncor= a 0 0 0 0 0 63.0 3.0 5878.0 5878.0 5878.0 54.0 6.0 0.0 5878.0 5878.0 5878.0 11.0 c 0 0 0 0 0 5878.0 0.0 2.0 0.0 0.0 5878.0 5878.0 0.0 0.0 0.0 5.0 5878.0 g 0 0 0 0 0 19.0 5878.0 0.0 0.0 0.0 580.0 0.0 5878.0 3.0 2.0 0.0 1061.0 t 0 0 0 0 0 884.0 2.0 0.0 33.0 3.0 6.0 1228.0 0.0 0.0 68.0 0.0 15.0
MA0517.2_rc_shift5 (STAT1::STAT2_rc)				; oligos_6nt_mkv4_m2 versus MA0517.2_rc (STAT1::STAT2_rc); m=5/14; ncol2=13; w=-2; offset=-2; strand=R; shift=5; score=0.547854; -----rGRAAmyGAAAC ; cor=; Ncor= a 0 0 0 0 0 191.0 107.0 442.0 608.0 593.0 241.0 99.0 39.0 600.0 615.0 618.0 2.0 c 0 0 0 0 0 36.0 9.0 4.0 0.0 10.0 161.0 191.0 0.0 4.0 0.0 0.0 467.0 g 0 0 0 0 0 365.0 489.0 170.0 2.0 13.0 111.0 75.0 581.0 13.0 2.0 2.0 148.0 t 0 0 0 0 0 28.0 15.0 4.0 10.0 4.0 107.0 255.0 0.0 3.0 3.0 0.0 3.0
MA0772.2_shift5 (IRF7)				; oligos_6nt_mkv4_m2 versus MA0772.2 (IRF7); m=6/14; ncol2=13; w=-2; offset=-2; strand=D; shift=5; score=0.544209; -----CGAAAryGAAAv ; cor=; Ncor= a 0 0 0 0 0 97.0 36.0 957.0 957.0 957.0 279.0 8.0 30.0 957.0 957.0 957.0 1184.0 c 0 0 0 0 0 957.0 67.0 3.0 0.0 2.0 156.0 582.0 3.0 16.0 3.0 10.0 957.0 g 0 0 0 0 0 50.0 957.0 1.0 0.0 1.0 505.0 2.0 957.0 4.0 3.0 7.0 1235.0 t 0 0 0 0 0 46.0 90.0 0.0 1.0 1.0 17.0 375.0 7.0 5.0 1.0 41.0 301.0
MA1155.1_shift2 (ZSCAN4)				; oligos_6nt_mkv4_m2 versus MA1155.1 (ZSCAN4); m=7/14; ncol2=15; w=-5; offset=-5; strand=D; shift=2; score=0.522338; --tGCACACmCTGaAAa ; cor=; Ncor= a 0 0 257.0 290.0 0.0 1292.0 0.0 1281.0 3.0 772.0 7.0 8.0 3.0 1118.0 1225.0 1269.0 1000.0 c 0 0 383.0 2.0 1676.0 0.0 1665.0 0.0 1702.0 374.0 1684.0 11.0 50.0 107.0 279.0 0.0 200.0 g 0 0 112.0 1737.0 1.0 0.0 0.0 2.0 0.0 320.0 0.0 75.0 1873.0 230.0 0.0 2.0 365.0 t 0 0 1373.0 0.0 0.0 2.0 0.0 2.0 73.0 8.0 2.0 1699.0 218.0 362.0 6.0 1.0 229.0
MA1420.1_shift4 (IRF5)				; oligos_6nt_mkv4_m2 versus MA1420.1 (IRF5); m=8/14; ncol2=14; w=-3; offset=-3; strand=D; shift=4; score=0.52137; ----cCGAAACCGAAmC ; cor=; Ncor= a 0 0 0 0 35.0 10.0 15.0 223.0 224.0 225.0 1.0 0.0 105.0 224.0 206.0 223.0 29.0 c 0 0 0 0 169.0 177.0 3.0 2.0 5.0 0.0 180.0 182.0 30.0 11.0 6.0 84.0 171.0 g 0 0 0 0 22.0 17.0 357.0 6.0 4.0 5.0 0.0 0.0 365.0 7.0 25.0 12.0 25.0 t 0 0 0 0 42.0 38.0 21.0 7.0 44.0 1.0 4.0 37.0 8.0 1.0 40.0 15.0 22.0
MA0063.3_shift8 (NKX2-5)				; oligos_6nt_mkv4_m2 versus MA0063.3 (NKX2-5); m=9/14; ncol2=7; w=0; offset=1; strand=D; shift=8; score=0.515166; --------CACTCAA-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 96.0 5246.0 144.0 135.0 222.0 4819.0 4931.0 0 0 c 0 0 0 0 0 0 0 0 5002.0 48.0 5098.0 82.0 4319.0 120.0 165.0 0 0 g 0 0 0 0 0 0 0 0 24.0 76.0 49.0 61.0 62.0 217.0 98.0 0 0 t 0 0 0 0 0 0 0 0 322.0 74.0 153.0 5166.0 841.0 288.0 250.0 0 0
MA1419.2_shift5 (IRF4)				; oligos_6nt_mkv4_m2 versus MA1419.2 (IRF4); m=10/14; ncol2=14; w=-2; offset=-2; strand=D; shift=5; score=0.506873; -----CGAAACCGAAAC ; cor=; Ncor= a 0 0 0 0 0 364.0 350.0 45331.0 45331.0 45331.0 187.0 27.0 57.0 45331.0 45331.0 45331.0 829.0 c 0 0 0 0 0 45331.0 66.0 124.0 8.0 6.0 45331.0 45331.0 6.0 46.0 11.0 15.0 45331.0 g 0 0 0 0 0 87.0 45331.0 91.0 25.0 4.0 593.0 4.0 45331.0 7.0 23.0 4.0 4251.0 t 0 0 0 0 0 5937.0 31.0 112.0 444.0 8.0 497.0 3801.0 3.0 5.0 1002.0 13.0 80.0
MA0653.1_shift3 (IRF9)				; oligos_6nt_mkv4_m2 versus MA0653.1 (IRF9); m=11/14; ncol2=15; w=-4; offset=-4; strand=D; shift=3; score=0.486427; ---AwCGAAACCGAAAC ; cor=; Ncor= a 0 0 0 3467.0 2392.0 49.0 43.0 3467.0 3467.0 3467.0 43.0 16.0 2.0 3467.0 3467.0 3467.0 4.0 c 0 0 0 52.0 498.0 3467.0 3.0 5.0 0.0 2.0 3467.0 3467.0 0.0 2.0 1.0 0.0 3467.0 g 0 0 0 43.0 204.0 33.0 3467.0 1.0 0.0 0.0 197.0 0.0 3467.0 0.0 0.0 0.0 239.0 t 0 0 0 110.0 1076.0 118.0 5.0 0.0 3.0 1.0 9.0 831.0 1.0 0.0 21.0 3.0 2.0
MA0100.4_shift7 (MYB)				; oligos_6nt_mkv4_m2 versus MA0100.4 (MYB); m=12/14; ncol2=6; w=0; offset=0; strand=D; shift=7; score=0.480571; -------CAACTG---- ; cor=; Ncor= a 0 0 0 0 0 0 0 0.0 1478.0 1519.0 0.0 1.0 8.0 0 0 0 0 c 0 0 0 0 0 0 0 1513.0 3.0 2.0 1527.0 60.0 3.0 0 0 0 0 g 0 0 0 0 0 0 0 5.0 39.0 0.0 0.0 68.0 1516.0 0 0 0 0 t 0 0 0 0 0 0 0 9.0 7.0 6.0 0.0 1398.0 0.0 0 0 0 0
MA1418.2_shift0 (IRF3)				; oligos_6nt_mkv4_m2 versus MA1418.2 (IRF3); m=13/14; ncol2=17; w=-7; offset=-7; strand=D; shift=0; score=0.428181; rrAAmGGAAACCGAAAC ; cor=; Ncor= a 8451.0 12887.0 18311.0 19157.0 14210.0 288.0 154.0 19385.0 19350.0 19428.0 423.0 711.0 394.0 19322.0 19386.0 19410.0 569.0 c 700.0 17.0 83.0 214.0 14600.0 7338.0 14.0 15.0 15.0 22.0 18363.0 18316.0 8.0 137.0 51.0 84.0 17758.0 g 14773.0 9047.0 3484.0 193.0 5575.0 26852.0 27999.0 55.0 59.0 43.0 1150.0 3396.0 27995.0 83.0 36.0 56.0 3274.0 t 2099.0 629.0 2153.0 377.0 6865.0 3058.0 19.0 10.0 54.0 324.0 864.0 2348.0 8.0 26.0 486.0 787.0 516.0
MA0693.4_rc_shift11 (Vdr_rc)				; oligos_6nt_mkv4_m2 versus MA0693.4_rc (Vdr_rc); m=14/14; ncol2=7; w=0; offset=4; strand=R; shift=11; score=0.414732; -----------TGAACT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 750.0 2057.0 35628.0 35489.0 1110.0 813.0 c 0 0 0 0 0 0 0 0 0 0 0 826.0 406.0 574.0 1555.0 36028.0 1137.0 g 0 0 0 0 0 0 0 0 0 0 0 661.0 34477.0 655.0 520.0 599.0 644.0 t 0 0 0 0 0 0 0 0 0 0 0 36305.0 1602.0 1685.0 978.0 805.0 35948.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv4_m1_shift4 (oligos_6nt_mkv4_m1)				; oligos_6nt_mkv4_m1; m=0 (reference); ncol1=11; shift=4; ncol=15; ----wyATTTTCawt ; Alignment reference a 0 0 0 0 3044 2292 10859 90 536 472 470 445 6607 3433 2463 c 0 0 0 0 1685 3133 12 34 50 69 66 10225 2621 1826 1842 g 0 0 0 0 1579 2146 54 32 151 98 49 47 120 2520 1854 t 0 0 0 0 5156 3893 539 11308 10727 10825 10879 747 2116 3685 5305
MA0052.5_rc_shift4 (MEF2A_rc)				; oligos_6nt_mkv4_m1 versus MA0052.5_rc (MEF2A_rc); m=1/15; ncol2=10; w=0; offset=0; strand=R; shift=4; score=0.645453; ----CTATTTTTAg- ; cor=; Ncor= a 0 0 0 0 1432.0 108.0 15157.0 831.0 1237.0 835.0 2167.0 1646.0 12325.0 2252.0 0 c 0 0 0 0 11104.0 422.0 215.0 202.0 241.0 506.0 610.0 1066.0 236.0 1007.0 0 g 0 0 0 0 1060.0 50.0 349.0 173.0 231.0 141.0 253.0 1013.0 2974.0 10919.0 0 t 0 0 0 0 2566.0 15582.0 441.0 14956.0 14453.0 14680.0 13132.0 12437.0 627.0 1984.0 0
MA1525.3_rc_shift6 (NFATC4_rc)				; oligos_6nt_mkv4_m1 versus MA1525.3_rc (NFATC4_rc); m=2/15; ncol2=9; w=0; offset=2; strand=R; shift=6; score=0.606657; ------wkTTTCCrt ; cor=; Ncor= a 0 0 0 0 0 0 3012.0 1164.0 107.0 0.0 0.0 0.0 0.0 4553.0 1505.0 c 0 0 0 0 0 0 138.0 1149.0 42.0 0.0 0.0 7139.0 7139.0 43.0 2590.0 g 0 0 0 0 0 0 1280.0 6522.0 460.0 0.0 0.0 0.0 0.0 2586.0 715.0 t 0 0 0 0 0 0 2709.0 7139.0 7139.0 7139.0 7139.0 0.0 0.0 16.0 7139.0
MA0606.3_rc_shift7 (Nfat5_rc)				; oligos_6nt_mkv4_m1 versus MA0606.3_rc (Nfat5_rc); m=3/15; ncol2=8; w=0; offset=3; strand=R; shift=7; score=0.605097; -------TTTTCCAT ; cor=; Ncor= a 0 0 0 0 0 0 0 14.0 10.0 9.0 5.0 7.0 11.0 302.0 13.0 c 0 0 0 0 0 0 0 19.0 8.0 10.0 15.0 325.0 332.0 9.0 47.0 g 0 0 0 0 0 0 0 8.0 4.0 1.0 8.0 8.0 0.0 10.0 17.0 t 0 0 0 0 0 0 0 315.0 334.0 336.0 328.0 16.0 13.0 35.0 279.0
MA0041.3_rc_shift1 (FOXD3_rc)				; oligos_6nt_mkv4_m1 versus MA0041.3_rc (FOXD3_rc); m=4/15; ncol2=14; w=-3; offset=-3; strand=R; shift=1; score=0.584918; -tGTTTRTTTdywtw ; cor=; Ncor= a 0 47.0 30.0 35.0 11.0 7.0 128.0 2.0 7.0 2.0 171.0 10.0 81.0 22.0 85.0 c 0 30.0 13.0 20.0 8.0 2.0 0.0 7.0 0.0 1.0 8.0 115.0 45.0 52.0 13.0 g 0 20.0 171.0 17.0 11.0 4.0 43.0 1.0 8.0 37.0 109.0 17.0 45.0 17.0 22.0 t 0 125.0 13.0 171.0 171.0 171.0 0.0 171.0 171.0 171.0 99.0 56.0 91.0 120.0 86.0
MA2124.1_shift6 (Hmga1)				; oligos_6nt_mkv4_m1 versus MA2124.1 (Hmga1); m=5/15; ncol2=8; w=0; offset=2; strand=D; shift=6; score=0.57936; ------ATTTTTAw- ; cor=; Ncor= a 0 0 0 0 0 0 25051.0 820.0 1034.0 695.0 651.0 770.0 24433.0 9680.0 0 c 0 0 0 0 0 0 71.0 393.0 200.0 194.0 264.0 409.0 473.0 2348.0 0 g 0 0 0 0 0 0 188.0 421.0 303.0 138.0 237.0 294.0 358.0 2438.0 0 t 0 0 0 0 0 0 496.0 24172.0 24269.0 24779.0 24654.0 24333.0 542.0 11340.0 0
MA0627.3_rc_shift6 (POU2F3_rc)				; oligos_6nt_mkv4_m1 versus MA0627.3_rc (POU2F3_rc); m=6/15; ncol2=9; w=0; offset=2; strand=R; shift=6; score=0.573047; ------ATTTGCATa ; cor=; Ncor= a 0 0 0 0 0 0 43338.0 330.0 3276.0 896.0 3716.0 2827.0 53366.0 931.0 37593.0 c 0 0 0 0 0 0 4098.0 233.0 804.0 138.0 1079.0 51971.0 1251.0 354.0 3029.0 g 0 0 0 0 0 0 3478.0 164.0 567.0 80.0 50288.0 251.0 322.0 194.0 6885.0 t 0 0 0 0 0 0 5115.0 55302.0 51382.0 54915.0 946.0 980.0 1090.0 54550.0 8522.0
MA0050.4_rc_shift2 (Irf1_rc)				; oligos_6nt_mkv4_m1 versus MA0050.4_rc (Irf1_rc); m=7/15; ncol2=11; w=-2; offset=-2; strand=R; shift=2; score=0.519092; --TTTCAgTTTCa-- ; cor=; Ncor= a 0 0 496.0 364.0 422.0 296.0 12533.0 564.0 346.0 334.0 483.0 660.0 8589.0 0 0 c 0 0 607.0 499.0 775.0 14013.0 274.0 3315.0 240.0 258.0 1024.0 12682.0 2035.0 0 0 g 0 0 365.0 353.0 298.0 314.0 933.0 9822.0 176.0 253.0 361.0 637.0 1292.0 0 0 t 0 0 14172.0 14424.0 14145.0 1017.0 1900.0 1939.0 14878.0 14795.0 13772.0 1661.0 3724.0 0 0
MA0152.3_rc_shift7 (Nfatc2_rc)				; oligos_6nt_mkv4_m1 versus MA0152.3_rc (Nfatc2_rc); m=8/15; ncol2=8; w=0; offset=3; strand=R; shift=7; score=0.514543; -------TTTCCATt ; cor=; Ncor= a 0 0 0 0 0 0 0 112.0 35.0 41.0 46.0 26.0 2844.0 121.0 321.0 c 0 0 0 0 0 0 0 79.0 45.0 65.0 3133.0 3118.0 101.0 329.0 292.0 g 0 0 0 0 0 0 0 104.0 19.0 38.0 27.0 17.0 124.0 206.0 460.0 t 0 0 0 0 0 0 0 2944.0 3140.0 3095.0 33.0 78.0 170.0 2583.0 2166.0
MA0772.2_rc_shift6 (IRF7_rc)				; oligos_6nt_mkv4_m1 versus MA0772.2_rc (IRF7_rc); m=9/15; ncol2=13; w=0; offset=2; strand=R; shift=6; score=0.470661; ------AbTTTCryT ; cor=; Ncor= a 0 0 0 0 0 0 804.0 301.0 41.0 1.0 5.0 7.0 375.0 17.0 1.0 c 0 0 0 0 0 0 31.0 1235.0 7.0 3.0 4.0 957.0 2.0 505.0 1.0 g 0 0 0 0 0 0 153.0 957.0 10.0 3.0 16.0 3.0 582.0 156.0 2.0 t 0 0 0 0 0 0 160.0 1184.0 957.0 957.0 957.0 30.0 8.0 279.0 957.0
MA0517.2_shift6 (STAT1::STAT2)				; oligos_6nt_mkv4_m1 versus MA0517.2 (STAT1::STAT2); m=10/15; ncol2=13; w=0; offset=2; strand=D; shift=6; score=0.441144; ------AGTTTCrkT ; cor=; Ncor= a 0 0 0 0 0 0 430.0 3.0 0.0 3.0 3.0 0.0 255.0 107.0 4.0 c 0 0 0 0 0 0 7.0 148.0 2.0 2.0 13.0 581.0 75.0 111.0 13.0 g 0 0 0 0 0 0 151.0 467.0 0.0 0.0 4.0 0.0 191.0 161.0 10.0 t 0 0 0 0 0 0 32.0 2.0 618.0 615.0 600.0 39.0 99.0 241.0 593.0
MA0624.3_rc_shift8 (Nfatc1_rc)				; oligos_6nt_mkv4_m1 versus MA0624.3_rc (Nfatc1_rc); m=11/15; ncol2=6; w=0; offset=4; strand=R; shift=8; score=0.436371; --------TTTCCA- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 124.0 39.0 54.0 55.0 17.0 5771.0 0 c 0 0 0 0 0 0 0 0 43.0 32.0 27.0 6058.0 6106.0 65.0 0 g 0 0 0 0 0 0 0 0 77.0 13.0 30.0 16.0 13.0 227.0 0 t 0 0 0 0 0 0 0 0 5947.0 6107.0 6080.0 62.0 55.0 128.0 0
MA0625.3_rc_shift8 (NFATC3_rc)				; oligos_6nt_mkv4_m1 versus MA0625.3_rc (NFATC3_rc); m=12/15; ncol2=6; w=0; offset=4; strand=R; shift=8; score=0.424044; --------tTTCCr- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1089.0 0.0 8.0 0.0 0.0 3553.0 0 c 0 0 0 0 0 0 0 0 475.0 184.0 825.0 5866.0 5866.0 451.0 0 g 0 0 0 0 0 0 0 0 1586.0 0.0 261.0 0.0 0.0 2313.0 0 t 0 0 0 0 0 0 0 0 5866.0 5866.0 5866.0 0.0 0.0 289.0 0
MA1125.2_rc_shift3 (ZNF384_rc)				; oligos_6nt_mkv4_m1 versus MA1125.2_rc (ZNF384_rc); m=13/15; ncol2=8; w=-1; offset=-1; strand=R; shift=3; score=0.411367; ---ttTTTTTT---- ; cor=; Ncor= a 0 0 0 4656.0 4436.0 21.0 191.0 153.0 314.0 188.0 59.0 0 0 0 0 c 0 0 0 2898.0 2767.0 0.0 14.0 15.0 26.0 19.0 13.0 0 0 0 0 g 0 0 0 3963.0 2908.0 6.0 26.0 13.0 21.0 35.0 7.0 0 0 0 0 t 0 0 0 18916.0 20322.0 30406.0 30202.0 30252.0 30072.0 30191.0 30354.0 0 0 0 0
MA1623.2_rc_shift8 (Stat2_rc)				; oligos_6nt_mkv4_m1 versus MA1623.2_rc (Stat2_rc); m=14/15; ncol2=10; w=0; offset=4; strand=R; shift=8; score=0.405568; --------TTTCTGT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 141.0 69.0 47.0 55.0 588.0 242.0 62.0 c 0 0 0 0 0 0 0 0 157.0 98.0 163.0 3707.0 74.0 524.0 87.0 g 0 0 0 0 0 0 0 0 147.0 45.0 49.0 45.0 151.0 2907.0 72.0 t 0 0 0 0 0 0 0 0 3514.0 3747.0 3700.0 152.0 3146.0 286.0 3738.0
MA0757.2_rc_shift0 (ONECUT3_rc)				; oligos_6nt_mkv4_m1 versus MA0757.2_rc (ONECUT3_rc); m=15/15; ncol2=12; w=-4; offset=-4; strand=R; shift=0; score=0.404906; tTATyGATTTTt--- ; cor=; Ncor= a 1182.0 345.0 6080.0 22.0 11.0 5.0 6080.0 11.0 54.0 1221.0 878.0 709.0 0 0 0 c 417.0 187.0 7.0 9.0 2130.0 3.0 14.0 41.0 102.0 112.0 498.0 1141.0 0 0 0 g 861.0 105.0 6.0 6.0 20.0 6080.0 103.0 5.0 28.0 173.0 274.0 379.0 0 0 0 t 3620.0 6080.0 43.0 6080.0 3950.0 23.0 32.0 6080.0 6080.0 6080.0 6080.0 3851.0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m2_shift2 (oligos_7nt_mkv5_m2)				; oligos_7nt_mkv5_m2; m=0 (reference); ncol1=11; shift=2; ncol=13; --wwAACACAAwh ; Alignment reference a 0 0 2000 2180 5040 5744 131 5872 123 5351 5163 2459 1892 c 0 0 979 688 257 135 5513 76 5576 106 245 1100 1683 g 0 0 1315 879 100 104 48 87 49 171 172 736 988 t 0 0 1859 2406 756 170 461 118 405 525 573 1858 1590
MA1623.2_shift2 (Stat2)				; oligos_7nt_mkv5_m2 versus MA1623.2 (Stat2); m=1/29; ncol2=10; w=0; offset=0; strand=D; shift=2; score=0.639227; --gAAACAGAAA- ; cor=; Ncor= a 0 0 969.0 3554.0 3736.0 3738.0 286.0 3146.0 152.0 3700.0 3747.0 3514.0 0 c 0 0 306.0 76.0 75.0 72.0 2907.0 151.0 45.0 49.0 45.0 147.0 0 g 0 0 2287.0 168.0 71.0 87.0 524.0 74.0 3707.0 163.0 98.0 157.0 0 t 0 0 397.0 161.0 77.0 62.0 242.0 588.0 55.0 47.0 69.0 141.0 0
MA1709.2_shift3 (ZIM3)				; oligos_7nt_mkv5_m2 versus MA1709.2 (ZIM3); m=2/29; ncol2=11; w=0; offset=1; strand=D; shift=3; score=0.628023; ---mAACAGAAAc ; cor=; Ncor= a 0 0 0 5336.0 16896.0 16502.0 853.0 17067.0 194.0 15879.0 16933.0 14228.0 2482.0 c 0 0 0 8338.0 118.0 107.0 15856.0 38.0 72.0 840.0 90.0 306.0 7474.0 g 0 0 0 1327.0 106.0 229.0 435.0 39.0 16877.0 165.0 110.0 575.0 3674.0 t 0 0 0 2219.0 100.0 382.0 76.0 76.0 77.0 336.0 87.0 2111.0 3590.0
MA1989.2_shift2 (Bcl11B)				; oligos_7nt_mkv5_m2 versus MA1989.2 (Bcl11B); m=3/29; ncol2=9; w=0; offset=0; strand=D; shift=2; score=0.603613; --aAACCACAa-- ; cor=; Ncor= a 0 0 24743.0 31408.0 36130.0 1391.0 1058.0 36734.0 1718.0 36053.0 23689.0 0 0 c 0 0 5084.0 2339.0 1397.0 36798.0 37476.0 940.0 35985.0 1397.0 3546.0 0 0 g 0 0 3712.0 3044.0 1662.0 762.0 416.0 796.0 1217.0 1246.0 7120.0 0 0 t 0 0 6252.0 3000.0 602.0 840.0 841.0 1321.0 871.0 1095.0 5436.0 0 0
MA0084.2_shift5 (SRY)				; oligos_7nt_mkv5_m2 versus MA0084.2 (SRY); m=4/29; ncol2=7; w=0; offset=3; strand=D; shift=5; score=0.488563; -----waACAAw- ; cor=; Ncor= a 0 0 0 0 0 15.0 18.0 25.0 0.0 28.0 27.0 7.0 0 c 0 0 0 0 0 0.0 3.0 0.0 26.0 0.0 0.0 0.0 0 g 0 0 0 0 0 3.0 3.0 0.0 0.0 0.0 1.0 2.0 0 t 0 0 0 0 0 10.0 4.0 3.0 2.0 0.0 0.0 19.0 0
MA1152.2_rc_shift7 (SOX15_rc)				; oligos_7nt_mkv5_m2 versus MA1152.2_rc (SOX15_rc); m=5/29; ncol2=7; w=0; offset=5; strand=R; shift=7; score=0.468542; -------ACAAwr ; cor=; Ncor= a 0 0 0 0 0 0 0 971.0 5.0 994.0 988.0 362.0 501.0 c 0 0 0 0 0 0 0 3.0 890.0 2.0 6.0 5.0 26.0 g 0 0 0 0 0 0 0 2.0 21.0 2.0 3.0 3.0 412.0 t 0 0 0 0 0 0 0 24.0 83.0 3.0 3.0 631.0 62.0
MA0868.3_shift6 (SOX8)				; oligos_7nt_mkv5_m2 versus MA0868.3 (SOX8); m=6/29; ncol2=7; w=0; offset=4; strand=D; shift=6; score=0.457384; ------AACAATr ; cor=; Ncor= a 0 0 0 0 0 0 1827.0 1827.0 3.0 1827.0 1827.0 273.0 1356.0 c 0 0 0 0 0 0 151.0 0.0 1827.0 0.0 43.0 36.0 208.0 g 0 0 0 0 0 0 263.0 0.0 35.0 0.0 0.0 20.0 1827.0 t 0 0 0 0 0 0 222.0 45.0 70.0 16.0 36.0 1827.0 287.0
MA0442.3_shift7 (SOX10)				; oligos_7nt_mkv5_m2 versus MA0442.3 (SOX10); m=7/29; ncol2=6; w=0; offset=5; strand=D; shift=7; score=0.449729; -------ACAAAG ; cor=; Ncor= a 0 0 0 0 0 0 0 2023.0 3.0 2029.0 1968.0 1959.0 10.0 c 0 0 0 0 0 0 0 4.0 1989.0 7.0 28.0 23.0 13.0 g 0 0 0 0 0 0 0 3.0 11.0 7.0 20.0 12.0 2012.0 t 0 0 0 0 0 0 0 25.0 52.0 12.0 39.0 61.0 20.0
MA0480.3_shift1 (Foxo1)				; oligos_7nt_mkv5_m2 versus MA0480.3 (Foxo1); m=8/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.434595; -GTAAACA----- ; cor=; Ncor= a 0 1411.0 945.0 12408.0 12663.0 12972.0 293.0 13332.0 0 0 0 0 0 c 0 481.0 555.0 934.0 849.0 387.0 12710.0 277.0 0 0 0 0 0 g 0 11670.0 1025.0 478.0 384.0 508.0 356.0 153.0 0 0 0 0 0 t 0 554.0 11591.0 296.0 220.0 249.0 757.0 354.0 0 0 0 0 0
MA0867.3_shift6 (SOX4)				; oligos_7nt_mkv5_m2 versus MA0867.3 (SOX4); m=9/29; ncol2=8; w=0; offset=4; strand=D; shift=6; score=0.432031; ------aACAAwG ; cor=; Ncor= a 0 0 0 0 0 0 5582.0 5582.0 0.0 5582.0 5582.0 5582.0 1018.0 c 0 0 0 0 0 0 951.0 0.0 5582.0 1.0 6.0 120.0 64.0 g 0 0 0 0 0 0 2047.0 0.0 37.0 6.0 11.0 50.0 5582.0 t 0 0 0 0 0 0 431.0 9.0 33.0 0.0 0.0 2719.0 83.0
MA0848.1_shift1 (FOXO4)				; oligos_7nt_mkv5_m2 versus MA0848.1 (FOXO4); m=10/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.431997; -GTAAACA----- ; cor=; Ncor= a 0 1669.0 345.0 5378.0 5378.0 5378.0 58.0 5378.0 0 0 0 0 0 c 0 13.0 69.0 1259.0 146.0 0.0 5378.0 10.0 0 0 0 0 0 g 0 5378.0 123.0 32.0 19.0 90.0 33.0 10.0 0 0 0 0 0 t 0 0.0 5378.0 20.0 20.0 10.0 958.0 40.0 0 0 0 0 0
MA0849.1_shift1 (FOXO6)				; oligos_7nt_mkv5_m2 versus MA0849.1 (FOXO6); m=11/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.429797; -GTAAACA----- ; cor=; Ncor= a 0 1445.0 154.0 7025.0 7025.0 7025.0 0.0 7025.0 0 0 0 0 0 c 0 0.0 0.0 1147.0 195.0 0.0 7025.0 0.0 0 0 0 0 0 g 0 7025.0 32.0 7.0 0.0 0.0 31.0 13.0 0 0 0 0 0 t 0 0.0 7025.0 0.0 26.0 0.0 385.0 0.0 0 0 0 0 0
MA0614.1_shift1 (Foxj2)				; oligos_7nt_mkv5_m2 versus MA0614.1 (Foxj2); m=12/29; ncol2=8; w=-1; offset=-1; strand=D; shift=1; score=0.429216; -rTAAACAa---- ; cor=; Ncor= a 0 461.0 50.0 795.0 977.0 999.0 0.0 999.0 593.0 0 0 0 0 c 0 0.0 25.0 205.0 0.0 0.0 954.0 0.0 125.0 0 0 0 0 g 0 538.0 0.0 0.0 0.0 0.0 0.0 0.0 125.0 0 0 0 0 t 0 0.0 924.0 0.0 22.0 0.0 46.0 0.0 156.0 0 0 0 0
MA0157.4_shift1 (Foxo3)				; oligos_7nt_mkv5_m2 versus MA0157.4 (Foxo3); m=13/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.427969; -GTAAACA----- ; cor=; Ncor= a 0 3470.0 1546.0 22240.0 22288.0 22551.0 403.0 22141.0 0 0 0 0 0 c 0 590.0 435.0 968.0 803.0 483.0 21237.0 587.0 0 0 0 0 0 g 0 19202.0 1199.0 328.0 333.0 464.0 361.0 361.0 0 0 0 0 0 t 0 650.0 20732.0 376.0 488.0 414.0 1911.0 823.0 0 0 0 0 0
MA0852.3_shift1 (FOXK1)				; oligos_7nt_mkv5_m2 versus MA0852.3 (FOXK1); m=14/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.427634; -GTAAACA----- ; cor=; Ncor= a 0 143.0 60.0 1003.0 999.0 1022.0 10.0 1015.0 0 0 0 0 0 c 0 28.0 5.0 37.0 37.0 13.0 958.0 16.0 0 0 0 0 0 g 0 868.0 44.0 10.0 11.0 10.0 12.0 12.0 0 0 0 0 0 t 0 17.0 947.0 6.0 9.0 11.0 76.0 13.0 0 0 0 0 0
MA0613.1_shift1 (FOXG1)				; oligos_7nt_mkv5_m2 versus MA0613.1 (FOXG1); m=15/29; ncol2=8; w=-1; offset=-1; strand=D; shift=1; score=0.425554; -rTAAACAw---- ; cor=; Ncor= a 0 374.0 1.0 997.0 997.0 997.0 1.0 997.0 498.0 0 0 0 0 c 0 1.0 1.0 1.0 1.0 1.0 997.0 1.0 167.0 0 0 0 0 g 0 623.0 1.0 1.0 1.0 1.0 1.0 1.0 2.0 0 0 0 0 t 0 1.0 997.0 1.0 1.0 1.0 1.0 1.0 333.0 0 0 0 0
MA0850.1_shift1 (FOXP3)				; oligos_7nt_mkv5_m2 versus MA0850.1 (FOXP3); m=16/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.424284; -rTAAACA----- ; cor=; Ncor= a 0 74.0 20.0 211.0 211.0 211.0 0.0 211.0 0 0 0 0 0 c 0 0.0 52.0 0.0 0.0 15.0 211.0 0.0 0 0 0 0 0 g 0 137.0 0.0 0.0 9.0 49.0 32.0 18.0 0 0 0 0 0 t 0 0.0 211.0 31.0 8.0 0.0 39.0 0.0 0 0 0 0 0
MA2117.1_shift1 (FOXP4)				; oligos_7nt_mkv5_m2 versus MA2117.1 (FOXP4); m=17/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.423486; -GTAAACA----- ; cor=; Ncor= a 0 2224.0 543.0 19122.0 19613.0 20280.0 379.0 20230.0 0 0 0 0 0 c 0 834.0 793.0 1545.0 1330.0 419.0 18349.0 443.0 0 0 0 0 0 g 0 17315.0 539.0 534.0 368.0 550.0 493.0 218.0 0 0 0 0 0 t 0 1294.0 19792.0 466.0 356.0 418.0 2446.0 776.0 0 0 0 0 0
MA0042.2_shift1 (FOXI1)				; oligos_7nt_mkv5_m2 versus MA0042.2 (FOXI1); m=18/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.422572; -GTAAACA----- ; cor=; Ncor= a 0 618.0 74.0 5175.0 5175.0 5175.0 157.0 5175.0 0 0 0 0 0 c 0 39.0 60.0 540.0 23.0 23.0 5175.0 12.0 0 0 0 0 0 g 0 5175.0 35.0 37.0 0.0 29.0 48.0 25.0 0 0 0 0 0 t 0 0.0 5175.0 0.0 0.0 66.0 810.0 0.0 0 0 0 0 0
MA0033.2_shift1 (FOXL1)				; oligos_7nt_mkv5_m2 versus MA0033.2 (FOXL1); m=19/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.422364; -rTAAACA----- ; cor=; Ncor= a 0 2102.0 10.0 4780.0 4780.0 4780.0 0.0 4780.0 0 0 0 0 0 c 0 13.0 416.0 628.0 38.0 82.0 3723.0 54.0 0 0 0 0 0 g 0 2678.0 0.0 57.0 0.0 50.0 0.0 0.0 0 0 0 0 0 t 0 140.0 4780.0 0.0 15.0 0.0 1057.0 17.0 0 0 0 0 0
MA1606.2_shift1 (Foxf1)				; oligos_7nt_mkv5_m2 versus MA1606.2 (Foxf1); m=20/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.419239; -rTAAACA----- ; cor=; Ncor= a 0 18534.0 568.0 57293.0 53942.0 57167.0 437.0 56436.0 0 0 0 0 0 c 0 3754.0 446.0 899.0 2249.0 475.0 54394.0 745.0 0 0 0 0 0 g 0 33599.0 1158.0 445.0 811.0 1067.0 522.0 443.0 0 0 0 0 0 t 0 3653.0 57368.0 903.0 2538.0 831.0 4187.0 1916.0 0 0 0 0 0
MA0031.2_shift1 (FOXD1)				; oligos_7nt_mkv5_m2 versus MA0031.2 (FOXD1); m=21/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.416524; -GTAAACA----- ; cor=; Ncor= a 0 1.0 0.0 19.0 20.0 18.0 1.0 20.0 0 0 0 0 0 c 0 1.0 0.0 1.0 0.0 1.0 18.0 0.0 0 0 0 0 0 g 0 17.0 0.0 0.0 0.0 1.0 0.0 0.0 0 0 0 0 0 t 0 1.0 20.0 0.0 0.0 0.0 1.0 0.0 0 0 0 0 0
MA1103.3_shift1 (FOXK2)				; oligos_7nt_mkv5_m2 versus MA1103.3 (FOXK2); m=22/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.415545; -GTAAACA----- ; cor=; Ncor= a 0 2697.0 360.0 15913.0 14387.0 15593.0 499.0 15709.0 0 0 0 0 0 c 0 551.0 210.0 277.0 1291.0 330.0 14282.0 295.0 0 0 0 0 0 g 0 12737.0 327.0 148.0 436.0 391.0 426.0 170.0 0 0 0 0 0 t 0 694.0 15782.0 341.0 565.0 365.0 1472.0 505.0 0 0 0 0 0
MA1683.2_shift1 (FOXA3)				; oligos_7nt_mkv5_m2 versus MA1683.2 (FOXA3); m=23/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.414299; -GTAAACA----- ; cor=; Ncor= a 0 4481.0 758.0 45178.0 43099.0 46046.0 951.0 45552.0 0 0 0 0 0 c 0 1464.0 903.0 1980.0 3883.0 973.0 39509.0 933.0 0 0 0 0 0 g 0 40396.0 690.0 636.0 977.0 934.0 1205.0 614.0 0 0 0 0 0 t 0 2596.0 46586.0 1143.0 978.0 984.0 7272.0 1838.0 0 0 0 0 0
MA0481.4_shift1 (FOXP1)				; oligos_7nt_mkv5_m2 versus MA0481.4 (FOXP1); m=24/29; ncol2=7; w=-1; offset=-1; strand=D; shift=1; score=0.412653; -GTAAACA----- ; cor=; Ncor= a 0 10463.0 1209.0 69603.0 65236.0 70030.0 1336.0 68456.0 0 0 0 0 0 c 0 1573.0 727.0 2095.0 5067.0 1487.0 61094.0 1904.0 0 0 0 0 0 g 0 59571.0 920.0 1073.0 1830.0 1132.0 1493.0 749.0 0 0 0 0 0 t 0 3111.0 71862.0 1947.0 2585.0 2069.0 10795.0 3609.0 0 0 0 0 0
MA1563.2_shift6 (SOX18)				; oligos_7nt_mkv5_m2 versus MA1563.2 (SOX18); m=25/29; ncol2=8; w=0; offset=4; strand=D; shift=6; score=0.412469; ------aACAATd ; cor=; Ncor= a 0 0 0 0 0 0 424.0 424.0 0.0 424.0 424.0 0.0 203.0 c 0 0 0 0 0 0 81.0 0.0 424.0 0.0 35.0 0.0 0.0 g 0 0 0 0 0 0 170.0 0.0 91.0 0.0 17.0 0.0 221.0 t 0 0 0 0 0 0 34.0 0.0 2.0 0.0 0.0 447.0 228.0
MA0514.3_shift7 (Sox3)				; oligos_7nt_mkv5_m2 versus MA0514.3 (Sox3); m=26/29; ncol2=7; w=0; offset=5; strand=D; shift=7; score=0.411815; -------ACAATG ; cor=; Ncor= a 0 0 0 0 0 0 0 11761.0 150.0 11284.0 11623.0 573.0 1617.0 c 0 0 0 0 0 0 0 52.0 11125.0 312.0 143.0 150.0 133.0 g 0 0 0 0 0 0 0 76.0 178.0 93.0 143.0 104.0 10041.0 t 0 0 0 0 0 0 0 89.0 525.0 289.0 69.0 11151.0 187.0
MA1120.2_shift7 (SOX13)				; oligos_7nt_mkv5_m2 versus MA1120.2 (SOX13); m=27/29; ncol2=7; w=0; offset=5; strand=D; shift=7; score=0.410534; -------ACAATG ; cor=; Ncor= a 0 0 0 0 0 0 0 4451.0 55.0 4329.0 4390.0 156.0 585.0 c 0 0 0 0 0 0 0 22.0 4276.0 55.0 48.0 77.0 57.0 g 0 0 0 0 0 0 0 40.0 60.0 50.0 63.0 28.0 3837.0 t 0 0 0 0 0 0 0 39.0 161.0 118.0 51.0 4291.0 73.0
MA0143.5_shift7 (SOX2)				; oligos_7nt_mkv5_m2 versus MA0143.5 (SOX2); m=28/29; ncol2=7; w=0; offset=5; strand=D; shift=7; score=0.40918; -------ACAATG ; cor=; Ncor= a 0 0 0 0 0 0 0 83515.0 1307.0 81587.0 80825.0 4815.0 9926.0 c 0 0 0 0 0 0 0 436.0 78356.0 1205.0 1742.0 732.0 800.0 g 0 0 0 0 0 0 0 418.0 1243.0 550.0 2002.0 930.0 73372.0 t 0 0 0 0 0 0 0 1385.0 4848.0 2412.0 1185.0 79277.0 1656.0
MA0593.2_shift0 (FOXP2)				; oligos_7nt_mkv5_m2 versus MA0593.2 (FOXP2); m=29/29; ncol2=9; w=-2; offset=-2; strand=D; shift=0; score=0.402874; wGTAAACAr---- ; cor=; Ncor= a 340.0 160.0 59.0 766.0 766.0 766.0 0.0 766.0 297.0 0 0 0 0 c 7.0 0.0 0.0 0.0 0.0 0.0 757.0 0.0 154.0 0 0 0 0 g 142.0 606.0 0.0 0.0 0.0 0.0 0.0 0.0 293.0 0 0 0 0 t 277.0 0.0 707.0 0.0 0.0 0.0 9.0 0.0 22.0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m1_shift4 (oligos_7nt_mkv5_m1)				; oligos_7nt_mkv5_m1; m=0 (reference); ncol1=12; shift=4; ncol=16; ----tyATTTTTCAtk ; Alignment reference a 0 0 0 0 2805 2460 9976 297 593 223 248 290 806 10094 2748 2433 c 0 0 0 0 1446 4401 395 277 208 214 1246 1640 9675 324 2441 1518 g 0 0 0 0 2329 1446 451 230 179 108 197 173 255 220 1744 3406 t 0 0 0 0 4727 3000 485 10503 10327 10762 9616 9204 571 669 4374 3950
MA0606.3_rc_shift7 (Nfat5_rc)				; oligos_7nt_mkv5_m1 versus MA0606.3_rc (Nfat5_rc); m=1/10; ncol2=8; w=0; offset=3; strand=R; shift=7; score=0.554291; -------TTTTCCAT- ; cor=; Ncor= a 0 0 0 0 0 0 0 14.0 10.0 9.0 5.0 7.0 11.0 302.0 13.0 0 c 0 0 0 0 0 0 0 19.0 8.0 10.0 15.0 325.0 332.0 9.0 47.0 0 g 0 0 0 0 0 0 0 8.0 4.0 1.0 8.0 8.0 0.0 10.0 17.0 0 t 0 0 0 0 0 0 0 315.0 334.0 336.0 328.0 16.0 13.0 35.0 279.0 0
MA1525.3_rc_shift6 (NFATC4_rc)				; oligos_7nt_mkv5_m1 versus MA1525.3_rc (NFATC4_rc); m=2/10; ncol2=9; w=0; offset=2; strand=R; shift=6; score=0.537973; ------wkTTTCCrt- ; cor=; Ncor= a 0 0 0 0 0 0 3012.0 1164.0 107.0 0.0 0.0 0.0 0.0 4553.0 1505.0 0 c 0 0 0 0 0 0 138.0 1149.0 42.0 0.0 0.0 7139.0 7139.0 43.0 2590.0 0 g 0 0 0 0 0 0 1280.0 6522.0 460.0 0.0 0.0 0.0 0.0 2586.0 715.0 0 t 0 0 0 0 0 0 2709.0 7139.0 7139.0 7139.0 7139.0 0.0 0.0 16.0 7139.0 0
MA0152.3_rc_shift8 (Nfatc2_rc)				; oligos_7nt_mkv5_m1 versus MA0152.3_rc (Nfatc2_rc); m=3/10; ncol2=8; w=0; offset=4; strand=R; shift=8; score=0.523225; --------TTTCCATt ; cor=; Ncor= a 0 0 0 0 0 0 0 0 112.0 35.0 41.0 46.0 26.0 2844.0 121.0 321.0 c 0 0 0 0 0 0 0 0 79.0 45.0 65.0 3133.0 3118.0 101.0 329.0 292.0 g 0 0 0 0 0 0 0 0 104.0 19.0 38.0 27.0 17.0 124.0 206.0 460.0 t 0 0 0 0 0 0 0 0 2944.0 3140.0 3095.0 33.0 78.0 170.0 2583.0 2166.0
MA2124.1_shift6 (Hmga1)				; oligos_7nt_mkv5_m1 versus MA2124.1 (Hmga1); m=4/10; ncol2=8; w=0; offset=2; strand=D; shift=6; score=0.52265; ------ATTTTTAw-- ; cor=; Ncor= a 0 0 0 0 0 0 25051.0 820.0 1034.0 695.0 651.0 770.0 24433.0 9680.0 0 0 c 0 0 0 0 0 0 71.0 393.0 200.0 194.0 264.0 409.0 473.0 2348.0 0 0 g 0 0 0 0 0 0 188.0 421.0 303.0 138.0 237.0 294.0 358.0 2438.0 0 0 t 0 0 0 0 0 0 496.0 24172.0 24269.0 24779.0 24654.0 24333.0 542.0 11340.0 0 0
MA1125.2_rc_shift4 (ZNF384_rc)				; oligos_7nt_mkv5_m1 versus MA1125.2_rc (ZNF384_rc); m=5/10; ncol2=8; w=0; offset=0; strand=R; shift=4; score=0.503606; ----ttTTTTTT---- ; cor=; Ncor= a 0 0 0 0 4656.0 4436.0 21.0 191.0 153.0 314.0 188.0 59.0 0 0 0 0 c 0 0 0 0 2898.0 2767.0 0.0 14.0 15.0 26.0 19.0 13.0 0 0 0 0 g 0 0 0 0 3963.0 2908.0 6.0 26.0 13.0 21.0 35.0 7.0 0 0 0 0 t 0 0 0 0 18916.0 20322.0 30406.0 30202.0 30252.0 30072.0 30191.0 30354.0 0 0 0 0
MA1563.2_rc_shift4 (SOX18_rc)				; oligos_7nt_mkv5_m1 versus MA1563.2_rc (SOX18_rc); m=6/10; ncol2=8; w=0; offset=0; strand=R; shift=4; score=0.484484; ----bhATTGTt---- ; cor=; Ncor= a 0 0 0 0 0.0 228.0 447.0 0.0 0.0 2.0 0.0 34.0 0 0 0 0 c 0 0 0 0 424.0 221.0 0.0 17.0 0.0 91.0 0.0 170.0 0 0 0 0 g 0 0 0 0 551.0 0.0 0.0 35.0 0.0 424.0 0.0 81.0 0 0 0 0 t 0 0 0 0 382.0 203.0 0.0 424.0 424.0 0.0 424.0 424.0 0 0 0 0
MA1115.2_rc_shift8 (POU5F1_rc)				; oligos_7nt_mkv5_m1 versus MA1115.2_rc (POU5F1_rc); m=7/10; ncol2=7; w=0; offset=4; strand=R; shift=8; score=0.444523; --------TTTGCAT- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 307.0 838.0 1108.0 1723.0 634.0 12834.0 70.0 0 c 0 0 0 0 0 0 0 0 257.0 1026.0 118.0 548.0 11571.0 67.0 229.0 0 g 0 0 0 0 0 0 0 0 270.0 690.0 132.0 10310.0 192.0 130.0 122.0 0 t 0 0 0 0 0 0 0 0 12280.0 10560.0 11756.0 533.0 717.0 83.0 12693.0 0
MA0868.3_rc_shift5 (SOX8_rc)				; oligos_7nt_mkv5_m1 versus MA0868.3_rc (SOX8_rc); m=8/10; ncol2=7; w=0; offset=1; strand=R; shift=5; score=0.427882; -----yATTGTT---- ; cor=; Ncor= a 0 0 0 0 0 287.0 1827.0 36.0 16.0 70.0 45.0 222.0 0 0 0 0 c 0 0 0 0 0 1827.0 20.0 0.0 0.0 35.0 0.0 263.0 0 0 0 0 g 0 0 0 0 0 208.0 36.0 43.0 0.0 1827.0 0.0 151.0 0 0 0 0 t 0 0 0 0 0 1356.0 273.0 1827.0 1827.0 3.0 1827.0 1827.0 0 0 0 0
MA0757.2_rc_shift0 (ONECUT3_rc)				; oligos_7nt_mkv5_m1 versus MA0757.2_rc (ONECUT3_rc); m=9/10; ncol2=12; w=-4; offset=-4; strand=R; shift=0; score=0.413157; tTATyGATTTTt---- ; cor=; Ncor= a 1182.0 345.0 6080.0 22.0 11.0 5.0 6080.0 11.0 54.0 1221.0 878.0 709.0 0 0 0 0 c 417.0 187.0 7.0 9.0 2130.0 3.0 14.0 41.0 102.0 112.0 498.0 1141.0 0 0 0 0 g 861.0 105.0 6.0 6.0 20.0 6080.0 103.0 5.0 28.0 173.0 274.0 379.0 0 0 0 0 t 3620.0 6080.0 43.0 6080.0 3950.0 23.0 32.0 6080.0 6080.0 6080.0 6080.0 3851.0 0 0 0 0
MA0624.3_rc_shift8 (Nfatc1_rc)				; oligos_7nt_mkv5_m1 versus MA0624.3_rc (Nfatc1_rc); m=10/10; ncol2=6; w=0; offset=4; strand=R; shift=8; score=0.408253; --------TTTCCA-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 124.0 39.0 54.0 55.0 17.0 5771.0 0 0 c 0 0 0 0 0 0 0 0 43.0 32.0 27.0 6058.0 6106.0 65.0 0 0 g 0 0 0 0 0 0 0 0 77.0 13.0 30.0 16.0 13.0 227.0 0 0 t 0 0 0 0 0 0 0 0 5947.0 6107.0 6080.0 62.0 55.0 128.0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv4_m4_shift2 (oligos_6nt_mkv4_m4)				; oligos_6nt_mkv4_m4; m=0 (reference); ncol1=11; shift=2; ncol=13; --awACAAAACwa ; Alignment reference a 0 0 2927 2653 4773 373 6440 6317 6430 6605 75 3122 2659 c 0 0 1632 961 652 5642 83 148 64 59 6570 1157 1408 g 0 0 906 1242 592 482 106 88 66 60 19 770 1168 t 0 0 1345 1954 793 313 181 257 250 86 146 1761 1575
MA0084.2_shift2 (SRY)				; oligos_6nt_mkv4_m4 versus MA0084.2 (SRY); m=1/8; ncol2=7; w=0; offset=0; strand=D; shift=2; score=0.514589; --waACAAw---- ; cor=; Ncor= a 0 0 15.0 18.0 25.0 0.0 28.0 27.0 7.0 0 0 0 0 c 0 0 0.0 3.0 0.0 26.0 0.0 0.0 0.0 0 0 0 0 g 0 0 3.0 3.0 0.0 0.0 0.0 1.0 2.0 0 0 0 0 t 0 0 10.0 4.0 3.0 2.0 0.0 0.0 19.0 0 0 0 0
MA0901.3_shift1 (HOXB13)				; oligos_6nt_mkv4_m4 versus MA0901.3 (HOXB13); m=2/8; ncol2=9; w=-1; offset=-1; strand=D; shift=1; score=0.475872; -cCAATAAAA--- ; cor=; Ncor= a 0 11896.0 4212.0 66409.0 73044.0 421.0 73612.0 75997.0 76077.0 70230.0 0 0 0 c 0 47674.0 65312.0 4611.0 726.0 550.0 523.0 599.0 760.0 2465.0 0 0 0 g 0 9096.0 582.0 351.0 1913.0 586.0 1083.0 490.0 625.0 1882.0 0 0 0 t 0 10048.0 8608.0 7343.0 3031.0 77157.0 3496.0 1628.0 1252.0 4137.0 0 0 0
MA1971.2_shift5 (ZBED2)				; oligos_6nt_mkv4_m4 versus MA1971.2 (ZBED2); m=3/8; ncol2=7; w=0; offset=3; strand=D; shift=5; score=0.451928; -----CGAAACC- ; cor=; Ncor= a 0 0 0 0 0 42.0 19.0 1247.0 1264.0 1131.0 17.0 75.0 0 c 0 0 0 0 0 1195.0 21.0 13.0 13.0 94.0 1217.0 962.0 0 g 0 0 0 0 0 42.0 1252.0 29.0 8.0 41.0 43.0 47.0 0 t 0 0 0 0 0 18.0 5.0 8.0 12.0 31.0 20.0 213.0 0
MA0851.2_shift0 (Foxj3)				; oligos_6nt_mkv4_m4 versus MA0851.2 (Foxj3); m=4/8; ncol2=9; w=-2; offset=-2; strand=D; shift=0; score=0.44963; RTAAACAAw---- ; cor=; Ncor= a 30.0 1.0 91.0 96.0 99.0 0.0 99.0 79.0 57.0 0 0 0 0 c 1.0 2.0 8.0 2.0 0.0 81.0 0.0 7.0 9.0 0 0 0 0 g 68.0 0.0 0.0 0.0 0.0 0.0 0.0 6.0 7.0 0 0 0 0 t 0.0 97.0 0.0 3.0 1.0 18.0 1.0 9.0 27.0 0 0 0 0
MA1616.2_shift5 (Prdm15)				; oligos_6nt_mkv4_m4 versus MA1616.2 (Prdm15); m=5/8; ncol2=11; w=0; offset=3; strand=D; shift=5; score=0.430439; -----gAAAACCT ; cor=; Ncor= a 0 0 0 0 0 252.0 2011.0 2121.0 1942.0 1801.0 67.0 222.0 220.0 c 0 0 0 0 0 325.0 60.0 34.0 47.0 138.0 1941.0 1886.0 361.0 g 0 0 0 0 0 1333.0 135.0 58.0 200.0 152.0 101.0 107.0 28.0 t 0 0 0 0 0 327.0 31.0 24.0 48.0 146.0 128.0 22.0 1628.0
MA1125.2_shift6 (ZNF384)				; oligos_6nt_mkv4_m4 versus MA1125.2 (ZNF384); m=6/8; ncol2=8; w=0; offset=4; strand=D; shift=6; score=0.413755; ------AAAAAAa ; cor=; Ncor= a 0 0 0 0 0 0 30354.0 30191.0 30072.0 30252.0 30202.0 30406.0 20322.0 c 0 0 0 0 0 0 7.0 35.0 21.0 13.0 26.0 6.0 2908.0 g 0 0 0 0 0 0 13.0 19.0 26.0 15.0 14.0 0.0 2767.0 t 0 0 0 0 0 0 59.0 188.0 314.0 153.0 191.0 21.0 4436.0
MA1489.1_shift0 (FOXN3)				; oligos_6nt_mkv4_m4 versus MA1489.1 (FOXN3); m=7/8; ncol2=8; w=-2; offset=-2; strand=D; shift=0; score=0.412421; GTAAACAA----- ; cor=; Ncor= a 9.0 9.0 971.0 971.0 971.0 9.0 971.0 971.0 0 0 0 0 0 c 9.0 9.0 9.0 9.0 9.0 971.0 9.0 9.0 0 0 0 0 0 g 971.0 9.0 9.0 9.0 9.0 9.0 9.0 9.0 0 0 0 0 0 t 9.0 971.0 9.0 9.0 9.0 9.0 9.0 9.0 0 0 0 0 0
MA0442.3_shift4 (SOX10)				; oligos_6nt_mkv4_m4 versus MA0442.3 (SOX10); m=8/8; ncol2=6; w=0; offset=2; strand=D; shift=4; score=0.401423; ----ACAAAG--- ; cor=; Ncor= a 0 0 0 0 2023.0 3.0 2029.0 1968.0 1959.0 10.0 0 0 0 c 0 0 0 0 4.0 1989.0 7.0 28.0 23.0 13.0 0 0 0 g 0 0 0 0 3.0 11.0 7.0 20.0 12.0 2012.0 0 0 0 t 0 0 0 0 25.0 52.0 12.0 39.0 61.0 20.0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m4_shift0 (oligos_7nt_mkv5_m4)				; oligos_7nt_mkv5_m4; m=0 (reference); ncol1=11; shift=0; ncol=11; gwCGAAATCac ; Alignment reference a 552 1095 226 81 2231 2217 2068 103 67 1103 566 c 479 364 1994 31 41 62 199 75 2173 447 858 g 851 268 75 2055 58 60 62 96 97 283 524 t 534 689 121 249 86 77 87 2142 79 583 468
MA1971.2_shift2 (ZBED2)				; oligos_7nt_mkv5_m4 versus MA1971.2 (ZBED2); m=1/5; ncol2=7; w=0; offset=2; strand=D; shift=2; score=0.501812; --CGAAACC-- ; cor=; Ncor= a 0 0 42.0 19.0 1247.0 1264.0 1131.0 17.0 75.0 0 0 c 0 0 1195.0 21.0 13.0 13.0 94.0 1217.0 962.0 0 0 g 0 0 42.0 1252.0 29.0 8.0 41.0 43.0 47.0 0 0 t 0 0 18.0 5.0 8.0 12.0 31.0 20.0 213.0 0 0
MA2339.1_shift3 (Nanog)				; oligos_7nt_mkv5_m4 versus MA2339.1 (Nanog); m=2/5; ncol2=7; w=0; offset=3; strand=D; shift=3; score=0.471615; ---GCAATCA- ; cor=; Ncor= a 0 0 0 480.0 143.0 6992.0 7959.0 235.0 348.0 8076.0 0 c 0 0 0 164.0 7298.0 400.0 206.0 96.0 7421.0 131.0 0 g 0 0 0 7830.0 93.0 365.0 196.0 124.0 149.0 180.0 0 t 0 0 0 190.0 1130.0 907.0 303.0 8209.0 746.0 277.0 0
MA0483.2_shift4 (Gfi1B)				; oligos_7nt_mkv5_m4 versus MA0483.2 (Gfi1B); m=3/5; ncol2=10; w=0; offset=4; strand=D; shift=4; score=0.459748; ----aAATCwC ; cor=; Ncor= a 0 0 0 0 1124.0 1761.0 1759.0 0.0 0.0 1033.0 61.0 c 0 0 0 0 438.0 0.0 0.0 338.0 1761.0 21.0 1312.0 g 0 0 0 0 104.0 0.0 2.0 28.0 0.0 0.0 388.0 t 0 0 0 0 95.0 0.0 0.0 1395.0 0.0 707.0 0.0
MA0679.3_shift4 (ONECUT1)				; oligos_7nt_mkv5_m4 versus MA0679.3 (ONECUT1); m=4/5; ncol2=9; w=0; offset=4; strand=D; shift=4; score=0.446264; ----aAATCAA ; cor=; Ncor= a 0 0 0 0 37926.0 52146.0 60015.0 482.0 1345.0 59595.0 60870.0 c 0 0 0 0 7555.0 1011.0 358.0 294.0 60181.0 438.0 247.0 g 0 0 0 0 6149.0 7794.0 1166.0 241.0 278.0 1226.0 366.0 t 0 0 0 0 10589.0 1268.0 680.0 61202.0 415.0 960.0 736.0
MA0038.3_shift4 (GFI1)				; oligos_7nt_mkv5_m4 versus MA0038.3 (GFI1); m=5/5; ncol2=11; w=0; offset=4; strand=D; shift=4; score=0.416627; ----mAATCAC ; cor=; Ncor= a 0 0 0 0 19146.0 30168.0 30150.0 0.0 15.0 29255.0 838.0 c 0 0 0 0 10155.0 2.0 0.0 0.0 30139.0 0.0 27769.0 g 0 0 0 0 812.0 0.0 0.0 0.0 0.0 0.0 3888.0 t 0 0 0 0 565.0 0.0 1.0 30161.0 10.0 1594.0 0.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_7nt_m5_shift0 (positions_7nt_m5)				; positions_7nt_m5; m=0 (reference); ncol1=16; shift=0; ncol=16; rhaaGCACGTGCttdy ; Alignment reference a 147 135 352 346 32 24 422 60 55 14 48 26 53 60 147 116 c 111 133 34 75 26 429 25 393 19 59 22 438 49 75 108 149 g 150 107 78 49 438 22 63 17 389 25 429 26 75 34 133 112 t 115 148 59 53 27 48 13 53 60 425 24 33 346 354 135 146
MA0059.2_rc_shift3 (MAX::MYC_rc)				; positions_7nt_m5 versus MA0059.2_rc (MAX::MYC_rc); m=1/18; ncol2=10; w=0; offset=3; strand=R; shift=3; score=0.498524; ---aCCACGTGsT--- ; cor=; Ncor= a 0 0 0 13.0 1.0 0.0 20.0 0.0 1.0 0.0 0.0 1.0 1.0 0 0 0 c 0 0 0 0.0 18.0 21.0 0.0 20.0 0.0 0.0 0.0 9.0 4.0 0 0 0 g 0 0 0 5.0 1.0 0.0 1.0 0.0 20.0 0.0 20.0 9.0 1.0 0 0 0 t 0 0 0 3.0 1.0 0.0 0.0 1.0 0.0 21.0 1.0 2.0 15.0 0 0 0
MA0821.2_rc_shift3 (HES5_rc)				; positions_7nt_m5 versus MA0821.2_rc (HES5_rc); m=2/18; ncol2=10; w=0; offset=3; strand=R; shift=3; score=0.495112; ---grCACGTGyc--- ; cor=; Ncor= a 0 0 0 2389.0 4524.0 231.0 9045.0 68.0 472.0 146.0 74.0 358.0 1455.0 0 0 0 c 0 0 0 2240.0 2606.0 10849.0 199.0 10849.0 193.0 1812.0 113.0 6320.0 8459.0 0 0 0 g 0 0 0 8460.0 6325.0 121.0 1804.0 164.0 10849.0 204.0 10849.0 2601.0 2209.0 0 0 0 t 0 0 0 1439.0 339.0 66.0 159.0 467.0 49.0 9037.0 212.0 4529.0 2390.0 0 0 0
MA0823.1_rc_shift3 (HEY1_rc)				; positions_7nt_m5 versus MA0823.1_rc (HEY1_rc); m=3/18; ncol2=10; w=0; offset=3; strand=R; shift=3; score=0.485491; ---grCACGTGyc--- ; cor=; Ncor= a 0 0 0 318.0 863.0 22.0 3338.0 0.0 0.0 21.0 15.0 110.0 352.0 0 0 0 c 0 0 0 373.0 380.0 3338.0 10.0 3338.0 0.0 123.0 3.0 1199.0 1788.0 0 0 0 g 0 0 0 2172.0 1762.0 19.0 474.0 18.0 3338.0 30.0 3338.0 656.0 761.0 0 0 0 t 0 0 0 475.0 333.0 32.0 0.0 0.0 0.0 3338.0 1.0 1373.0 437.0 0 0 0
MA1560.2_rc_shift4 (SOHLH2_rc)				; positions_7nt_m5 versus MA1560.2_rc (SOHLH2_rc); m=4/18; ncol2=8; w=0; offset=4; strand=R; shift=4; score=0.482496; ----gCACGTGc---- ; cor=; Ncor= a 0 0 0 0 153.0 4.0 1212.0 15.0 7.0 0.0 70.0 276.0 0 0 0 0 c 0 0 0 0 172.0 1212.0 0.0 1212.0 11.0 41.0 29.0 1212.0 0 0 0 0 g 0 0 0 0 1212.0 4.0 65.0 0.0 1212.0 0.0 1212.0 264.0 0 0 0 0 t 0 0 0 0 272.0 41.0 36.0 14.0 0.0 1212.0 45.0 172.0 0 0 0 0
MA0616.3_shift3 (HES2)				; positions_7nt_m5 versus MA0616.3 (HES2); m=5/18; ncol2=9; w=0; offset=3; strand=D; shift=3; score=0.471853; ---GgCACGTGy---- ; cor=; Ncor= a 0 0 0 775.0 1501.0 118.0 6455.0 0.0 0.0 0.0 53.0 512.0 0 0 0 0 c 0 0 0 1193.0 1107.0 8483.0 0.0 8483.0 0.0 1098.0 15.0 4634.0 0 0 0 0 g 0 0 0 8483.0 8483.0 85.0 2028.0 0.0 8483.0 0.0 8483.0 1289.0 0 0 0 0 t 0 0 0 798.0 1581.0 73.0 0.0 129.0 0.0 8483.0 0.0 3849.0 0 0 0 0
MA1493.1_shift3 (HES6)				; positions_7nt_m5 versus MA1493.1 (HES6); m=6/18; ncol2=10; w=0; offset=3; strand=D; shift=3; score=0.456436; ---GGCACGTGTy--- ; cor=; Ncor= a 0 0 0 12.0 16.0 17.0 439.0 2.0 10.0 0.0 0.0 33.0 79.0 0 0 0 c 0 0 0 39.0 35.0 439.0 0.0 439.0 12.0 7.0 0.0 21.0 152.0 0 0 0 g 0 0 0 439.0 439.0 19.0 9.0 9.0 439.0 29.0 439.0 0.0 0.0 0 0 0 t 0 0 0 43.0 13.0 15.0 11.0 16.0 0.0 439.0 0.0 439.0 209.0 0 0 0
MA0663.1_shift3 (MLX)				; positions_7nt_m5 versus MA0663.1 (MLX); m=7/18; ncol2=10; w=0; offset=3; strand=D; shift=3; score=0.451798; ---rTCACGTGAt--- ; cor=; Ncor= a 0 0 0 177.0 0.0 3.0 234.0 0.0 1.0 2.0 2.0 240.0 23.0 0 0 0 c 0 0 0 4.0 17.0 251.0 0.0 257.0 0.0 1.0 0.0 9.0 84.0 0 0 0 g 0 0 0 110.0 61.0 3.0 6.0 0.0 558.0 1.0 555.0 35.0 6.0 0 0 0 t 0 0 0 41.0 322.0 4.0 0.0 0.0 1.0 315.0 5.0 16.0 235.0 0 0 0
MA0649.2_shift3 (HEY2)				; positions_7nt_m5 versus MA0649.2 (HEY2); m=8/18; ncol2=9; w=0; offset=3; strand=D; shift=3; score=0.445215; ---GrCACGTGy---- ; cor=; Ncor= a 0 0 0 107.0 651.0 84.0 1800.0 7.0 27.0 36.0 0.0 50.0 0 0 0 0 c 0 0 0 99.0 305.0 1800.0 0.0 1800.0 72.0 120.0 34.0 1047.0 0 0 0 0 g 0 0 0 1800.0 620.0 83.0 128.0 0.0 1800.0 0.0 1800.0 128.0 0 0 0 0 t 0 0 0 101.0 224.0 58.0 0.0 0.0 0.0 1800.0 30.0 753.0 0 0 0 0
MA0464.3_rc_shift4 (BHLHE40_rc)				; positions_7nt_m5 versus MA0464.3_rc (BHLHE40_rc); m=9/18; ncol2=8; w=0; offset=4; strand=R; shift=4; score=0.438984; ----kCACGTGm---- ; cor=; Ncor= a 0 0 0 0 500.0 72.0 11222.0 0.0 32.0 77.0 14.0 6222.0 0 0 0 0 c 0 0 0 0 129.0 11222.0 87.0 11222.0 2.0 78.0 0.0 5000.0 0 0 0 0 g 0 0 0 0 5295.0 12.0 248.0 30.0 11222.0 130.0 11222.0 481.0 0 0 0 0 t 0 0 0 0 5927.0 4.0 167.0 66.0 23.0 11222.0 59.0 1391.0 0 0 0 0
MA2325.1_rc_shift4 (EPAS1_rc)				; positions_7nt_m5 versus MA2325.1_rc (EPAS1_rc); m=10/18; ncol2=9; w=0; offset=4; strand=R; shift=4; score=0.433073; ----skACGTGCg--- ; cor=; Ncor= a 0 0 0 0 48.0 13.0 583.0 5.0 3.0 1.0 3.0 44.0 100.0 0 0 0 c 0 0 0 0 255.0 43.0 16.0 626.0 6.0 15.0 1.0 545.0 115.0 0 0 0 g 0 0 0 0 323.0 174.0 36.0 2.0 629.0 4.0 635.0 23.0 352.0 0 0 0 t 0 0 0 0 14.0 410.0 5.0 7.0 2.0 620.0 1.0 28.0 73.0 0 0 0
MA0664.2_shift3 (MLXIPL)				; positions_7nt_m5 versus MA0664.2 (MLXIPL); m=11/18; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.431753; ---rtCACGTG----- ; cor=; Ncor= a 0 0 0 345.0 126.0 0.0 411.0 2.0 20.0 0.0 0.0 0 0 0 0 0 c 0 0 0 31.0 28.0 448.0 0.0 452.0 2.0 0.0 0.0 0 0 0 0 0 g 0 0 0 220.0 133.0 11.0 2.0 12.0 735.0 3.0 727.0 0 0 0 0 0 t 0 0 0 113.0 468.0 0.0 5.0 0.0 0.0 562.0 0.0 0 0 0 0 0
MA1631.2_shift4 (ASCL1)				; positions_7nt_m5 versus MA1631.2 (ASCL1); m=12/18; ncol2=9; w=0; offset=4; strand=D; shift=4; score=0.42429; ----gCACCTGCy--- ; cor=; Ncor= a 0 0 0 0 5836.0 184.0 32315.0 163.0 196.0 368.0 251.0 399.0 4490.0 0 0 0 c 0 0 0 0 6654.0 33562.0 563.0 30169.0 33402.0 740.0 445.0 28844.0 17883.0 0 0 0 g 0 0 0 0 18576.0 321.0 860.0 3209.0 607.0 492.0 33411.0 2719.0 2966.0 0 0 0 t 0 0 0 0 3290.0 289.0 618.0 815.0 151.0 32756.0 249.0 2394.0 9017.0 0 0 0
MA1945.2_rc_shift5 (ETV5::FIGLA_rc)				; positions_7nt_m5 versus MA1945.2_rc (ETV5::FIGLA_rc); m=13/18; ncol2=14; w=0; offset=5; strand=R; shift=5; score=0.423732; -----CACCTGyTTCC ; cor=; Ncor= a 0 0 0 0 0 34.0 1839.0 5.0 10.0 3.0 24.0 35.0 598.0 24.0 98.0 5.0 c 0 0 0 0 0 1839.0 40.0 1839.0 1839.0 26.0 20.0 1139.0 56.0 25.0 1839.0 1839.0 g 0 0 0 0 0 12.0 12.0 477.0 377.0 10.0 1839.0 177.0 47.0 41.0 3.0 4.0 t 0 0 0 0 0 15.0 18.0 64.0 15.0 1839.0 7.0 700.0 1839.0 1839.0 0.0 12.0
MA0626.2_shift4 (Npas2)				; positions_7nt_m5 versus MA0626.2 (Npas2); m=14/18; ncol2=8; w=0; offset=4; strand=D; shift=4; score=0.420876; ----sCACGTGt---- ; cor=; Ncor= a 0 0 0 0 154.0 0.0 999.0 81.0 81.0 0.0 81.0 74.0 0 0 0 0 c 0 0 0 0 377.0 999.0 0.0 918.0 0.0 0.0 0.0 172.0 0 0 0 0 g 0 0 0 0 420.0 0.0 0.0 0.0 918.0 0.0 918.0 188.0 0 0 0 0 t 0 0 0 0 48.0 0.0 0.0 0.0 0.0 999.0 0.0 566.0 0 0 0 0
MA1099.3_shift3 (HES1)				; positions_7nt_m5 versus MA1099.3 (HES1); m=15/18; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.417178; ---ggCrCGTG----- ; cor=; Ncor= a 0 0 0 3321.0 5858.0 464.0 9446.0 0.0 21.0 253.0 1.0 0 0 0 0 0 c 0 0 0 3492.0 2072.0 18526.0 0.0 18526.0 0.0 4057.0 0.0 0 0 0 0 0 g 0 0 0 18526.0 18526.0 0.0 9081.0 0.0 18526.0 0.0 18526.0 0 0 0 0 0 t 0 0 0 4239.0 8007.0 18.0 232.0 791.0 0.0 18526.0 53.0 0 0 0 0 0
MA0147.4_rc_shift4 (MYC_rc)				; positions_7nt_m5 versus MA0147.4_rc (MYC_rc); m=16/18; ncol2=8; w=0; offset=4; strand=R; shift=4; score=0.414379; ----gCACGTGG---- ; cor=; Ncor= a 0 0 0 0 524.0 46.0 4658.0 38.0 293.0 113.0 27.0 286.0 0 0 0 0 c 0 0 0 0 1198.0 4817.0 63.0 4578.0 70.0 170.0 31.0 472.0 0 0 0 0 g 0 0 0 0 2801.0 56.0 162.0 157.0 4525.0 59.0 4840.0 3746.0 0 0 0 0 t 0 0 0 0 419.0 23.0 59.0 169.0 54.0 4600.0 44.0 438.0 0 0 0 0
MA1464.2_shift3 (ARNT2)				; positions_7nt_m5 versus MA1464.2 (ARNT2); m=17/18; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.406626; ---rtCACGTG----- ; cor=; Ncor= a 0 0 0 11781.0 9572.0 505.0 40622.0 0.0 84.0 651.0 14.0 0 0 0 0 0 c 0 0 0 4265.0 4901.0 40622.0 122.0 40622.0 0.0 932.0 0.0 0 0 0 0 0 g 0 0 0 28841.0 9525.0 115.0 532.0 0.0 40622.0 111.0 40622.0 0 0 0 0 0 t 0 0 0 1951.0 40622.0 0.0 460.0 148.0 0.0 40622.0 971.0 0 0 0 0 0
MA0692.2_shift5 (TFEB)				; positions_7nt_m5 versus MA0692.2 (TFEB); m=18/18; ncol2=8; w=0; offset=5; strand=D; shift=5; score=0.402782; -----CACGTGAy--- ; cor=; Ncor= a 0 0 0 0 0 17.0 8715.0 0.0 2762.0 454.0 9.0 8715.0 283.0 0 0 0 c 0 0 0 0 0 8715.0 286.0 8715.0 288.0 169.0 10.0 2342.0 5889.0 0 0 0 g 0 0 0 0 0 0.0 62.0 83.0 8715.0 150.0 8715.0 872.0 558.0 0 0 0 t 0 0 0 0 0 3.0 274.0 1155.0 5.0 8715.0 11.0 807.0 2826.0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_7nt_m4_shift1 (positions_7nt_m4)				; positions_7nt_m4; m=0 (reference); ncol1=13; shift=1; ncol=14; -caCAaAGACACam ; Alignment reference a 0 624 1332 99 2673 1955 2617 162 2531 140 2594 139 1103 762 c 0 1152 418 2632 51 610 98 445 184 2642 116 2563 629 901 g 0 534 635 98 100 209 125 2129 116 55 116 124 640 655 t 0 617 542 98 103 153 87 191 96 90 101 101 555 609
MA0867.3_shift1 (SOX4)				; positions_7nt_m4 versus MA0867.3 (SOX4); m=1/4; ncol2=8; w=0; offset=0; strand=D; shift=1; score=0.480619; -aACAAwGr----- ; cor=; Ncor= a 0 5582.0 5582.0 0.0 5582.0 5582.0 5582.0 1018.0 2093.0 0 0 0 0 0 c 0 951.0 0.0 5582.0 1.0 6.0 120.0 64.0 1422.0 0 0 0 0 0 g 0 2047.0 0.0 37.0 6.0 11.0 50.0 5582.0 3489.0 0 0 0 0 0 t 0 431.0 9.0 33.0 0.0 0.0 2719.0 83.0 174.0 0 0 0 0 0
MA0769.3_rc_shift1 (TCF7_rc)				; positions_7nt_m4 versus MA0769.3_rc (TCF7_rc); m=2/4; ncol2=7; w=0; offset=0; strand=R; shift=1; score=0.446663; -wTCAAAG------ ; cor=; Ncor= a 0 8498.0 239.0 478.0 14489.0 14178.0 14556.0 157.0 0 0 0 0 0 0 c 0 1220.0 115.0 13972.0 83.0 266.0 67.0 206.0 0 0 0 0 0 0 g 0 855.0 63.0 278.0 62.0 248.0 125.0 14379.0 0 0 0 0 0 0 t 0 4421.0 14577.0 266.0 360.0 302.0 246.0 252.0 0 0 0 0 0 0
MA0869.3_shift0 (Sox11)				; positions_7nt_m4 versus MA0869.3 (Sox11); m=3/4; ncol2=8; w=-1; offset=-1; strand=D; shift=0; score=0.442784; GAACAAAG------ ; cor=; Ncor= a 1014.0 7912.0 9856.0 119.0 10020.0 9676.0 9276.0 506.0 0 0 0 0 0 0 c 764.0 766.0 100.0 9471.0 108.0 264.0 61.0 148.0 0 0 0 0 0 0 g 8063.0 1298.0 211.0 501.0 49.0 248.0 233.0 9486.0 0 0 0 0 0 0 t 407.0 272.0 81.0 157.0 71.0 60.0 678.0 108.0 0 0 0 0 0 0
MA0442.3_shift2 (SOX10)				; positions_7nt_m4 versus MA0442.3 (SOX10); m=4/4; ncol2=6; w=0; offset=1; strand=D; shift=2; score=0.436043; --ACAAAG------ ; cor=; Ncor= a 0 0 2023.0 3.0 2029.0 1968.0 1959.0 10.0 0 0 0 0 0 0 c 0 0 4.0 1989.0 7.0 28.0 23.0 13.0 0 0 0 0 0 0 g 0 0 3.0 11.0 7.0 20.0 12.0 2012.0 0 0 0 0 0 0 t 0 0 25.0 52.0 12.0 39.0 61.0 20.0 0 0 0 0 0 0