One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.115003_2026-01-05.115003_UARk68/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/2026/01/05/peak-motifs.2026-01-05.115003_2026-01-05.115003_UARk68/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_m1_shift2 ; 35 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m1_shift2 (oligos_7nt_mkv5_m1)
; oligos_7nt_mkv5_m1; m=0 (reference); ncol1=12; shift=2; ncol=14; --srCCACACCcws ; Alignment reference a 0 0 956 1515 416 86 4069 68 3410 86 201 321 1480 743 c 0 0 1393 969 3734 4277 236 4267 132 4187 4131 2833 953 1358 g 0 0 1265 1305 182 54 92 86 708 141 75 326 829 1471 t 0 0 901 726 183 98 118 94 265 101 108 1035 1253 943

MA1107.3_shift3 (KLF9)
; oligos_7nt_mkv5_m1 versus MA1107.3 (KLF9); m=1/34; ncol2=11; w=0; offset=1; strand=D; shift=3; score=0.826632; ---gCCACACCCAC ; cor=; Ncor= a 0 0 0 2862.0 4664.0 287.0 21899.0 221.0 19187.0 224.0 2428.0 146.0 18837.0 792.0 c 0 0 0 4342.0 17839.0 24709.0 2559.0 24863.0 1070.0 24365.0 22117.0 24682.0 4339.0 20644.0 g 0 0 0 16852.0 1660.0 291.0 708.0 353.0 4340.0 735.0 605.0 205.0 852.0 1778.0 t 0 0 0 1523.0 1416.0 292.0 413.0 142.0 982.0 255.0 429.0 546.0 1551.0 2365.0

MA0746.3_shift3 (SP3)
; oligos_7nt_mkv5_m1 versus MA0746.3 (SP3); m=2/34; ncol2=11; w=0; offset=1; strand=D; shift=3; score=0.765988; ---rCCACGCCCmC ; cor=; Ncor= a 0 0 0 2146.0 664.0 160.0 5253.0 6.0 465.0 0.0 0.0 2.0 3430.0 556.0 c 0 0 0 531.0 6591.0 6591.0 1338.0 6591.0 0.0 6591.0 6591.0 6591.0 3160.0 5116.0 g 0 0 0 4445.0 226.0 54.0 2.0 0.0 6591.0 0.0 0.0 2.0 39.0 297.0 t 0 0 0 421.0 345.0 202.0 11.0 12.0 504.0 0.0 9.0 718.0 552.0 1475.0

MA0741.1_shift3 (KLF16)
; oligos_7nt_mkv5_m1 versus MA0741.1 (KLF16); m=3/34; ncol2=11; w=0; offset=1; strand=D; shift=3; score=0.750166; ---gmCMCgCCCMC ; 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 32.0 c 0 0 0 535.0 1612.0 1612.0 461.0 1612.0 173.0 1612.0 1612.0 1612.0 1175.0 1612.0 g 0 0 0 1612.0 77.0 6.0 32.0 17.0 1612.0 0.0 8.0 3.0 19.0 23.0 t 0 0 0 240.0 116.0 45.0 0.0 19.0 403.0 0.0 0.0 97.0 40.0 370.0

MA1512.2_shift4 (KLF11)
; oligos_7nt_mkv5_m1 versus MA1512.2 (KLF11); m=4/34; ncol2=10; w=0; offset=2; strand=D; shift=4; score=0.712217; ----cCACGCCCmC ; cor=; Ncor= a 0 0 0 0 2022.0 650.0 8655.0 0.0 2426.0 11.0 1.0 0.0 4689.0 581.0 c 0 0 0 0 5549.0 8662.0 1289.0 9142.0 52.0 9161.0 9166.0 8941.0 4226.0 8403.0 g 0 0 0 0 401.0 156.0 115.0 0.0 8291.0 18.0 20.0 4.0 69.0 358.0 t 0 0 0 0 1192.0 506.0 27.0 38.0 349.0 23.0 7.0 885.0 761.0 1281.0

MA0599.1_shift3 (KLF5)
; oligos_7nt_mkv5_m1 versus MA0599.1 (KLF5); m=5/34; ncol2=10; w=0; offset=1; strand=D; shift=3; score=0.691559; ---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 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 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 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 0

MA1516.2_shift2 (KLF3)
; oligos_7nt_mkv5_m1 versus MA1516.2 (KLF3); m=6/34; ncol2=10; w=0; offset=0; strand=D; shift=2; score=0.68818; --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 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 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 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 0

MA1564.2_shift4 (SP9)
; oligos_7nt_mkv5_m1 versus MA1564.2 (SP9); m=7/34; ncol2=10; w=0; offset=2; strand=D; shift=4; score=0.683984; ----cCmCGCCCmc ; cor=; Ncor= a 0 0 0 0 566.0 321.0 2451.0 2.0 211.0 22.0 0.0 39.0 1192.0 188.0 c 0 0 0 0 2451.0 2451.0 1127.0 2451.0 200.0 2451.0 2451.0 2451.0 1259.0 1863.0 g 0 0 0 0 309.0 113.0 56.0 17.0 2451.0 0.0 0.0 24.0 38.0 191.0 t 0 0 0 0 518.0 284.0 96.0 9.0 173.0 14.0 30.0 412.0 353.0 588.0

MA1517.2_shift4 (KLF6)
; oligos_7nt_mkv5_m1 versus MA1517.2 (KLF6); m=8/34; ncol2=9; w=0; offset=2; strand=D; shift=4; score=0.677927; ----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 0 c 0 0 0 0 2192.0 2192.0 284.0 2192.0 0.0 2192.0 2192.0 2192.0 665.0 0 g 0 0 0 0 332.0 298.0 60.0 0.0 2192.0 0.0 60.0 12.0 52.0 0 t 0 0 0 0 219.0 140.0 60.0 24.0 0.0 0.0 0.0 64.0 520.0 0

MA0747.2_shift4 (SP8)
; oligos_7nt_mkv5_m1 versus MA0747.2 (SP8); m=9/34; ncol2=11; w=0; offset=2; strand=D; shift=4; score=0.647073; ----mCACgCCCmC ; 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 13.0 c 0 0 0 0 113.0 167.0 33.0 167.0 37.0 167.0 167.0 167.0 77.0 167.0 g 0 0 0 0 0.0 0.0 1.0 1.0 167.0 6.0 3.0 4.0 6.0 21.0 t 0 0 0 0 4.0 13.0 2.0 5.0 39.0 2.0 0.0 15.0 3.0 39.0

MA1515.2_shift4 (KLF2)
; oligos_7nt_mkv5_m1 versus MA1515.2 (KLF2); m=10/34; ncol2=8; w=0; offset=2; strand=D; shift=4; score=0.611322; ----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 0 c 0 0 0 0 4622.0 4622.0 2265.0 4622.0 274.0 4622.0 4622.0 4622.0 0 0 g 0 0 0 0 495.0 186.0 1060.0 0.0 2920.0 49.0 195.0 105.0 0 0 t 0 0 0 0 346.0 312.0 214.0 78.0 167.0 22.0 9.0 444.0 0 0

MA0493.3_rc_shift4 (KLF1_rc)
; oligos_7nt_mkv5_m1 versus MA0493.3_rc (KLF1_rc); m=11/34; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.570308; ----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 0 c 0 0 0 0 998.0 896.0 675.0 998.0 1.0 998.0 998.0 998.0 0 0 g 0 0 0 0 1.0 1.0 1.0 1.0 529.0 1.0 1.0 1.0 0 0 t 0 0 0 0 1.0 82.0 1.0 1.0 125.0 1.0 1.0 1.0 0 0

MA1511.2_rc_shift4 (KLF10_rc)
; oligos_7nt_mkv5_m1 versus MA1511.2_rc (KLF10_rc); m=12/34; ncol2=9; w=0; offset=2; strand=R; shift=4; score=0.56647; ----CCMCGCCCC- ; cor=; Ncor= a 0 0 0 0 49.3528 26.699 253.236 0.809061 152.913 0.809061 0.809061 0.809061 104.369 0 c 0 0 0 0 884.304 906.958 693.366 997.573 0.809061 997.573 997.573 997.573 819.579 0 g 0 0 0 0 0.809061 0.809061 52.589 0.809061 803.398 0.809061 0.809061 0.809061 0.809061 0 t 0 0 0 0 65.534 65.534 0.809061 0.809061 42.8803 0.809061 0.809061 0.809061 75.2427 0

MA0740.2_rc_shift4 (KLF14_rc)
; oligos_7nt_mkv5_m1 versus MA0740.2_rc (KLF14_rc); m=13/34; ncol2=9; w=0; offset=2; strand=R; shift=4; score=0.565469; ----CCMCGCCCm- ; cor=; Ncor= a 0 0 0 0 0.635877 0.635877 280.83 0.635877 90.067 0.635877 0.635877 0.635877 348.681 0 c 0 0 0 0 738.662 891.023 717.898 998.092 0.635877 998.092 998.092 998.092 619.525 0 g 0 0 0 0 62.0884 0.635877 0.635877 0.635877 814.392 0.635877 0.635877 0.635877 0.635877 0 t 0 0 0 0 198.614 107.705 0.635877 0.635877 94.9046 0.635877 0.635877 0.635877 31.158 0

MA0039.5_shift4 (KLF4)
; oligos_7nt_mkv5_m1 versus MA0039.5 (KLF4); m=14/34; ncol2=8; w=0; offset=2; strand=D; shift=4; score=0.561867; ----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 0 c 0 0 0 0 49209.0 47865.0 45405.0 52875.0 161.0 52366.0 51112.0 51045.0 0 0 g 0 0 0 0 1583.0 1214.0 1422.0 793.0 6598.0 1470.0 1870.0 1005.0 0 0 t 0 0 0 0 2560.0 4633.0 1969.0 976.0 3456.0 1129.0 1218.0 2565.0 0 0

MA1567.3_rc_shift3 (Tbx6_rc)
; oligos_7nt_mkv5_m1 versus MA1567.3_rc (Tbx6_rc); m=15/34; ncol2=9; w=0; offset=1; strand=R; shift=3; score=0.549162; ---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 0 c 0 0 0 898.0 332.0 8237.0 676.0 9393.0 152.0 9131.0 8347.0 2541.0 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 0 t 0 0 0 7889.0 9063.0 183.0 710.0 39.0 158.0 103.0 758.0 4968.0 0 0

MA2123.1_shift3 (Hand1)
; oligos_7nt_mkv5_m1 versus MA2123.1 (Hand1); m=16/34; ncol2=9; w=0; offset=1; strand=D; shift=3; score=0.547906; ---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 0 c 0 0 0 128.0 850.0 1036.0 16.0 24.0 33.0 955.0 962.0 235.0 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 0 t 0 0 0 609.0 27.0 6.0 20.0 14.0 17.0 33.0 14.0 613.0 0 0

MA0742.2_rc_shift4 (KLF12_rc)
; oligos_7nt_mkv5_m1 versus MA0742.2_rc (KLF12_rc); m=17/34; ncol2=9; w=0; offset=2; strand=R; shift=4; score=0.545336; ----CCCCGCCCC- ; cor=; Ncor= a 0 0 0 0 29.2208 0.649351 190.26 0.649351 0.649351 0.649351 0.649351 0.649351 187.662 0 c 0 0 0 0 969.481 930.519 725.325 998.052 0.649351 998.052 998.052 912.338 709.74 0 g 0 0 0 0 0.649351 0.649351 78.5714 0.649351 951.299 0.649351 0.649351 0.649351 0.649351 0 t 0 0 0 0 0.649351 68.1818 5.84416 0.649351 47.4026 0.649351 0.649351 86.3636 101.948 0

MA0657.2_shift2 (KLF13)
; oligos_7nt_mkv5_m1 versus MA0657.2 (KLF13); m=18/34; ncol2=17; w=0; offset=0; strand=D; shift=2; score=0.526081; --tRmCACGCCCCY ; cor=; Ncor= a 0 0 733.0 1891.0 496.0 75.0 2384.0 0.0 24.0 0.0 4.0 1.0 509.0 3.0 c 0 0 46.0 0.0 923.0 924.0 0.0 1353.0 2.0 1596.0 1469.0 1760.0 1766.0 638.0 g 0 0 796.0 4630.0 58.0 2.0 11.0 7.0 3028.0 0.0 0.0 0.0 0.0 3.0 t 0 0 1766.0 59.0 102.0 61.0 0.0 3.0 9.0 7.0 0.0 16.0 10.0 1403.0

MA0800.2_rc_shift3 (EOMES_rc)
; oligos_7nt_mkv5_m1 versus MA0800.2_rc (EOMES_rc); m=19/34; ncol2=9; w=0; offset=1; strand=R; shift=3; score=0.525865; ---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 0 c 0 0 0 1022.0 99.0 9832.0 98.0 9832.0 50.0 9832.0 9832.0 1259.0 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 0 t 0 0 0 9832.0 9832.0 210.0 495.0 9.0 19.0 23.0 1775.0 9832.0 0 0

MA1959.2_rc_shift4 (KLF7_rc)
; oligos_7nt_mkv5_m1 versus MA1959.2_rc (KLF7_rc); m=20/34; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.515048; ----CcMCGCCC-- ; cor=; Ncor= a 0 0 0 0 1.0 167.0 254.0 1.0 167.0 1.0 1.0 1.0 0 0 c 0 0 0 0 997.0 642.0 720.0 997.0 1.0 997.0 997.0 997.0 0 0 g 0 0 0 0 1.0 42.0 25.0 1.0 788.0 1.0 1.0 1.0 0 0 t 0 0 0 0 1.0 150.0 1.0 1.0 45.0 1.0 1.0 1.0 0 0

MA0807.1_rc_shift4 (TBX5_rc)
; oligos_7nt_mkv5_m1 versus MA0807.1_rc (TBX5_rc); m=21/34; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.510876; ----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 0 c 0 0 0 0 343.0 1804.0 201.0 1804.0 166.0 1804.0 1804.0 409.0 0 0 g 0 0 0 0 76.0 616.0 225.0 0.0 131.0 0.0 190.0 89.0 0 0 t 0 0 0 0 1804.0 126.0 162.0 27.0 45.0 0.0 235.0 1804.0 0 0

MA0801.1_rc_shift4 (MGA_rc)
; oligos_7nt_mkv5_m1 versus MA0801.1_rc (MGA_rc); m=22/34; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.504099; ----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 0 c 0 0 0 0 920.0 30489.0 381.0 30489.0 96.0 30489.0 30489.0 8873.0 0 0 g 0 0 0 0 110.0 1753.0 3089.0 1.0 3534.0 509.0 3737.0 1151.0 0 0 t 0 0 0 0 30489.0 689.0 1042.0 14.0 12.0 16.0 4310.0 30489.0 0 0

MA0803.1_rc_shift4 (TBX15_rc)
; oligos_7nt_mkv5_m1 versus MA0803.1_rc (TBX15_rc); m=23/34; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.498582; ----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 0 c 0 0 0 0 306.0 10502.0 324.0 10502.0 245.0 10502.0 10502.0 664.0 0 0 g 0 0 0 0 71.0 454.0 435.0 8.0 175.0 7.0 101.0 74.0 0 0 t 0 0 0 0 10502.0 44.0 140.0 0.0 61.0 19.0 458.0 10502.0 0 0

MA0805.1_rc_shift4 (TBX1_rc)
; oligos_7nt_mkv5_m1 versus MA0805.1_rc (TBX1_rc); m=24/34; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.488792; ----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 0 c 0 0 0 0 18.0 11931.0 109.0 11931.0 141.0 11931.0 11931.0 1007.0 0 0 g 0 0 0 0 33.0 720.0 613.0 5.0 214.0 0.0 711.0 113.0 0 0 t 0 0 0 0 11931.0 141.0 142.0 0.0 28.0 0.0 1560.0 11931.0 0 0

MA0806.1_rc_shift4 (TBX4_rc)
; oligos_7nt_mkv5_m1 versus MA0806.1_rc (TBX4_rc); m=25/34; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.482421; ----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 0 c 0 0 0 0 1733.0 18646.0 304.0 18646.0 191.0 18646.0 18646.0 2353.0 0 0 g 0 0 0 0 588.0 5396.0 2859.0 0.0 1644.0 189.0 2328.0 437.0 0 0 t 0 0 0 0 18646.0 1355.0 1551.0 0.0 0.0 38.0 3082.0 18646.0 0 0

MA0002.3_rc_shift1 (Runx1_rc)
; oligos_7nt_mkv5_m1 versus MA0002.3_rc (Runx1_rc); m=26/34; ncol2=9; w=-1; offset=-1; strand=R; shift=1; score=0.47638; -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 0 c 0 289.0 81.0 251.0 1848.0 1987.0 70.0 1872.0 7.0 149.0 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 0 t 0 500.0 131.0 10.0 17.0 0.0 87.0 0.0 57.0 123.0 0 0 0 0

MA1620.2_shift6 (Ptf1A)
; oligos_7nt_mkv5_m1 versus MA1620.2 (Ptf1A); m=27/34; ncol2=8; w=0; offset=4; strand=D; shift=6; score=0.473434; ------aCACCTGt ; cor=; Ncor= a 0 0 0 0 0 0 6867.0 184.0 10033.0 116.0 256.0 85.0 68.0 527.0 c 0 0 0 0 0 0 1188.0 9887.0 60.0 8567.0 9612.0 94.0 109.0 1615.0 g 0 0 0 0 0 0 1410.0 113.0 84.0 1182.0 294.0 98.0 9972.0 1516.0 t 0 0 0 0 0 0 826.0 107.0 114.0 426.0 129.0 10014.0 142.0 6633.0

MA0130.1_shift2 (ZNF354C)
; oligos_7nt_mkv5_m1 versus MA0130.1 (ZNF354C); m=28/34; ncol2=6; w=0; offset=0; strand=D; shift=2; score=0.456875; --mTCCAC------ ; cor=; Ncor= a 0 0 7.0 3.0 0.0 0.0 16.0 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 0 g 0 0 3.0 0.0 0.0 0.0 0.0 1.0 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 0

MA1989.2_shift1 (Bcl11B)
; oligos_7nt_mkv5_m1 versus MA1989.2 (Bcl11B); m=29/34; ncol2=9; w=-1; offset=-1; strand=D; shift=1; score=0.450432; -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 0 c 0 5084.0 2339.0 1397.0 36798.0 37476.0 940.0 35985.0 1397.0 3546.0 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 0 t 0 6252.0 3000.0 602.0 840.0 841.0 1321.0 871.0 1095.0 5436.0 0 0 0 0

MA0162.5_shift0 (EGR1)
; oligos_7nt_mkv5_m1 versus MA0162.5 (EGR1); m=30/34; ncol2=10; w=-2; offset=-2; strand=D; shift=0; score=0.432959; 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 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 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 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 0

MA1558.2_rc_shift7 (SNAI1_rc)
; oligos_7nt_mkv5_m1 versus MA1558.2_rc (SNAI1_rc); m=31/34; ncol2=7; w=0; offset=5; strand=R; shift=7; score=0.423679; -------CACCTGy ; cor=; Ncor= a 0 0 0 0 0 0 0 311.0 19982.0 28.0 306.0 568.0 340.0 3518.0 c 0 0 0 0 0 0 0 19982.0 42.0 19982.0 19982.0 91.0 275.0 12989.0 g 0 0 0 0 0 0 0 0.0 0.0 5.0 517.0 297.0 19982.0 501.0 t 0 0 0 0 0 0 0 706.0 38.0 72.0 1766.0 19982.0 446.0 6993.0

MA1648.2_shift7 (TCF12)
; oligos_7nt_mkv5_m1 versus MA1648.2 (TCF12); m=32/34; ncol2=7; w=0; offset=5; strand=D; shift=7; score=0.415883; -------CACCTGC ; cor=; Ncor= a 0 0 0 0 0 0 0 955.0 52529.0 744.0 1913.0 1380.0 2819.0 1089.0 c 0 0 0 0 0 0 0 57848.0 2007.0 55598.0 55765.0 3886.0 2088.0 55061.0 g 0 0 0 0 0 0 0 1186.0 5607.0 3780.0 3536.0 2625.0 55922.0 2314.0 t 0 0 0 0 0 0 0 1887.0 1733.0 1754.0 662.0 53985.0 1047.0 3412.0

MA0522.4_shift7 (TCF3)
; oligos_7nt_mkv5_m1 versus MA0522.4 (TCF3); m=33/34; ncol2=7; w=0; offset=5; strand=D; shift=7; score=0.413662; -------CACCTGC ; cor=; Ncor= a 0 0 0 0 0 0 0 469.0 28916.0 309.0 1127.0 380.0 1089.0 295.0 c 0 0 0 0 0 0 0 29379.0 396.0 28640.0 27199.0 2003.0 1038.0 28742.0 g 0 0 0 0 0 0 0 708.0 1574.0 1362.0 2652.0 1339.0 28642.0 987.0 t 0 0 0 0 0 0 0 705.0 375.0 950.0 283.0 27539.0 492.0 1237.0

MA0479.2_shift1 (FOXH1)
; oligos_7nt_mkv5_m1 versus MA0479.2 (FOXH1); m=34/34; ncol2=8; w=-1; offset=-1; strand=D; shift=1; score=0.407834; -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 0 c 0 0.0 0.0 0.0 5773.0 6797.0 0.0 8211.0 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 0 t 0 0.0 435.0 8211.0 64.0 0.0 0.0 0.0 1073.0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m5_shift4 ; 48 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m5_shift4 (oligos_7nt_mkv5_m5)
; oligos_7nt_mkv5_m5; m=0 (reference); ncol1=11; shift=4; ncol=15; ----wwATTTTTAww ; Alignment reference a 0 0 0 0 1250 1183 3727 281 187 121 154 306 3880 1424 1437 c 0 0 0 0 624 897 189 204 178 270 187 117 108 743 911 g 0 0 0 0 914 816 200 184 196 132 209 134 139 662 645 t 0 0 0 0 1603 1495 275 3722 3830 3868 3841 3834 264 1562 1398

MA0052.5_rc_shift4 (MEF2A_rc)
; oligos_7nt_mkv5_m5 versus MA0052.5_rc (MEF2A_rc); m=1/47; ncol2=10; w=0; offset=0; strand=R; shift=4; score=0.764422; ----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

MA2124.1_shift6 (Hmga1)
; oligos_7nt_mkv5_m5 versus MA2124.1 (Hmga1); m=2/47; ncol2=8; w=0; offset=2; strand=D; shift=6; score=0.725655; ------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

MA0773.1_rc_shift3 (MEF2D_rc)
; oligos_7nt_mkv5_m5 versus MA0773.1_rc (MEF2D_rc); m=3/47; ncol2=12; w=-1; offset=-1; strand=R; shift=3; score=0.68309; ---kCTATTTwTAGh ; cor=; Ncor= a 0 0 0 585.0 5.0 0.0 5803.0 69.0 217.0 778.0 3021.0 6.0 5803.0 53.0 1642.0 c 0 0 0 70.0 5803.0 4.0 0.0 1.0 2.0 0.0 2.0 2.0 0.0 0.0 1933.0 g 0 0 0 2598.0 17.0 0.0 0.0 2.0 0.0 4.0 0.0 8.0 22.0 5803.0 109.0 t 0 0 0 3206.0 339.0 5803.0 0.0 5803.0 5803.0 5803.0 2782.0 5803.0 3.0 28.0 2120.0

MA0497.2_rc_shift3 (MEF2C_rc)
; oligos_7nt_mkv5_m5 versus MA0497.2_rc (MEF2C_rc); m=4/47; ncol2=11; w=-1; offset=-1; strand=R; shift=3; score=0.66765; ---kCTATTTTTrg- ; cor=; Ncor= a 0 0 0 250.0 29.0 0.0 2091.0 70.0 76.0 15.0 230.0 263.0 1224.0 337.0 0 c 0 0 0 148.0 1671.0 32.0 0.0 4.0 2.0 87.0 241.0 74.0 0.0 78.0 0 g 0 0 0 836.0 120.0 0.0 62.0 0.0 0.0 0.0 32.0 256.0 985.0 1412.0 0 t 0 0 0 975.0 389.0 2177.0 56.0 2135.0 2131.0 2107.0 1706.0 1616.0 0.0 382.0 0

MA0660.1_rc_shift3 (MEF2B_rc)
; oligos_7nt_mkv5_m5 versus MA0660.1_rc (MEF2B_rc); m=5/47; ncol2=12; w=-1; offset=-1; strand=R; shift=3; score=0.666074; ---kCTATTTwTAGy ; cor=; Ncor= a 0 0 0 506.0 3.0 3.0 3150.0 45.0 143.0 710.0 1655.0 15.0 3150.0 12.0 505.0 c 0 0 0 99.0 3150.0 2.0 0.0 0.0 2.0 12.0 0.0 0.0 0.0 0.0 1766.0 g 0 0 0 2138.0 19.0 3.0 0.0 0.0 3.0 0.0 2.0 0.0 25.0 3150.0 72.0 t 0 0 0 1013.0 98.0 3150.0 0.0 3150.0 3150.0 3150.0 1495.0 3150.0 0.0 18.0 1385.0

MA1125.2_rc_shift4 (ZNF384_rc)
; oligos_7nt_mkv5_m5 versus MA1125.2_rc (ZNF384_rc); m=6/47; ncol2=8; w=0; offset=0; strand=R; shift=4; score=0.56354; ----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 c 0 0 0 0 2898.0 2767.0 0.0 14.0 15.0 26.0 19.0 13.0 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 t 0 0 0 0 18916.0 20322.0 30406.0 30202.0 30252.0 30072.0 30191.0 30354.0 0 0 0

MA0148.5_rc_shift6 (FOXA1_rc)
; oligos_7nt_mkv5_m5 versus MA0148.5_rc (FOXA1_rc); m=7/47; ncol2=8; w=0; offset=2; strand=R; shift=6; score=0.538785; ------ATGTTTAC- ; cor=; Ncor= a 0 0 0 0 0 0 230183.0 6999.0 37659.0 3793.0 10719.0 5233.0 291718.0 11970.0 0 c 0 0 0 0 0 0 27283.0 3226.0 4805.0 3652.0 3774.0 5243.0 6092.0 281612.0 0 g 0 0 0 0 0 0 23038.0 3674.0 272943.0 2452.0 13410.0 14648.0 13932.0 5935.0 0 t 0 0 0 0 0 0 42299.0 308904.0 7396.0 312906.0 294900.0 297679.0 11061.0 23286.0 0

MA0108.3_rc_shift8 (TBP_rc)
; oligos_7nt_mkv5_m5 versus MA0108.3_rc (TBP_rc); m=8/47; ncol2=7; w=0; offset=4; strand=R; shift=8; score=0.531292; --------wTWTATA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 121.0 6.0 121.0 30.0 374.0 35.0 309.0 c 0 0 0 0 0 0 0 0 44.0 20.0 0.0 5.0 2.0 2.0 18.0 g 0 0 0 0 0 0 0 0 2.0 3.0 0.0 0.0 10.0 0.0 46.0 t 0 0 0 0 0 0 0 0 222.0 360.0 268.0 354.0 3.0 352.0 16.0

MA1563.2_rc_shift4 (SOX18_rc)
; oligos_7nt_mkv5_m5 versus MA1563.2_rc (SOX18_rc); m=9/47; ncol2=8; w=0; offset=0; strand=R; shift=4; score=0.529105; ----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 c 0 0 0 0 424.0 221.0 0.0 17.0 0.0 91.0 0.0 170.0 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 t 0 0 0 0 382.0 203.0 0.0 424.0 424.0 0.0 424.0 424.0 0 0 0

MA0047.4_rc_shift7 (FOXA2_rc)
; oligos_7nt_mkv5_m5 versus MA0047.4_rc (FOXA2_rc); m=10/47; ncol2=8; w=0; offset=3; strand=R; shift=7; score=0.52404; -------TGTTTACw ; cor=; Ncor= a 0 0 0 0 0 0 0 9418.0 59170.0 7805.0 10179.0 6283.0 254489.0 4144.0 117443.0 c 0 0 0 0 0 0 0 2984.0 3603.0 2805.0 6484.0 2641.0 1890.0 236311.0 38538.0 g 0 0 0 0 0 0 0 3086.0 196969.0 3329.0 22429.0 9424.0 2037.0 2928.0 12432.0 t 0 0 0 0 0 0 0 246665.0 2411.0 248214.0 223061.0 243805.0 3737.0 18770.0 93740.0

MA2118.1_rc_shift7 (FOXS1_rc)
; oligos_7nt_mkv5_m5 versus MA2118.1_rc (FOXS1_rc); m=11/47; ncol2=8; w=0; offset=3; strand=R; shift=7; score=0.517957; -------TGTTTACa ; cor=; Ncor= a 0 0 0 0 0 0 0 10.0 36.0 5.0 5.0 9.0 334.0 7.0 239.0 c 0 0 0 0 0 0 0 3.0 7.0 5.0 8.0 5.0 12.0 323.0 49.0 g 0 0 0 0 0 0 0 5.0 322.0 3.0 16.0 15.0 15.0 8.0 20.0 t 0 0 0 0 0 0 0 356.0 9.0 361.0 345.0 345.0 13.0 36.0 66.0

MA0613.1_rc_shift6 (FOXG1_rc)
; oligos_7nt_mkv5_m5 versus MA0613.1_rc (FOXG1_rc); m=12/47; ncol2=8; w=0; offset=2; strand=R; shift=6; score=0.511751; ------wTGTTTAy- ; cor=; Ncor= a 0 0 0 0 0 0 333.0 1.0 1.0 1.0 1.0 1.0 997.0 1.0 0 c 0 0 0 0 0 0 2.0 1.0 1.0 1.0 1.0 1.0 1.0 623.0 0 g 0 0 0 0 0 0 167.0 1.0 997.0 1.0 1.0 1.0 1.0 1.0 0 t 0 0 0 0 0 0 498.0 997.0 1.0 997.0 997.0 997.0 1.0 374.0 0

MA0032.2_rc_shift6 (FOXC1_rc)
; oligos_7nt_mkv5_m5 versus MA0032.2_rc (FOXC1_rc); m=13/47; ncol2=11; w=0; offset=2; strand=R; shift=6; score=0.510116; ------wTrTTKAYw ; cor=; Ncor= a 0 0 0 0 0 0 11787.0 184.0 9708.0 112.0 57.0 45.0 18489.0 51.0 10596.0 c 0 0 0 0 0 0 1107.0 433.0 165.0 141.0 0.0 21.0 390.0 13631.0 2422.0 g 0 0 0 0 0 0 1558.0 27.0 8782.0 56.0 108.0 5372.0 1652.0 336.0 2008.0 t 0 0 0 0 0 0 6702.0 18489.0 122.0 18489.0 18489.0 13117.0 2496.0 4858.0 7893.0

MA0845.1_rc_shift6 (FOXB1_rc)
; oligos_7nt_mkv5_m5 versus MA0845.1_rc (FOXB1_rc); m=14/47; ncol2=11; w=0; offset=2; strand=R; shift=6; score=0.49462; ------aTrTTKACw ; cor=; Ncor= a 0 0 0 0 0 0 4008.0 147.0 4589.0 216.0 381.0 73.0 6841.0 124.0 4858.0 c 0 0 0 0 0 0 556.0 157.0 104.0 47.0 0.0 75.0 113.0 6841.0 409.0 g 0 0 0 0 0 0 573.0 0.0 2252.0 47.0 213.0 1950.0 240.0 54.0 218.0 t 0 0 0 0 0 0 1704.0 6841.0 28.0 6841.0 6841.0 4891.0 180.0 1159.0 1983.0

MA0033.2_rc_shift7 (FOXL1_rc)
; oligos_7nt_mkv5_m5 versus MA0033.2_rc (FOXL1_rc); m=15/47; ncol2=7; w=0; offset=3; strand=R; shift=7; score=0.489044; -------TGTTTAy- ; cor=; Ncor= a 0 0 0 0 0 0 0 17.0 1057.0 0.0 15.0 0.0 4780.0 140.0 0 c 0 0 0 0 0 0 0 0.0 0.0 50.0 0.0 57.0 0.0 2678.0 0 g 0 0 0 0 0 0 0 54.0 3723.0 82.0 38.0 628.0 416.0 13.0 0 t 0 0 0 0 0 0 0 4780.0 0.0 4780.0 4780.0 4780.0 10.0 2102.0 0

MA0901.3_rc_shift8 (HOXB13_rc)
; oligos_7nt_mkv5_m5 versus MA0901.3_rc (HOXB13_rc); m=16/47; ncol2=9; w=0; offset=4; strand=R; shift=8; score=0.485457; --------TTTTATT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 4137.0 1252.0 1628.0 3496.0 77157.0 3031.0 7343.0 c 0 0 0 0 0 0 0 0 1882.0 625.0 490.0 1083.0 586.0 1913.0 351.0 g 0 0 0 0 0 0 0 0 2465.0 760.0 599.0 523.0 550.0 726.0 4611.0 t 0 0 0 0 0 0 0 0 70230.0 76077.0 75997.0 73612.0 421.0 73044.0 66409.0

MA1606.2_rc_shift7 (Foxf1_rc)
; oligos_7nt_mkv5_m5 versus MA1606.2_rc (Foxf1_rc); m=17/47; ncol2=7; w=0; offset=3; strand=R; shift=7; score=0.481097; -------TGTTTAy- ; cor=; Ncor= a 0 0 0 0 0 0 0 1916.0 4187.0 831.0 2538.0 903.0 57368.0 3653.0 0 c 0 0 0 0 0 0 0 443.0 522.0 1067.0 811.0 445.0 1158.0 33599.0 0 g 0 0 0 0 0 0 0 745.0 54394.0 475.0 2249.0 899.0 446.0 3754.0 0 t 0 0 0 0 0 0 0 56436.0 437.0 57167.0 53942.0 57293.0 568.0 18534.0 0

MA0913.3_rc_shift8 (HOXD9_rc)
; oligos_7nt_mkv5_m5 versus MA0913.3_rc (HOXD9_rc); m=18/47; ncol2=9; w=0; offset=4; strand=R; shift=8; score=0.473456; --------TTTTATk ; cor=; Ncor= a 0 0 0 0 0 0 0 0 2194.0 0.0 123.0 5445.0 16363.0 4.0 927.0 c 0 0 0 0 0 0 0 0 1216.0 0.0 0.0 0.0 0.0 439.0 675.0 g 0 0 0 0 0 0 0 0 2202.0 0.0 0.0 8.0 0.0 226.0 8643.0 t 0 0 0 0 0 0 0 0 16363.0 16363.0 16363.0 16363.0 215.0 16363.0 16363.0

MA0899.2_rc_shift8 (HOXA10_rc)
; oligos_7nt_mkv5_m5 versus MA0899.2_rc (HOXA10_rc); m=19/47; ncol2=9; w=0; offset=4; strand=R; shift=8; score=0.469917; --------tTTWATk ; cor=; Ncor= a 0 0 0 0 0 0 0 0 2058.0 331.0 384.0 2422.0 8381.0 267.0 957.0 c 0 0 0 0 0 0 0 0 1560.0 125.0 76.0 121.0 0.0 718.0 1022.0 g 0 0 0 0 0 0 0 0 2082.0 568.0 36.0 84.0 11.0 455.0 4516.0 t 0 0 0 0 0 0 0 0 8381.0 8381.0 8381.0 5960.0 367.0 8381.0 8381.0

MA1473.2_rc_shift8 (CDX4_rc)
; oligos_7nt_mkv5_m5 versus MA1473.2_rc (CDX4_rc); m=20/47; ncol2=9; w=0; offset=4; strand=R; shift=8; score=0.469176; --------tTTTATk ; cor=; Ncor= a 0 0 0 0 0 0 0 0 4827.0 0.0 0.0 0.0 23367.0 0.0 0.0 c 0 0 0 0 0 0 0 0 2168.0 0.0 0.0 0.0 0.0 0.0 25.0 g 0 0 0 0 0 0 0 0 6493.0 57.0 0.0 0.0 0.0 0.0 10976.0 t 0 0 0 0 0 0 0 0 23367.0 23367.0 23367.0 23367.0 0.0 23367.0 12392.0

MA1103.3_rc_shift7 (FOXK2_rc)
; oligos_7nt_mkv5_m5 versus MA1103.3_rc (FOXK2_rc); m=21/47; ncol2=7; w=0; offset=3; strand=R; shift=7; score=0.469147; -------TGTTTAC- ; cor=; Ncor= a 0 0 0 0 0 0 0 505.0 1472.0 365.0 565.0 341.0 15782.0 694.0 0 c 0 0 0 0 0 0 0 170.0 426.0 391.0 436.0 148.0 327.0 12737.0 0 g 0 0 0 0 0 0 0 295.0 14282.0 330.0 1291.0 277.0 210.0 551.0 0 t 0 0 0 0 0 0 0 15709.0 499.0 15593.0 14387.0 15913.0 360.0 2697.0 0

MA0481.4_rc_shift7 (FOXP1_rc)
; oligos_7nt_mkv5_m5 versus MA0481.4_rc (FOXP1_rc); m=22/47; ncol2=7; w=0; offset=3; strand=R; shift=7; score=0.466456; -------TGTTTAC- ; cor=; Ncor= a 0 0 0 0 0 0 0 3609.0 10795.0 2069.0 2585.0 1947.0 71862.0 3111.0 0 c 0 0 0 0 0 0 0 749.0 1493.0 1132.0 1830.0 1073.0 920.0 59571.0 0 g 0 0 0 0 0 0 0 1904.0 61094.0 1487.0 5067.0 2095.0 727.0 1573.0 0 t 0 0 0 0 0 0 0 68456.0 1336.0 70030.0 65236.0 69603.0 1209.0 10463.0 0

MA0031.2_rc_shift7 (FOXD1_rc)
; oligos_7nt_mkv5_m5 versus MA0031.2_rc (FOXD1_rc); m=23/47; ncol2=7; w=0; offset=3; strand=R; shift=7; score=0.466286; -------TGTTTAC- ; cor=; Ncor= a 0 0 0 0 0 0 0 0.0 1.0 0.0 0.0 0.0 20.0 1.0 0 c 0 0 0 0 0 0 0 0.0 0.0 1.0 0.0 0.0 0.0 17.0 0 g 0 0 0 0 0 0 0 0.0 18.0 1.0 0.0 1.0 0.0 1.0 0 t 0 0 0 0 0 0 0 20.0 1.0 18.0 20.0 19.0 0.0 1.0 0

MA0868.3_rc_shift5 (SOX8_rc)
; oligos_7nt_mkv5_m5 versus MA0868.3_rc (SOX8_rc); m=24/47; ncol2=7; w=0; offset=1; strand=R; shift=5; score=0.465904; -----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 c 0 0 0 0 0 1827.0 20.0 0.0 0.0 35.0 0.0 263.0 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 t 0 0 0 0 0 1356.0 273.0 1827.0 1827.0 3.0 1827.0 1827.0 0 0 0

MA0848.1_rc_shift7 (FOXO4_rc)
; oligos_7nt_mkv5_m5 versus MA0848.1_rc (FOXO4_rc); m=25/47; ncol2=7; w=0; offset=3; strand=R; shift=7; score=0.464406; -------TGTTTAC- ; cor=; Ncor= a 0 0 0 0 0 0 0 40.0 958.0 10.0 20.0 20.0 5378.0 0.0 0 c 0 0 0 0 0 0 0 10.0 33.0 90.0 19.0 32.0 123.0 5378.0 0 g 0 0 0 0 0 0 0 10.0 5378.0 0.0 146.0 1259.0 69.0 13.0 0 t 0 0 0 0 0 0 0 5378.0 58.0 5378.0 5378.0 5378.0 345.0 1669.0 0

MA1683.2_rc_shift7 (FOXA3_rc)
; oligos_7nt_mkv5_m5 versus MA1683.2_rc (FOXA3_rc); m=26/47; ncol2=7; w=0; offset=3; strand=R; shift=7; score=0.464356; -------TGTTTAC- ; cor=; Ncor= a 0 0 0 0 0 0 0 1838.0 7272.0 984.0 978.0 1143.0 46586.0 2596.0 0 c 0 0 0 0 0 0 0 614.0 1205.0 934.0 977.0 636.0 690.0 40396.0 0 g 0 0 0 0 0 0 0 933.0 39509.0 973.0 3883.0 1980.0 903.0 1464.0 0 t 0 0 0 0 0 0 0 45552.0 951.0 46046.0 43099.0 45178.0 758.0 4481.0 0

MA0042.2_rc_shift7 (FOXI1_rc)
; oligos_7nt_mkv5_m5 versus MA0042.2_rc (FOXI1_rc); m=27/47; ncol2=7; w=0; offset=3; strand=R; shift=7; score=0.46417; -------TGTTTAC- ; cor=; Ncor= a 0 0 0 0 0 0 0 0.0 810.0 66.0 0.0 0.0 5175.0 0.0 0 c 0 0 0 0 0 0 0 25.0 48.0 29.0 0.0 37.0 35.0 5175.0 0 g 0 0 0 0 0 0 0 12.0 5175.0 23.0 23.0 540.0 60.0 39.0 0 t 0 0 0 0 0 0 0 5175.0 157.0 5175.0 5175.0 5175.0 74.0 618.0 0

MA2117.1_rc_shift7 (FOXP4_rc)
; oligos_7nt_mkv5_m5 versus MA2117.1_rc (FOXP4_rc); m=28/47; ncol2=7; w=0; offset=3; strand=R; shift=7; score=0.460901; -------TGTTTAC- ; cor=; Ncor= a 0 0 0 0 0 0 0 776.0 2446.0 418.0 356.0 466.0 19792.0 1294.0 0 c 0 0 0 0 0 0 0 218.0 493.0 550.0 368.0 534.0 539.0 17315.0 0 g 0 0 0 0 0 0 0 443.0 18349.0 419.0 1330.0 1545.0 793.0 834.0 0 t 0 0 0 0 0 0 0 20230.0 379.0 20280.0 19613.0 19122.0 543.0 2224.0 0

MA0850.1_rc_shift7 (FOXP3_rc)
; oligos_7nt_mkv5_m5 versus MA0850.1_rc (FOXP3_rc); m=29/47; ncol2=7; w=0; offset=3; strand=R; shift=7; score=0.460453; -------TGTTTAy- ; cor=; Ncor= a 0 0 0 0 0 0 0 0.0 39.0 0.0 8.0 31.0 211.0 0.0 0 c 0 0 0 0 0 0 0 18.0 32.0 49.0 9.0 0.0 0.0 137.0 0 g 0 0 0 0 0 0 0 0.0 211.0 15.0 0.0 0.0 52.0 0.0 0 t 0 0 0 0 0 0 0 211.0 0.0 211.0 211.0 211.0 20.0 74.0 0

MA0852.3_rc_shift7 (FOXK1_rc)
; oligos_7nt_mkv5_m5 versus MA0852.3_rc (FOXK1_rc); m=30/47; ncol2=7; w=0; offset=3; strand=R; shift=7; score=0.45853; -------TGTTTAC- ; cor=; Ncor= a 0 0 0 0 0 0 0 13.0 76.0 11.0 9.0 6.0 947.0 17.0 0 c 0 0 0 0 0 0 0 12.0 12.0 10.0 11.0 10.0 44.0 868.0 0 g 0 0 0 0 0 0 0 16.0 958.0 13.0 37.0 37.0 5.0 28.0 0 t 0 0 0 0 0 0 0 1015.0 10.0 1022.0 999.0 1003.0 60.0 143.0 0

MA0157.4_rc_shift7 (Foxo3_rc)
; oligos_7nt_mkv5_m5 versus MA0157.4_rc (Foxo3_rc); m=31/47; ncol2=7; w=0; offset=3; strand=R; shift=7; score=0.458077; -------TGTTTAC- ; cor=; Ncor= a 0 0 0 0 0 0 0 823.0 1911.0 414.0 488.0 376.0 20732.0 650.0 0 c 0 0 0 0 0 0 0 361.0 361.0 464.0 333.0 328.0 1199.0 19202.0 0 g 0 0 0 0 0 0 0 587.0 21237.0 483.0 803.0 968.0 435.0 590.0 0 t 0 0 0 0 0 0 0 22141.0 403.0 22551.0 22288.0 22240.0 1546.0 3470.0 0

MA0849.1_rc_shift7 (FOXO6_rc)
; oligos_7nt_mkv5_m5 versus MA0849.1_rc (FOXO6_rc); m=32/47; ncol2=7; w=0; offset=3; strand=R; shift=7; score=0.455433; -------TGTTTAC- ; cor=; Ncor= a 0 0 0 0 0 0 0 0.0 385.0 0.0 26.0 0.0 7025.0 0.0 0 c 0 0 0 0 0 0 0 13.0 31.0 0.0 0.0 7.0 32.0 7025.0 0 g 0 0 0 0 0 0 0 0.0 7025.0 0.0 195.0 1147.0 0.0 0.0 0 t 0 0 0 0 0 0 0 7025.0 0.0 7025.0 7025.0 7025.0 154.0 1445.0 0

MA0601.2_shift8 (Arid3b)
; oligos_7nt_mkv5_m5 versus MA0601.2 (Arid3b); m=33/47; ncol2=7; w=0; offset=4; strand=D; shift=8; score=0.448879; --------waTTAAT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 273.0 609.0 104.0 0.0 1000.0 911.0 89.0 c 0 0 0 0 0 0 0 0 80.0 119.0 0.0 0.0 0.0 0.0 0.0 g 0 0 0 0 0 0 0 0 80.0 34.0 0.0 0.0 0.0 0.0 0.0 t 0 0 0 0 0 0 0 0 566.0 238.0 895.0 1000.0 0.0 89.0 911.0

MA0480.3_rc_shift7 (Foxo1_rc)
; oligos_7nt_mkv5_m5 versus MA0480.3_rc (Foxo1_rc); m=34/47; ncol2=7; w=0; offset=3; strand=R; shift=7; score=0.44698; -------TGTTTAC- ; cor=; Ncor= a 0 0 0 0 0 0 0 354.0 757.0 249.0 220.0 296.0 11591.0 554.0 0 c 0 0 0 0 0 0 0 153.0 356.0 508.0 384.0 478.0 1025.0 11670.0 0 g 0 0 0 0 0 0 0 277.0 12710.0 387.0 849.0 934.0 555.0 481.0 0 t 0 0 0 0 0 0 0 13332.0 293.0 12972.0 12663.0 12408.0 945.0 1411.0 0

MA0878.3_rc_shift8 (CDX1_rc)
; oligos_7nt_mkv5_m5 versus MA0878.3_rc (CDX1_rc); m=35/47; ncol2=10; w=0; offset=4; strand=R; shift=8; score=0.445264; --------TTTTATk ; cor=; Ncor= a 0 0 0 0 0 0 0 0 854.0 0.0 29.0 230.0 8617.0 0.0 355.0 c 0 0 0 0 0 0 0 0 754.0 0.0 97.0 0.0 0.0 344.0 0.0 g 0 0 0 0 0 0 0 0 1418.0 0.0 72.0 56.0 0.0 0.0 3795.0 t 0 0 0 0 0 0 0 0 7199.0 8617.0 8617.0 8617.0 0.0 8617.0 4822.0

MA0757.2_rc_shift0 (ONECUT3_rc)
; oligos_7nt_mkv5_m5 versus MA0757.2_rc (ONECUT3_rc); m=36/47; ncol2=12; w=-4; offset=-4; strand=R; shift=0; score=0.441501; 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

MA1607.2_rc_shift7 (Foxl2_rc)
; oligos_7nt_mkv5_m5 versus MA1607.2_rc (Foxl2_rc); m=37/47; ncol2=10; w=0; offset=3; strand=R; shift=7; score=0.437714; -------TGTTTACA ; cor=; Ncor= a 0 0 0 0 0 0 0 1270.0 1970.0 328.0 366.0 204.0 16284.0 479.0 12849.0 c 0 0 0 0 0 0 0 401.0 151.0 411.0 187.0 112.0 419.0 14648.0 1371.0 g 0 0 0 0 0 0 0 807.0 15698.0 216.0 336.0 558.0 301.0 367.0 896.0 t 0 0 0 0 0 0 0 15623.0 282.0 17146.0 17212.0 17227.0 1097.0 2607.0 2985.0

MA0907.2_rc_shift8 (HOXC13_rc)
; oligos_7nt_mkv5_m5 versus MA0907.2_rc (HOXC13_rc); m=38/47; ncol2=9; w=0; offset=4; strand=R; shift=8; score=0.435264; --------TTTTACG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 205.0 1.0 8.0 165.0 1257.0 4.0 132.0 c 0 0 0 0 0 0 0 0 89.0 0.0 2.0 2.0 5.0 1257.0 10.0 g 0 0 0 0 0 0 0 0 173.0 0.0 4.0 1.0 0.0 4.0 1257.0 t 0 0 0 0 0 0 0 0 1257.0 1257.0 1257.0 1257.0 0.0 251.0 26.0

MA0905.2_rc_shift8 (HOXC10_rc)
; oligos_7nt_mkv5_m5 versus MA0905.2_rc (HOXC10_rc); m=39/47; ncol2=9; w=0; offset=4; strand=R; shift=8; score=0.429045; --------tTTwAyG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1069.0 187.0 102.0 1047.0 3211.0 24.0 152.0 c 0 0 0 0 0 0 0 0 532.0 86.0 5.0 4.0 0.0 3211.0 12.0 g 0 0 0 0 0 0 0 0 551.0 76.0 3.0 5.0 0.0 6.0 3211.0 t 0 0 0 0 0 0 0 0 3211.0 3211.0 3211.0 2165.0 27.0 2638.0 315.0

MA0908.2_rc_shift8 (HOXD11_rc)
; oligos_7nt_mkv5_m5 versus MA0908.2_rc (HOXD11_rc); m=40/47; ncol2=9; w=0; offset=4; strand=R; shift=8; score=0.427264; --------tTTTACG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 71.0 7.0 3.0 56.0 230.0 0.0 23.0 c 0 0 0 0 0 0 0 0 28.0 0.0 0.0 0.0 0.0 230.0 0.0 g 0 0 0 0 0 0 0 0 29.0 4.0 0.0 0.0 0.0 0.0 230.0 t 0 0 0 0 0 0 0 0 230.0 230.0 230.0 175.0 8.0 68.0 16.0

MA0485.3_rc_shift8 (HOXC9_rc)
; oligos_7nt_mkv5_m5 versus MA0485.3_rc (HOXC9_rc); m=41/47; ncol2=9; w=0; offset=4; strand=R; shift=8; score=0.422682; --------TTTTACG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 3541.0 0.0 0.0 2094.0 15541.0 0.0 0.0 c 0 0 0 0 0 0 0 0 1366.0 0.0 0.0 0.0 11.0 15541.0 0.0 g 0 0 0 0 0 0 0 0 2033.0 12.0 0.0 0.0 5.0 0.0 15541.0 t 0 0 0 0 0 0 0 0 15541.0 15541.0 15541.0 15541.0 5.0 4250.0 0.0

MA1503.2_rc_shift8 (HOXB9_rc)
; oligos_7nt_mkv5_m5 versus MA1503.2_rc (HOXB9_rc); m=42/47; ncol2=9; w=0; offset=4; strand=R; shift=8; score=0.417149; --------tTTTAYG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 486.0 17.0 0.0 462.0 1842.0 0.0 0.0 c 0 0 0 0 0 0 0 0 201.0 0.0 0.0 3.0 1.0 1842.0 0.0 g 0 0 0 0 0 0 0 0 295.0 42.0 0.0 12.0 0.0 6.0 1842.0 t 0 0 0 0 0 0 0 0 1842.0 1842.0 1842.0 1842.0 0.0 644.0 0.0

MA0909.4_rc_shift9 (Hoxd13_rc)
; oligos_7nt_mkv5_m5 versus MA0909.4_rc (Hoxd13_rc); m=43/47; ncol2=7; w=0; offset=5; strand=R; shift=9; score=0.416258; ---------TTTATT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 667.0 15.0 11.0 5972.0 30.0 49.0 c 0 0 0 0 0 0 0 0 0 379.0 2.0 7.0 3.0 11.0 148.0 g 0 0 0 0 0 0 0 0 0 704.0 37.0 4.0 2.0 13.0 5.0 t 0 0 0 0 0 0 0 0 0 4227.0 5923.0 5955.0 0.0 5923.0 5775.0

MA0151.1_rc_shift9 (Arid3a_rc)
; oligos_7nt_mkv5_m5 versus MA0151.1_rc (Arid3a_rc); m=44/47; ncol2=6; w=0; offset=5; strand=R; shift=9; score=0.414039; ---------TTTrAT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 6.0 0.0 0.0 17.0 27.0 0.0 c 0 0 0 0 0 0 0 0 0 1.0 0.0 0.0 0.0 0.0 0.0 g 0 0 0 0 0 0 0 0 0 0.0 0.0 0.0 9.0 0.0 0.0 t 0 0 0 0 0 0 0 0 0 20.0 27.0 27.0 1.0 0.0 27.0

MA0650.4_rc_shift9 (Hoxa13_rc)
; oligos_7nt_mkv5_m5 versus MA0650.4_rc (Hoxa13_rc); m=45/47; ncol2=8; w=0; offset=5; strand=R; shift=9; score=0.412648; ---------TTTATT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 247.0 212.0 832.0 16662.0 929.0 1439.0 c 0 0 0 0 0 0 0 0 0 145.0 98.0 407.0 232.0 666.0 146.0 g 0 0 0 0 0 0 0 0 0 306.0 125.0 205.0 249.0 243.0 1594.0 t 0 0 0 0 0 0 0 0 0 16550.0 16813.0 15804.0 105.0 15410.0 14069.0

MA0911.2_rc_shift8 (Hoxa11_rc)
; oligos_7nt_mkv5_m5 versus MA0911.2_rc (Hoxa11_rc); m=46/47; ncol2=9; w=0; offset=4; strand=R; shift=8; score=0.411072; --------tTTwAYG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 197.0 40.0 31.0 215.0 704.0 7.0 36.0 c 0 0 0 0 0 0 0 0 117.0 3.0 2.0 13.0 3.0 704.0 0.0 g 0 0 0 0 0 0 0 0 159.0 27.0 0.0 3.0 1.0 2.0 704.0 t 0 0 0 0 0 0 0 0 704.0 704.0 704.0 489.0 14.0 250.0 30.0

MA0465.3_rc_shift9 (CDX2_rc)
; oligos_7nt_mkv5_m5 versus MA0465.3_rc (CDX2_rc); m=47/47; ncol2=8; w=0; offset=5; strand=R; shift=9; score=0.405514; ---------TTTATT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 804.0 666.0 1045.0 30975.0 459.0 1810.0 c 0 0 0 0 0 0 0 0 0 502.0 366.0 999.0 386.0 1196.0 184.0 g 0 0 0 0 0 0 0 0 0 595.0 349.0 761.0 391.0 414.0 3312.0 t 0 0 0 0 0 0 0 0 0 30125.0 30645.0 29221.0 274.0 29957.0 26720.0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m3_shift4 ; 12 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m3_shift4 (oligos_7nt_mkv5_m3)
; oligos_7nt_mkv5_m3; m=0 (reference); ncol1=11; shift=4; ncol=15; ----twCAAGGACat ; Alignment reference a 0 0 0 0 508 626 66 1830 1898 55 48 1820 41 926 481 c 0 0 0 0 445 436 1804 83 61 27 46 52 1920 321 494 g 0 0 0 0 477 375 54 74 54 1914 1903 41 28 353 502 t 0 0 0 0 668 661 174 111 85 102 101 185 109 498 621

MA0141.4_shift5 (ESRRB)
; oligos_7nt_mkv5_m3 versus MA0141.4 (ESRRB); m=1/11; ncol2=10; w=0; offset=1; strand=D; shift=5; score=0.708446; -----TCAAGGTCAw ; cor=; Ncor= a 0 0 0 0 0 108.0 9.0 1746.0 1746.0 3.0 1.0 6.0 2.0 1746.0 702.0 c 0 0 0 0 0 373.0 1746.0 1.0 1.0 2.0 4.0 11.0 1746.0 0.0 256.0 g 0 0 0 0 0 75.0 255.0 0.0 3.0 1746.0 1746.0 8.0 1.0 56.0 42.0 t 0 0 0 0 0 1746.0 7.0 4.0 0.0 1.0 3.0 1746.0 15.0 3.0 1045.0

MA0505.3_rc_shift5 (Nr5A2_rc)
; oligos_7nt_mkv5_m3 versus MA0505.3_rc (Nr5A2_rc); m=2/11; ncol2=9; w=0; offset=1; strand=R; shift=5; score=0.684546; -----TCAAGGtCA- ; cor=; Ncor= a 0 0 0 0 0 1125.0 322.0 29653.0 29125.0 343.0 237.0 2733.0 483.0 21101.0 0 c 0 0 0 0 0 2402.0 29010.0 285.0 359.0 166.0 124.0 6736.0 27158.0 2303.0 0 g 0 0 0 0 0 645.0 870.0 338.0 694.0 29734.0 29854.0 1185.0 869.0 3118.0 0 t 0 0 0 0 0 26370.0 340.0 266.0 364.0 299.0 327.0 19888.0 2032.0 4020.0 0

MA0592.4_shift5 (ESRRA)
; oligos_7nt_mkv5_m3 versus MA0592.4 (ESRRA); m=3/11; ncol2=9; w=0; offset=1; strand=D; shift=5; score=0.655011; -----tCAAGGTCA- ; cor=; Ncor= a 0 0 0 0 0 2305.0 972.0 24681.0 24744.0 480.0 223.0 1003.0 293.0 24648.0 0 c 0 0 0 0 0 6446.0 21854.0 355.0 415.0 340.0 146.0 379.0 23989.0 226.0 0 g 0 0 0 0 0 1850.0 2323.0 556.0 569.0 24676.0 25332.0 949.0 786.0 781.0 0 t 0 0 0 0 0 15394.0 846.0 403.0 267.0 499.0 294.0 23664.0 927.0 340.0 0

MA0643.2_shift5 (Esrrg)
; oligos_7nt_mkv5_m3 versus MA0643.2 (Esrrg); m=4/11; ncol2=9; w=0; offset=1; strand=D; shift=5; score=0.642545; -----tsAAGGTCA- ; cor=; Ncor= a 0 0 0 0 0 3489.0 705.0 14909.0 14909.0 12.0 0.0 472.0 7.0 14909.0 0 c 0 0 0 0 0 5974.0 10009.0 0.0 12.0 7.0 17.0 41.0 14909.0 34.0 0 g 0 0 0 0 0 2800.0 4901.0 603.0 34.0 14909.0 14909.0 844.0 271.0 1561.0 0 t 0 0 0 0 0 14909.0 490.0 195.0 5.0 298.0 14.0 14909.0 1280.0 60.0 0

MA1540.3_shift2 (NR5A1)
; oligos_7nt_mkv5_m3 versus MA1540.3 (NR5A1); m=5/11; ncol2=12; w=-2; offset=-2; strand=D; shift=2; score=0.624489; --agtTCAAGGtCA- ; cor=; Ncor= a 0 0 2945.0 708.0 376.0 160.0 72.0 4287.0 4340.0 106.0 87.0 389.0 67.0 4201.0 0 c 0 0 398.0 558.0 747.0 564.0 4316.0 193.0 86.0 45.0 53.0 964.0 4271.0 144.0 0 g 0 0 633.0 2825.0 729.0 130.0 189.0 125.0 160.0 4461.0 4440.0 171.0 112.0 154.0 0 t 0 0 721.0 606.0 2845.0 3843.0 120.0 92.0 111.0 85.0 117.0 3173.0 247.0 198.0 0

MA2338.1_shift7 (Ppara)
; oligos_7nt_mkv5_m3 versus MA2338.1 (Ppara); m=6/11; ncol2=7; w=0; offset=3; strand=D; shift=7; score= 0.4998; -------AAGGTCA- ; cor=; Ncor= a 0 0 0 0 0 0 0 16299.0 17009.0 258.0 354.0 259.0 440.0 13045.0 0 c 0 0 0 0 0 0 0 258.0 641.0 446.0 68.0 83.0 16858.0 2036.0 0 g 0 0 0 0 0 0 0 788.0 328.0 17024.0 17412.0 75.0 178.0 1148.0 0 t 0 0 0 0 0 0 0 833.0 200.0 450.0 344.0 17761.0 702.0 1949.0 0

MA1541.2_shift0 (NR6A1)
; oligos_7nt_mkv5_m3 versus MA1541.2 (NR6A1); m=7/11; ncol2=14; w=-4; offset=-4; strand=D; shift=0; score=0.492022; cAAGkTCAAGktCR- ; cor=; Ncor= a 124.0 896.0 896.0 13.0 19.0 1.0 7.0 896.0 896.0 21.0 29.0 91.0 39.0 896.0 0 c 896.0 4.0 91.0 9.0 12.0 74.0 896.0 0.0 96.0 15.0 11.0 185.0 896.0 20.0 0 g 342.0 44.0 72.0 896.0 443.0 26.0 29.0 2.0 35.0 896.0 524.0 355.0 109.0 359.0 0 t 132.0 11.0 51.0 62.0 453.0 896.0 40.0 14.0 65.0 62.0 373.0 896.0 254.0 41.0 0

MA1111.2_shift7 (NR2F2)
; oligos_7nt_mkv5_m3 versus MA1111.2 (NR2F2); m=8/11; ncol2=7; w=0; offset=3; strand=D; shift=7; score=0.484237; -------AAGGTCA- ; cor=; Ncor= a 0 0 0 0 0 0 0 1788.0 2084.0 37.0 33.0 17.0 30.0 2111.0 0 c 0 0 0 0 0 0 0 37.0 15.0 16.0 12.0 22.0 1978.0 16.0 0 g 0 0 0 0 0 0 0 173.0 82.0 2108.0 2132.0 30.0 26.0 43.0 0 t 0 0 0 0 0 0 0 206.0 23.0 43.0 27.0 2135.0 170.0 34.0 0

MA2336.1_shift7 (ZSCAN21)
; oligos_7nt_mkv5_m3 versus MA2336.1 (ZSCAN21); m=9/11; ncol2=7; w=0; offset=3; strand=D; shift=7; score=0.452596; -------AAGCACT- ; cor=; Ncor= a 0 0 0 0 0 0 0 703.0 896.0 28.0 17.0 893.0 25.0 37.0 0 c 0 0 0 0 0 0 0 124.0 16.0 25.0 744.0 21.0 881.0 9.0 0 g 0 0 0 0 0 0 0 55.0 25.0 853.0 32.0 22.0 30.0 16.0 0 t 0 0 0 0 0 0 0 65.0 10.0 41.0 154.0 11.0 11.0 885.0 0

MA2337.1_shift8 (Nr1h3)
; oligos_7nt_mkv5_m3 versus MA2337.1 (Nr1h3); m=10/11; ncol2=6; w=0; offset=4; strand=D; shift=8; score=0.422674; --------AGGkCA- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 3796.0 0.0 2.0 10.0 5.0 3836.0 0 c 0 0 0 0 0 0 0 0 31.0 27.0 17.0 5.0 3851.0 6.0 0 g 0 0 0 0 0 0 0 0 35.0 3832.0 3839.0 1600.0 1.0 19.0 0 t 0 0 0 0 0 0 0 0 0.0 3.0 4.0 2247.0 5.0 1.0 0

MA1581.2_rc_shift2 (ZBTB6_rc)
; oligos_7nt_mkv5_m3 versus MA1581.2_rc (ZBTB6_rc); m=11/11; ncol2=9; w=-2; offset=-2; strand=R; shift=2; score=0.407037; --GGCTCAAGs---- ; cor=; Ncor= a 0 0 223.0 46.0 14.0 21.0 7.0 1566.0 2042.0 28.0 165.0 0 0 0 0 c 0 0 88.0 38.0 2135.0 20.0 2148.0 409.0 52.0 25.0 593.0 0 0 0 0 g 0 0 1814.0 2087.0 20.0 28.0 59.0 45.0 104.0 2080.0 1157.0 0 0 0 0 t 0 0 102.0 56.0 58.0 2158.0 13.0 207.0 29.0 94.0 312.0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m5_shift0 ; 8 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m5_shift0 (oligos_6nt_mkv4_m5)
; oligos_6nt_mkv4_m5; m=0 (reference); ncol1=17; shift=0; ncol=17; sTGAGTTCmAGGmCAGC ; Alignment reference a 398 315 375 2863 185 93 41 22 1837 3013 56 53 930 47 2900 328 267 c 1195 290 96 72 94 104 70 2990 873 18 16 13 1363 2847 55 180 2282 g 1245 293 2550 88 2763 99 28 32 277 56 2996 2999 69 49 53 2293 206 t 268 2208 85 83 64 2810 2967 62 119 19 38 41 744 163 98 305 351

MA1540.3_shift3 (NR5A1)
; oligos_6nt_mkv4_m5 versus MA1540.3 (NR5A1); m=1/7; ncol2=12; w=0; offset=3; strand=D; shift=3; score=0.659398; ---agtTCAAGGtCA-- ; cor=; Ncor= a 0 0 0 2945.0 708.0 376.0 160.0 72.0 4287.0 4340.0 106.0 87.0 389.0 67.0 4201.0 0 0 c 0 0 0 398.0 558.0 747.0 564.0 4316.0 193.0 86.0 45.0 53.0 964.0 4271.0 144.0 0 0 g 0 0 0 633.0 2825.0 729.0 130.0 189.0 125.0 160.0 4461.0 4440.0 171.0 112.0 154.0 0 0 t 0 0 0 721.0 606.0 2845.0 3843.0 120.0 92.0 111.0 85.0 117.0 3173.0 247.0 198.0 0 0

MA1541.2_shift1 (NR6A1)
; oligos_6nt_mkv4_m5 versus MA1541.2 (NR6A1); m=2/7; ncol2=14; w=0; offset=1; strand=D; shift=1; score=0.611578; -cAAGkTCAAGktCR-- ; cor=; Ncor= a 0 124.0 896.0 896.0 13.0 19.0 1.0 7.0 896.0 896.0 21.0 29.0 91.0 39.0 896.0 0 0 c 0 896.0 4.0 91.0 9.0 12.0 74.0 896.0 0.0 96.0 15.0 11.0 185.0 896.0 20.0 0 0 g 0 342.0 44.0 72.0 896.0 443.0 26.0 29.0 2.0 35.0 896.0 524.0 355.0 109.0 359.0 0 0 t 0 132.0 11.0 51.0 62.0 453.0 896.0 40.0 14.0 65.0 62.0 373.0 896.0 254.0 41.0 0 0

MA0505.3_rc_shift6 (Nr5A2_rc)
; oligos_6nt_mkv4_m5 versus MA0505.3_rc (Nr5A2_rc); m=3/7; ncol2=9; w=0; offset=6; strand=R; shift=6; score=0.498201; ------TCAAGGtCA-- ; cor=; Ncor= a 0 0 0 0 0 0 1125.0 322.0 29653.0 29125.0 343.0 237.0 2733.0 483.0 21101.0 0 0 c 0 0 0 0 0 0 2402.0 29010.0 285.0 359.0 166.0 124.0 6736.0 27158.0 2303.0 0 0 g 0 0 0 0 0 0 645.0 870.0 338.0 694.0 29734.0 29854.0 1185.0 869.0 3118.0 0 0 t 0 0 0 0 0 0 26370.0 340.0 266.0 364.0 299.0 327.0 19888.0 2032.0 4020.0 0 0

MA0141.4_shift6 (ESRRB)
; oligos_6nt_mkv4_m5 versus MA0141.4 (ESRRB); m=4/7; ncol2=10; w=0; offset=6; strand=D; shift=6; score=0.489791; ------TCAAGGTCAw- ; cor=; Ncor= a 0 0 0 0 0 0 108.0 9.0 1746.0 1746.0 3.0 1.0 6.0 2.0 1746.0 702.0 0 c 0 0 0 0 0 0 373.0 1746.0 1.0 1.0 2.0 4.0 11.0 1746.0 0.0 256.0 0 g 0 0 0 0 0 0 75.0 255.0 0.0 3.0 1746.0 1746.0 8.0 1.0 56.0 42.0 0 t 0 0 0 0 0 0 1746.0 7.0 4.0 0.0 1.0 3.0 1746.0 15.0 3.0 1045.0 0

MA0592.4_shift6 (ESRRA)
; oligos_6nt_mkv4_m5 versus MA0592.4 (ESRRA); m=5/7; ncol2=9; w=0; offset=6; strand=D; shift=6; score=0.470455; ------tCAAGGTCA-- ; cor=; Ncor= a 0 0 0 0 0 0 2305.0 972.0 24681.0 24744.0 480.0 223.0 1003.0 293.0 24648.0 0 0 c 0 0 0 0 0 0 6446.0 21854.0 355.0 415.0 340.0 146.0 379.0 23989.0 226.0 0 0 g 0 0 0 0 0 0 1850.0 2323.0 556.0 569.0 24676.0 25332.0 949.0 786.0 781.0 0 0 t 0 0 0 0 0 0 15394.0 846.0 403.0 267.0 499.0 294.0 23664.0 927.0 340.0 0 0

MA0071.1_shift5 (RORA)
; oligos_6nt_mkv4_m5 versus MA0071.1 (RORA); m=6/7; ncol2=10; w=0; offset=5; strand=D; shift=5; score=0.455443; -----wwcwAGGTCA-- ; cor=; Ncor= a 0 0 0 0 0 15.0 9.0 6.0 11.0 21.0 0.0 0.0 0.0 0.0 25.0 0 0 c 0 0 0 0 0 1.0 1.0 12.0 2.0 0.0 0.0 0.0 0.0 25.0 0.0 0 0 g 0 0 0 0 0 2.0 0.0 4.0 5.0 4.0 25.0 25.0 0.0 0.0 0.0 0 0 t 0 0 0 0 0 7.0 15.0 3.0 7.0 0.0 0.0 0.0 25.0 0.0 0.0 0 0

MA0643.2_shift6 (Esrrg)
; oligos_6nt_mkv4_m5 versus MA0643.2 (Esrrg); m=7/7; ncol2=9; w=0; offset=6; strand=D; shift=6; score=0.455387; ------tsAAGGTCA-- ; cor=; Ncor= a 0 0 0 0 0 0 3489.0 705.0 14909.0 14909.0 12.0 0.0 472.0 7.0 14909.0 0 0 c 0 0 0 0 0 0 5974.0 10009.0 0.0 12.0 7.0 17.0 41.0 14909.0 34.0 0 0 g 0 0 0 0 0 0 2800.0 4901.0 603.0 34.0 14909.0 14909.0 844.0 271.0 1561.0 0 0 t 0 0 0 0 0 0 14909.0 490.0 195.0 5.0 298.0 14.0 14909.0 1280.0 60.0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m1_shift0 ; 9 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m1_shift0 (oligos_6nt_mkv4_m1)
; oligos_6nt_mkv4_m1; m=0 (reference); ncol1=18; shift=0; ncol=18; sTGAGTTCmAGGmCAGCC ; Alignment reference a 442 339 396 3070 239 92 61 48 1953 3268 91 67 932 54 3240 317 294 248 c 1338 312 139 85 116 175 111 3093 924 28 20 40 2069 3155 45 243 2455 2554 g 1308 364 2735 112 2960 145 67 86 418 55 3262 3246 67 26 56 2549 252 234 t 317 2390 135 138 90 2993 3166 178 110 54 32 52 337 170 64 296 404 369

MA1540.3_shift3 (NR5A1)
; oligos_6nt_mkv4_m1 versus MA1540.3 (NR5A1); m=1/8; ncol2=12; w=0; offset=3; strand=D; shift=3; score=0.610665; ---agtTCAAGGtCA--- ; cor=; Ncor= a 0 0 0 2945.0 708.0 376.0 160.0 72.0 4287.0 4340.0 106.0 87.0 389.0 67.0 4201.0 0 0 0 c 0 0 0 398.0 558.0 747.0 564.0 4316.0 193.0 86.0 45.0 53.0 964.0 4271.0 144.0 0 0 0 g 0 0 0 633.0 2825.0 729.0 130.0 189.0 125.0 160.0 4461.0 4440.0 171.0 112.0 154.0 0 0 0 t 0 0 0 721.0 606.0 2845.0 3843.0 120.0 92.0 111.0 85.0 117.0 3173.0 247.0 198.0 0 0 0

MA1541.2_shift1 (NR6A1)
; oligos_6nt_mkv4_m1 versus MA1541.2 (NR6A1); m=2/8; ncol2=14; w=0; offset=1; strand=D; shift=1; score=0.562082; -cAAGkTCAAGktCR--- ; cor=; Ncor= a 0 124.0 896.0 896.0 13.0 19.0 1.0 7.0 896.0 896.0 21.0 29.0 91.0 39.0 896.0 0 0 0 c 0 896.0 4.0 91.0 9.0 12.0 74.0 896.0 0.0 96.0 15.0 11.0 185.0 896.0 20.0 0 0 0 g 0 342.0 44.0 72.0 896.0 443.0 26.0 29.0 2.0 35.0 896.0 524.0 355.0 109.0 359.0 0 0 0 t 0 132.0 11.0 51.0 62.0 453.0 896.0 40.0 14.0 65.0 62.0 373.0 896.0 254.0 41.0 0 0 0

MA0505.3_rc_shift6 (Nr5A2_rc)
; oligos_6nt_mkv4_m1 versus MA0505.3_rc (Nr5A2_rc); m=3/8; ncol2=9; w=0; offset=6; strand=R; shift=6; score=0.457413; ------TCAAGGtCA--- ; cor=; Ncor= a 0 0 0 0 0 0 1125.0 322.0 29653.0 29125.0 343.0 237.0 2733.0 483.0 21101.0 0 0 0 c 0 0 0 0 0 0 2402.0 29010.0 285.0 359.0 166.0 124.0 6736.0 27158.0 2303.0 0 0 0 g 0 0 0 0 0 0 645.0 870.0 338.0 694.0 29734.0 29854.0 1185.0 869.0 3118.0 0 0 0 t 0 0 0 0 0 0 26370.0 340.0 266.0 364.0 299.0 327.0 19888.0 2032.0 4020.0 0 0 0

MA0141.4_shift6 (ESRRB)
; oligos_6nt_mkv4_m1 versus MA0141.4 (ESRRB); m=4/8; ncol2=10; w=0; offset=6; strand=D; shift=6; score=0.442014; ------TCAAGGTCAw-- ; cor=; Ncor= a 0 0 0 0 0 0 108.0 9.0 1746.0 1746.0 3.0 1.0 6.0 2.0 1746.0 702.0 0 0 c 0 0 0 0 0 0 373.0 1746.0 1.0 1.0 2.0 4.0 11.0 1746.0 0.0 256.0 0 0 g 0 0 0 0 0 0 75.0 255.0 0.0 3.0 1746.0 1746.0 8.0 1.0 56.0 42.0 0 0 t 0 0 0 0 0 0 1746.0 7.0 4.0 0.0 1.0 3.0 1746.0 15.0 3.0 1045.0 0 0

MA1973.2_shift6 (ZKSCAN3)
; oligos_6nt_mkv4_m1 versus MA1973.2 (ZKSCAN3); m=5/8; ncol2=14; w=0; offset=6; strand=D; shift=6; score=0.431612; ------CCcAGGCTAGCC ; cor=; Ncor= a 0 0 0 0 0 0 23.0 17.0 36.0 188.0 6.0 0.0 5.0 2.0 197.0 3.0 36.0 0.0 c 0 0 0 0 0 0 149.0 152.0 115.0 2.0 1.0 5.0 183.0 6.0 3.0 6.0 168.0 193.0 g 0 0 0 0 0 0 17.0 15.0 38.0 19.0 201.0 203.0 4.0 2.0 8.0 188.0 4.0 1.0 t 0 0 0 0 0 0 21.0 26.0 21.0 1.0 2.0 2.0 18.0 200.0 2.0 13.0 2.0 16.0

MA0592.4_shift6 (ESRRA)
; oligos_6nt_mkv4_m1 versus MA0592.4 (ESRRA); m=6/8; ncol2=9; w=0; offset=6; strand=D; shift=6; score=0.426833; ------tCAAGGTCA--- ; cor=; Ncor= a 0 0 0 0 0 0 2305.0 972.0 24681.0 24744.0 480.0 223.0 1003.0 293.0 24648.0 0 0 0 c 0 0 0 0 0 0 6446.0 21854.0 355.0 415.0 340.0 146.0 379.0 23989.0 226.0 0 0 0 g 0 0 0 0 0 0 1850.0 2323.0 556.0 569.0 24676.0 25332.0 949.0 786.0 781.0 0 0 0 t 0 0 0 0 0 0 15394.0 846.0 403.0 267.0 499.0 294.0 23664.0 927.0 340.0 0 0 0

MA0071.1_shift5 (RORA)
; oligos_6nt_mkv4_m1 versus MA0071.1 (RORA); m=7/8; ncol2=10; w=0; offset=5; strand=D; shift=5; score=0.414107; -----wwcwAGGTCA--- ; cor=; Ncor= a 0 0 0 0 0 15.0 9.0 6.0 11.0 21.0 0.0 0.0 0.0 0.0 25.0 0 0 0 c 0 0 0 0 0 1.0 1.0 12.0 2.0 0.0 0.0 0.0 0.0 25.0 0.0 0 0 0 g 0 0 0 0 0 2.0 0.0 4.0 5.0 4.0 25.0 25.0 0.0 0.0 0.0 0 0 0 t 0 0 0 0 0 7.0 15.0 3.0 7.0 0.0 0.0 0.0 25.0 0.0 0.0 0 0 0

MA0643.2_shift6 (Esrrg)
; oligos_6nt_mkv4_m1 versus MA0643.2 (Esrrg); m=8/8; ncol2=9; w=0; offset=6; strand=D; shift=6; score=0.41339; ------tsAAGGTCA--- ; cor=; Ncor= a 0 0 0 0 0 0 3489.0 705.0 14909.0 14909.0 12.0 0.0 472.0 7.0 14909.0 0 0 0 c 0 0 0 0 0 0 5974.0 10009.0 0.0 12.0 7.0 17.0 41.0 14909.0 34.0 0 0 0 g 0 0 0 0 0 0 2800.0 4901.0 603.0 34.0 14909.0 14909.0 844.0 271.0 1561.0 0 0 0 t 0 0 0 0 0 0 14909.0 490.0 195.0 5.0 298.0 14.0 14909.0 1280.0 60.0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m2_shift0 ; 8 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m2_shift0 (oligos_7nt_mkv5_m2)
; oligos_7nt_mkv5_m2; m=0 (reference); ncol1=18; shift=0; ncol=18; GCTGkCCTkGAACTCAsw ; Alignment reference a 323 275 75 152 322 47 29 19 84 102 2865 2782 47 99 105 2224 240 1448 c 181 2247 54 20 62 2833 2859 44 346 39 19 74 2739 67 2365 258 1115 185 g 2258 158 61 2769 1765 31 14 23 781 2804 56 73 41 46 126 254 1256 328 t 207 289 2779 28 820 58 67 2883 1758 24 29 40 142 2757 373 233 358 1008

MA1540.3_rc_shift2 (NR5A1_rc)
; oligos_7nt_mkv5_m2 versus MA1540.3_rc (NR5A1_rc); m=1/7; ncol2=12; w=0; offset=2; strand=R; shift=2; score=0.609664; --TGaCCTTGAact---- ; cor=; Ncor= a 0 0 198.0 247.0 3173.0 117.0 85.0 111.0 92.0 120.0 3843.0 2845.0 606.0 721.0 0 0 0 0 c 0 0 154.0 112.0 171.0 4440.0 4461.0 160.0 125.0 189.0 130.0 729.0 2825.0 633.0 0 0 0 0 g 0 0 144.0 4271.0 964.0 53.0 45.0 86.0 193.0 4316.0 564.0 747.0 558.0 398.0 0 0 0 0 t 0 0 4201.0 67.0 389.0 87.0 106.0 4340.0 4287.0 72.0 160.0 376.0 708.0 2945.0 0 0 0 0

MA1541.2_rc_shift2 (NR6A1_rc)
; oligos_7nt_mkv5_m2 versus MA1541.2_rc (NR6A1_rc); m=2/7; ncol2=14; w=0; offset=2; strand=R; shift=2; score=0.56678; --YGamCTTGAmCTTg-- ; cor=; Ncor= a 0 0 41.0 254.0 896.0 373.0 62.0 65.0 14.0 40.0 896.0 453.0 62.0 51.0 11.0 132.0 0 0 c 0 0 359.0 109.0 355.0 524.0 896.0 35.0 2.0 29.0 26.0 443.0 896.0 72.0 44.0 342.0 0 0 g 0 0 20.0 896.0 185.0 11.0 15.0 96.0 0.0 896.0 74.0 12.0 9.0 91.0 4.0 896.0 0 0 t 0 0 896.0 39.0 91.0 29.0 21.0 896.0 896.0 7.0 1.0 19.0 13.0 896.0 896.0 124.0 0 0

MA0505.3_shift2 (Nr5A2)
; oligos_7nt_mkv5_m2 versus MA0505.3 (Nr5A2); m=3/7; ncol2=9; w=0; offset=2; strand=D; shift=2; score=0.460247; --TGaCCTTGA------- ; cor=; Ncor= a 0 0 4020.0 2032.0 19888.0 327.0 299.0 364.0 266.0 340.0 26370.0 0 0 0 0 0 0 0 c 0 0 3118.0 869.0 1185.0 29854.0 29734.0 694.0 338.0 870.0 645.0 0 0 0 0 0 0 0 g 0 0 2303.0 27158.0 6736.0 124.0 166.0 359.0 285.0 29010.0 2402.0 0 0 0 0 0 0 0 t 0 0 21101.0 483.0 2733.0 237.0 343.0 29125.0 29653.0 322.0 1125.0 0 0 0 0 0 0 0

MA0141.4_rc_shift1 (ESRRB_rc)
; oligos_7nt_mkv5_m2 versus MA0141.4_rc (ESRRB_rc); m=4/7; ncol2=10; w=0; offset=1; strand=R; shift=1; score=0.44421; -wTGACCTTGA------- ; cor=; Ncor= a 0 1045.0 3.0 15.0 1746.0 3.0 1.0 0.0 4.0 7.0 1746.0 0 0 0 0 0 0 0 c 0 42.0 56.0 1.0 8.0 1746.0 1746.0 3.0 0.0 255.0 75.0 0 0 0 0 0 0 0 g 0 256.0 0.0 1746.0 11.0 4.0 2.0 1.0 1.0 1746.0 373.0 0 0 0 0 0 0 0 t 0 702.0 1746.0 2.0 6.0 1.0 3.0 1746.0 1746.0 9.0 108.0 0 0 0 0 0 0 0

MA0592.4_rc_shift2 (ESRRA_rc)
; oligos_7nt_mkv5_m2 versus MA0592.4_rc (ESRRA_rc); m=5/7; ncol2=9; w=0; offset=2; strand=R; shift=2; score=0.428069; --TGACCTTGa------- ; cor=; Ncor= a 0 0 340.0 927.0 23664.0 294.0 499.0 267.0 403.0 846.0 15394.0 0 0 0 0 0 0 0 c 0 0 781.0 786.0 949.0 25332.0 24676.0 569.0 556.0 2323.0 1850.0 0 0 0 0 0 0 0 g 0 0 226.0 23989.0 379.0 146.0 340.0 415.0 355.0 21854.0 6446.0 0 0 0 0 0 0 0 t 0 0 24648.0 293.0 1003.0 223.0 480.0 24744.0 24681.0 972.0 2305.0 0 0 0 0 0 0 0

MA0643.2_rc_shift2 (Esrrg_rc)
; oligos_7nt_mkv5_m2 versus MA0643.2_rc (Esrrg_rc); m=6/7; ncol2=9; w=0; offset=2; strand=R; shift=2; score=0.413915; --TGACCTTsa------- ; cor=; Ncor= a 0 0 60.0 1280.0 14909.0 14.0 298.0 5.0 195.0 490.0 14909.0 0 0 0 0 0 0 0 c 0 0 1561.0 271.0 844.0 14909.0 14909.0 34.0 603.0 4901.0 2800.0 0 0 0 0 0 0 0 g 0 0 34.0 14909.0 41.0 17.0 7.0 12.0 0.0 10009.0 5974.0 0 0 0 0 0 0 0 t 0 0 14909.0 7.0 472.0 0.0 12.0 14909.0 14909.0 705.0 3489.0 0 0 0 0 0 0 0

MA0071.1_rc_shift2 (RORA_rc)
; oligos_7nt_mkv5_m2 versus MA0071.1_rc (RORA_rc); m=7/7; ncol2=10; w=0; offset=2; strand=R; shift=2; score=0.410701; --TGACCTwgww------ ; cor=; Ncor= a 0 0 0.0 0.0 25.0 0.0 0.0 0.0 7.0 3.0 15.0 7.0 0 0 0 0 0 0 c 0 0 0.0 0.0 0.0 25.0 25.0 4.0 5.0 4.0 0.0 2.0 0 0 0 0 0 0 g 0 0 0.0 25.0 0.0 0.0 0.0 0.0 2.0 12.0 1.0 1.0 0 0 0 0 0 0 t 0 0 25.0 0.0 0.0 0.0 0.0 21.0 11.0 6.0 9.0 15.0 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m4_shift6 ; 15 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m4_shift6 (oligos_7nt_mkv5_m4)
; oligos_7nt_mkv5_m4; m=0 (reference); ncol1=11; shift=6; ncol=17; ------bsCGGCTGCsk ; Alignment reference a 0 0 0 0 0 0 376 343 61 81 70 42 157 63 83 414 398 c 0 0 0 0 0 0 1071 1112 2778 244 514 2843 324 194 2692 1150 751 g 0 0 0 0 0 0 770 1139 118 2607 2340 92 347 2635 117 904 1082 t 0 0 0 0 0 0 791 414 51 76 84 31 2180 116 116 540 777

MA0048.3_shift6 (NHLH1)
; oligos_7nt_mkv5_m4 versus MA0048.3 (NHLH1); m=1/14; ncol2=9; w=0; offset=0; strand=D; shift=6; score=0.60439; ------cGCAGCTGC-- ; cor=; Ncor= a 0 0 0 0 0 0 788.0 461.0 3.0 2166.0 0.0 96.0 0.0 2.0 296.0 0 0 c 0 0 0 0 0 0 2166.0 179.0 2166.0 3.0 301.0 2166.0 4.0 4.0 2166.0 0 0 g 0 0 0 0 0 0 181.0 2166.0 0.0 1.0 2166.0 124.0 4.0 2166.0 102.0 0 0 t 0 0 0 0 0 0 111.0 142.0 0.0 0.0 114.0 0.0 2166.0 1.0 350.0 0 0

MA1721.2_shift3 (ZNF93)
; oligos_7nt_mkv5_m4 versus MA1721.2 (ZNF93); m=2/14; ncol2=14; w=-3; offset=-3; strand=D; shift=3; score=0.568427; ---gGyrkCrGCAGCGG ; cor=; Ncor= a 0 0 0 467.0 175.0 117.0 1455.0 61.0 38.0 1001.0 18.0 23.0 1659.0 30.0 19.0 340.0 72.0 c 0 0 0 279.0 233.0 1120.0 177.0 114.0 2278.0 92.0 26.0 2279.0 96.0 20.0 2292.0 138.0 134.0 g 0 0 0 1499.0 1857.0 211.0 663.0 1483.0 22.0 1263.0 2334.0 42.0 576.0 2328.0 33.0 1784.0 2145.0 t 0 0 0 143.0 123.0 940.0 93.0 730.0 50.0 32.0 10.0 44.0 57.0 10.0 44.0 126.0 37.0

MA0500.3_shift7 (MYOG)
; oligos_7nt_mkv5_m4 versus MA0500.3 (MYOG); m=3/14; ncol2=8; w=0; offset=1; strand=D; shift=7; score=0.532783; -------rCAGCTGy-- ; cor=; Ncor= a 0 0 0 0 0 0 0 7159.0 86.0 21782.0 95.0 167.0 163.0 182.0 1667.0 0 0 c 0 0 0 0 0 0 0 2730.0 21988.0 176.0 130.0 21964.0 238.0 102.0 10792.0 0 0 g 0 0 0 0 0 0 0 10790.0 101.0 236.0 21963.0 131.0 179.0 21985.0 2706.0 0 0 t 0 0 0 0 0 0 0 1678.0 182.0 163.0 169.0 95.0 21777.0 88.0 7192.0 0 0

MA1728.2_shift9 (ZNF549)
; oligos_7nt_mkv5_m4 versus MA1728.2 (ZNF549); m=4/14; ncol2=8; w=0; offset=3; strand=D; shift=9; score=0.532689; ---------TGCTGCCC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 483.0 72.0 50.0 229.0 28.0 55.0 106.0 183.0 c 0 0 0 0 0 0 0 0 0 349.0 161.0 4622.0 175.0 80.0 4364.0 4435.0 4133.0 g 0 0 0 0 0 0 0 0 0 498.0 4489.0 77.0 128.0 4566.0 177.0 98.0 75.0 t 0 0 0 0 0 0 0 0 0 3497.0 105.0 78.0 4295.0 153.0 231.0 188.0 436.0

MA1100.3_shift7 (ASCL1)
; oligos_7nt_mkv5_m4 versus MA1100.3 (ASCL1); m=5/14; ncol2=8; w=0; offset=1; strand=D; shift=7; score=0.520121; -------rCAGCTGc-- ; cor=; Ncor= a 0 0 0 0 0 0 0 1334.0 0.0 4413.0 107.0 729.0 118.0 52.0 177.0 0 0 c 0 0 0 0 0 0 0 521.0 4413.0 157.0 1288.0 4413.0 24.0 0.0 3065.0 0 0 g 0 0 0 0 0 0 0 3079.0 0.0 60.0 4413.0 1320.0 121.0 4413.0 814.0 0 0 t 0 0 0 0 0 0 0 354.0 14.0 218.0 625.0 20.0 4413.0 29.0 1349.0 0 0

MA1529.2_shift3 (NHLH2)
; oligos_7nt_mkv5_m4 versus MA1529.2 (NHLH2); m=6/14; ncol2=16; w=-3; offset=-3; strand=D; shift=3; score=0.48217; ---gGyMGCAGCTGCGy ; cor=; Ncor= a 0 0 0 4312.0 3741.0 4921.0 5603.0 2378.0 2.0 21364.0 6.0 525.0 0.0 0.0 693.0 210.0 1184.0 c 0 0 0 2219.0 1065.0 6141.0 15451.0 2324.0 21359.0 0.0 2459.0 20268.0 14.0 2.0 20611.0 204.0 7207.0 g 0 0 0 13903.0 18450.0 4908.0 671.0 18930.0 2.0 26.0 20096.0 2266.0 3.0 21363.0 275.0 20977.0 1520.0 t 0 0 0 5198.0 2763.0 5394.0 151.0 2634.0 5.0 1.0 1054.0 0.0 21358.0 0.0 1230.0 740.0 13503.0

MA0697.3_rc_shift7 (Zic3_rc)
; oligos_7nt_mkv5_m4 versus MA0697.3_rc (Zic3_rc); m=7/14; ncol2=7; w=0; offset=1; strand=R; shift=7; score=0.46931; -------CCTGCTG--- ; cor=; Ncor= a 0 0 0 0 0 0 0 532.0 967.0 858.0 792.0 266.0 596.0 334.0 0 0 0 c 0 0 0 0 0 0 0 24340.0 24314.0 1768.0 756.0 24907.0 759.0 460.0 0 0 0 g 0 0 0 0 0 0 0 955.0 500.0 568.0 24272.0 670.0 872.0 25035.0 0 0 0 t 0 0 0 0 0 0 0 347.0 393.0 22980.0 354.0 331.0 23947.0 345.0 0 0 0

MA1628.2_rc_shift7 (Zic1::Zic2_rc)
; oligos_7nt_mkv5_m4 versus MA1628.2_rc (Zic1::Zic2_rc); m=8/14; ncol2=7; w=0; offset=1; strand=R; shift=7; score=0.466685; -------CCTGCTG--- ; cor=; Ncor= a 0 0 0 0 0 0 0 124.0 90.0 4.0 428.0 74.0 4.0 163.0 0 0 0 c 0 0 0 0 0 0 0 9631.0 9279.0 627.0 96.0 9527.0 266.0 106.0 0 0 0 g 0 0 0 0 0 0 0 91.0 512.0 311.0 9293.0 195.0 384.0 9594.0 0 0 0 t 0 0 0 0 0 0 0 46.0 11.0 8950.0 75.0 96.0 9238.0 29.0 0 0 0

MA1997.2_shift8 (Olig2)
; oligos_7nt_mkv5_m4 versus MA1997.2 (Olig2); m=9/14; ncol2=6; w=0; offset=2; strand=D; shift=8; score=0.417324; --------CAGCTG--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 10.0 59733.0 14.0 41.0 0.0 50.0 0 0 0 c 0 0 0 0 0 0 0 0 60968.0 668.0 18.0 61069.0 741.0 114.0 0 0 0 g 0 0 0 0 0 0 0 0 114.0 741.0 61069.0 18.0 668.0 60968.0 0 0 0 t 0 0 0 0 0 0 0 0 50.0 0.0 41.0 14.0 59733.0 10.0 0 0 0

MA1938.2_rc_shift0 (ERF::NHLH1_rc)
; oligos_7nt_mkv5_m4 versus MA1938.2_rc (ERF::NHLH1_rc); m=10/14; ncol2=16; w=-6; offset=-6; strand=R; shift=0; score=0.416239; ryWTCCGGCAGCTGCt- ; cor=; Ncor= a 210.0 40.0 84.0 12.0 26.0 7.0 1.0 8.0 15.0 324.0 8.0 28.0 0.0 18.0 21.0 7.0 0 c 16.0 176.0 11.0 3.0 313.0 325.0 11.0 6.0 317.0 13.0 2.0 288.0 0.0 14.0 290.0 81.0 0 g 108.0 3.0 0.0 21.0 10.0 0.0 327.0 316.0 12.0 20.0 301.0 11.0 0.0 317.0 14.0 81.0 0 t 0.0 113.0 241.0 324.0 4.0 27.0 12.0 0.0 1.0 10.0 26.0 1.0 324.0 5.0 0.0 156.0 0

MA1993.2_shift8 (Neurod2)
; oligos_7nt_mkv5_m4 versus MA1993.2 (Neurod2); m=11/14; ncol2=6; w=0; offset=2; strand=D; shift=8; score= 0.416; --------CAGCTG--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 14.0 53280.0 8.0 17.0 0.0 39.0 0 0 0 c 0 0 0 0 0 0 0 0 53913.0 310.0 15.0 53984.0 434.0 58.0 0 0 0 g 0 0 0 0 0 0 0 0 58.0 434.0 53984.0 15.0 310.0 53913.0 0 0 0 t 0 0 0 0 0 0 0 0 39.0 0.0 17.0 8.0 53280.0 14.0 0 0 0

MA0633.3_shift8 (Twist2)
; oligos_7nt_mkv5_m4 versus MA0633.3 (Twist2); m=12/14; ncol2=6; w=0; offset=2; strand=D; shift=8; score=0.415902; --------CAGCTG--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 15.0 48915.0 9.0 21.0 0.0 60.0 0 0 0 c 0 0 0 0 0 0 0 0 49473.0 345.0 16.0 49583.0 369.0 81.0 0 0 0 g 0 0 0 0 0 0 0 0 81.0 369.0 49583.0 16.0 342.0 49473.0 0 0 0 t 0 0 0 0 0 0 0 0 60.0 0.0 21.0 9.0 48918.0 15.0 0 0 0

MA1635.2_shift8 (BHLHE22)
; oligos_7nt_mkv5_m4 versus MA1635.2 (BHLHE22); m=13/14; ncol2=6; w=0; offset=2; strand=D; shift=8; score=0.414403; --------CAGCTG--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0.0 18267.0 1.0 14.0 0.0 14.0 0 0 0 c 0 0 0 0 0 0 0 0 18331.0 37.0 53.0 18288.0 52.0 15.0 0 0 0 g 0 0 0 0 0 0 0 0 11.0 52.0 18288.0 53.0 37.0 18327.0 0 0 0 t 0 0 0 0 0 0 0 0 14.0 0.0 14.0 1.0 18267.0 0.0 0 0 0

MA0521.3_shift8 (Tcf12)
; oligos_7nt_mkv5_m4 versus MA0521.3 (Tcf12); m=14/14; ncol2=6; w=0; offset=2; strand=D; shift=8; score=0.412347; --------CAGCTG--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 367.0 72283.0 836.0 1565.0 341.0 549.0 0 0 0 c 0 0 0 0 0 0 0 0 72674.0 739.0 1814.0 69780.0 632.0 402.0 0 0 0 g 0 0 0 0 0 0 0 0 404.0 632.0 69780.0 1814.0 738.0 72670.0 0 0 0 t 0 0 0 0 0 0 0 0 550.0 341.0 1565.0 836.0 72284.0 374.0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m4_shift3 ; 26 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m4_shift3 (oligos_6nt_mkv4_m4)
; oligos_6nt_mkv4_m4; m=0 (reference); ncol1=10; shift=3; ncol=13; ---srCGCaCGss ; Alignment reference a 0 0 0 469 863 68 219 80 1797 41 87 365 530 c 0 0 0 1350 736 3100 76 3047 650 3087 88 1525 1305 g 0 0 0 991 1359 80 2964 154 646 92 3102 897 1082 t 0 0 0 525 377 87 76 54 242 115 58 548 418

MA2325.1_shift5 (EPAS1)
; oligos_6nt_mkv4_m4 versus MA2325.1 (EPAS1); m=1/25; ncol2=9; w=0; offset=2; strand=D; shift=5; score=0.579609; -----cGCACGTm ; cor=; Ncor= a 0 0 0 0 0 73.0 28.0 1.0 620.0 2.0 7.0 5.0 410.0 c 0 0 0 0 0 352.0 23.0 635.0 4.0 629.0 2.0 36.0 174.0 g 0 0 0 0 0 115.0 545.0 1.0 15.0 6.0 626.0 16.0 43.0 t 0 0 0 0 0 100.0 44.0 3.0 1.0 3.0 5.0 583.0 13.0

MA0162.5_shift2 (EGR1)
; oligos_6nt_mkv4_m4 versus MA0162.5 (EGR1); m=2/25; ncol2=10; w=-1; offset=-1; strand=D; shift=2; score=0.578742; --mCGCCCACgC- ; cor=; Ncor= a 0 0 14508.0 642.0 5110.0 227.0 1440.0 314.0 22297.0 153.0 4696.0 969.0 0 c 0 0 10303.0 28403.0 1131.0 29338.0 27321.0 28958.0 5420.0 29507.0 2806.0 25196.0 0 g 0 0 3854.0 756.0 22237.0 665.0 1455.0 698.0 2122.0 699.0 20544.0 2157.0 0 t 0 0 1933.0 797.0 2120.0 368.0 382.0 628.0 759.0 239.0 2552.0 2276.0 0

MA0632.3_shift4 (TCFL5)
; oligos_6nt_mkv4_m4 versus MA0632.3 (TCFL5); m=3/25; ncol2=8; w=0; offset=1; strand=D; shift=4; score=0.561887; ----kCrCGCGC- ; cor=; Ncor= a 0 0 0 0 2810.0 0.0 72543.0 0.0 1566.0 1765.0 3520.0 1593.0 0 c 0 0 0 0 10582.0 72543.0 0.0 72543.0 0.0 57092.0 657.0 72543.0 0 g 0 0 0 0 22297.0 0.0 29710.0 0.0 72543.0 0.0 72543.0 4594.0 0 t 0 0 0 0 36854.0 0.0 9359.0 1643.0 0.0 15451.0 0.0 635.0 0

MA1650.2_shift2 (ZBTB14)
; oligos_6nt_mkv4_m4 versus MA1650.2 (ZBTB14); m=4/25; ncol2=8; w=-1; offset=-1; strand=D; shift=2; score=0.550141; --CCGCGCAC--- ; cor=; Ncor= a 0 0 335.0 41.0 93.0 68.0 132.0 56.0 4500.0 99.0 0 0 0 c 0 0 3525.0 4292.0 294.0 4078.0 305.0 4178.0 37.0 3674.0 0 0 0 g 0 0 614.0 155.0 4098.0 319.0 4043.0 261.0 10.0 651.0 0 0 0 t 0 0 73.0 59.0 62.0 82.0 67.0 52.0 0.0 123.0 0 0 0

MA0506.3_rc_shift4 (Nrf1_rc)
; oligos_6nt_mkv4_m4 versus MA0506.3_rc (Nrf1_rc); m=5/25; ncol2=12; w=0; offset=1; strand=R; shift=4; score=0.531355; ----gCGCAkGCG ; cor=; Ncor= a 0 0 0 0 2834.0 710.0 254.0 86.0 11578.0 408.0 234.0 224.0 195.0 c 0 0 0 0 1008.0 11169.0 201.0 12324.0 446.0 2514.0 510.0 12026.0 343.0 g 0 0 0 0 8461.0 576.0 12143.0 251.0 577.0 5475.0 11838.0 193.0 11783.0 t 0 0 0 0 426.0 274.0 131.0 68.0 128.0 4332.0 147.0 286.0 408.0

MA1959.2_rc_shift2 (KLF7_rc)
; oligos_6nt_mkv4_m4 versus MA1959.2_rc (KLF7_rc); m=6/25; ncol2=8; w=-1; offset=-1; strand=R; shift=2; score=0.495379; --CcMCGCCC--- ; cor=; Ncor= a 0 0 1.0 167.0 254.0 1.0 167.0 1.0 1.0 1.0 0 0 0 c 0 0 997.0 642.0 720.0 997.0 1.0 997.0 997.0 997.0 0 0 0 g 0 0 1.0 42.0 25.0 1.0 788.0 1.0 1.0 1.0 0 0 0 t 0 0 1.0 150.0 1.0 1.0 45.0 1.0 1.0 1.0 0 0 0

MA1106.2_rc_shift6 (HIF1A_rc)
; oligos_6nt_mkv4_m4 versus MA1106.2_rc (HIF1A_rc); m=7/25; ncol2=6; w=0; offset=3; strand=R; shift=6; score=0.494594; ------GCACGT- ; cor=; Ncor= a 0 0 0 0 0 0 35.0 11.0 934.0 0.0 1.0 2.0 0 c 0 0 0 0 0 0 20.0 844.0 11.0 979.0 0.0 2.0 0 g 0 0 0 0 0 0 837.0 41.0 33.0 0.0 979.0 0.0 0 t 0 0 0 0 0 0 88.0 84.0 2.0 1.0 0.0 976.0 0

MA1560.2_rc_shift6 (SOHLH2_rc)
; oligos_6nt_mkv4_m4 versus MA1560.2_rc (SOHLH2_rc); m=8/25; ncol2=8; w=0; offset=3; strand=R; shift=6; score=0.492212; ------gCACGTG ; cor=; Ncor= a 0 0 0 0 0 0 153.0 4.0 1212.0 15.0 7.0 0.0 70.0 c 0 0 0 0 0 0 172.0 1212.0 0.0 1212.0 11.0 41.0 29.0 g 0 0 0 0 0 0 1212.0 4.0 65.0 0.0 1212.0 0.0 1212.0 t 0 0 0 0 0 0 272.0 41.0 36.0 14.0 0.0 1212.0 45.0

MA1515.2_shift2 (KLF2)
; oligos_6nt_mkv4_m4 versus MA1515.2 (KLF2); m=9/25; ncol2=8; w=-1; offset=-1; strand=D; shift=2; score=0.484375; --CCmCrCCC--- ; cor=; Ncor= a 0 0 741.0 403.0 4622.0 0.0 1702.0 0.0 128.0 68.0 0 0 0 c 0 0 4622.0 4622.0 2265.0 4622.0 274.0 4622.0 4622.0 4622.0 0 0 0 g 0 0 495.0 186.0 1060.0 0.0 2920.0 49.0 195.0 105.0 0 0 0 t 0 0 346.0 312.0 214.0 78.0 167.0 22.0 9.0 444.0 0 0 0

MA2126.1_rc_shift2 (Zfp961_rc)
; oligos_6nt_mkv4_m4 versus MA2126.1_rc (Zfp961_rc); m=10/25; ncol2=8; w=-1; offset=-1; strand=R; shift=2; score=0.483126; --TGGCGCCC--- ; cor=; Ncor= a 0 0 61.0 26.0 16.0 15.0 182.0 116.0 71.0 8.0 0 0 0 c 0 0 69.0 30.0 23.0 1372.0 9.0 1278.0 1312.0 1372.0 0 0 0 g 0 0 74.0 1353.0 1367.0 8.0 1219.0 13.0 22.0 20.0 0 0 0 t 0 0 1214.0 9.0 12.0 23.0 8.0 11.0 13.0 18.0 0 0 0

MA1513.2_shift2 (KLF15)
; oligos_6nt_mkv4_m4 versus MA1513.2 (KLF15); m=11/25; ncol2=8; w=-1; offset=-1; strand=D; shift=2; score=0.480495; --cCCCGCCC--- ; cor=; Ncor= a 0 0 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 0 0 0 c 0 0 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 0 0 0 g 0 0 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 0 0 0 t 0 0 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0 0 0 0

MA0004.1_rc_shift7 (Arnt_rc)
; oligos_6nt_mkv4_m4 versus MA0004.1_rc (Arnt_rc); m=12/25; ncol2=6; w=0; offset=4; strand=R; shift=7; score=0.47054; -------CACGTG ; cor=; Ncor= a 0 0 0 0 0 0 0 0.0 20.0 0.0 0.0 0.0 0.0 c 0 0 0 0 0 0 0 20.0 0.0 20.0 0.0 1.0 0.0 g 0 0 0 0 0 0 0 0.0 0.0 0.0 20.0 0.0 16.0 t 0 0 0 0 0 0 0 0.0 0.0 0.0 0.0 19.0 4.0

MA0147.4_rc_shift6 (MYC_rc)
; oligos_6nt_mkv4_m4 versus MA0147.4_rc (MYC_rc); m=13/25; ncol2=8; w=0; offset=3; strand=R; shift=6; score=0.469975; ------gCACGTG ; cor=; Ncor= a 0 0 0 0 0 0 524.0 46.0 4658.0 38.0 293.0 113.0 27.0 c 0 0 0 0 0 0 1198.0 4817.0 63.0 4578.0 70.0 170.0 31.0 g 0 0 0 0 0 0 2801.0 56.0 162.0 157.0 4525.0 59.0 4840.0 t 0 0 0 0 0 0 419.0 23.0 59.0 169.0 54.0 4600.0 44.0

MA0493.3_rc_shift2 (KLF1_rc)
; oligos_6nt_mkv4_m4 versus MA0493.3_rc (KLF1_rc); m=14/25; ncol2=8; w=-1; offset=-1; strand=R; shift=2; score=0.458533; --CCmCrCCC--- ; cor=; Ncor= a 0 0 1.0 21.0 324.0 1.0 346.0 1.0 1.0 1.0 0 0 0 c 0 0 998.0 896.0 675.0 998.0 1.0 998.0 998.0 998.0 0 0 0 g 0 0 1.0 1.0 1.0 1.0 529.0 1.0 1.0 1.0 0 0 0 t 0 0 1.0 82.0 1.0 1.0 125.0 1.0 1.0 1.0 0 0 0

MA0006.2_rc_shift7 (Ahr::Arnt_rc)
; oligos_6nt_mkv4_m4 versus MA0006.2_rc (Ahr::Arnt_rc); m=15/25; ncol2=5; w=0; offset=4; strand=R; shift=7; score=0.457089; -------CACGC- ; cor=; Ncor= a 0 0 0 0 0 0 0 0.0 24.0 1.0 1.0 1.0 0 c 0 0 0 0 0 0 0 24.0 0.0 23.0 0.0 23.0 0 g 0 0 0 0 0 0 0 0.0 0.0 0.0 23.0 0.0 0 t 0 0 0 0 0 0 0 0.0 0.0 0.0 0.0 0.0 0

MA0622.2_shift7 (Mlxip)
; oligos_6nt_mkv4_m4 versus MA0622.2 (Mlxip); m=16/25; ncol2=6; w=0; offset=4; strand=D; shift=7; score=0.453286; -------CACGTG ; cor=; Ncor= a 0 0 0 0 0 0 0 0.0 999.0 0.0 0.0 0.0 0.0 c 0 0 0 0 0 0 0 999.0 0.0 999.0 0.0 0.0 0.0 g 0 0 0 0 0 0 0 0.0 0.0 0.0 999.0 0.0 999.0 t 0 0 0 0 0 0 0 0.0 0.0 0.0 0.0 999.0 0.0

MA0616.3_rc_shift6 (HES2_rc)
; oligos_6nt_mkv4_m4 versus MA0616.3_rc (HES2_rc); m=17/25; ncol2=9; w=0; offset=3; strand=R; shift=6; score=0.452628; ------rCACGTG ; cor=; Ncor= a 0 0 0 0 0 0 3849.0 0.0 8483.0 0.0 129.0 0.0 73.0 c 0 0 0 0 0 0 1289.0 8483.0 0.0 8483.0 0.0 2028.0 85.0 g 0 0 0 0 0 0 4634.0 15.0 1098.0 0.0 8483.0 0.0 8483.0 t 0 0 0 0 0 0 512.0 53.0 0.0 0.0 0.0 6455.0 118.0

MA0825.2_rc_shift7 (MNT_rc)
; oligos_6nt_mkv4_m4 versus MA0825.2_rc (MNT_rc); m=18/25; ncol2=6; w=0; offset=4; strand=R; shift=7; score=0.452455; -------CACGTG ; cor=; Ncor= a 0 0 0 0 0 0 0 25.0 681.0 0.0 16.0 21.0 5.0 c 0 0 0 0 0 0 0 681.0 15.0 681.0 7.0 0.0 0.0 g 0 0 0 0 0 0 0 0.0 0.0 0.0 681.0 0.0 681.0 t 0 0 0 0 0 0 0 0.0 0.0 15.0 0.0 681.0 27.0

MA0058.4_shift7 (MAX)
; oligos_6nt_mkv4_m4 versus MA0058.4 (MAX); m=19/25; ncol2=6; w=0; offset=4; strand=D; shift=7; score=0.45192; -------CACGTG ; cor=; Ncor= a 0 0 0 0 0 0 0 39.0 6876.0 0.0 329.0 69.0 0.0 c 0 0 0 0 0 0 0 6876.0 0.0 6876.0 39.0 159.0 27.0 g 0 0 0 0 0 0 0 0.0 87.0 7.0 6876.0 20.0 6876.0 t 0 0 0 0 0 0 0 0.0 38.0 229.0 19.0 6876.0 36.0

MA0464.3_rc_shift6 (BHLHE40_rc)
; oligos_6nt_mkv4_m4 versus MA0464.3_rc (BHLHE40_rc); m=20/25; ncol2=8; w=0; offset=3; strand=R; shift=6; score=0.450369; ------kCACGTG ; cor=; Ncor= a 0 0 0 0 0 0 500.0 72.0 11222.0 0.0 32.0 77.0 14.0 c 0 0 0 0 0 0 129.0 11222.0 87.0 11222.0 2.0 78.0 0.0 g 0 0 0 0 0 0 5295.0 12.0 248.0 30.0 11222.0 130.0 11222.0 t 0 0 0 0 0 0 5927.0 4.0 167.0 66.0 23.0 11222.0 59.0

MA0649.2_rc_shift6 (HEY2_rc)
; oligos_6nt_mkv4_m4 versus MA0649.2_rc (HEY2_rc); m=21/25; ncol2=9; w=0; offset=3; strand=R; shift=6; score=0.440562; ------rCACGTG ; cor=; Ncor= a 0 0 0 0 0 0 753.0 30.0 1800.0 0.0 0.0 0.0 58.0 c 0 0 0 0 0 0 128.0 1800.0 0.0 1800.0 0.0 128.0 83.0 g 0 0 0 0 0 0 1047.0 34.0 120.0 72.0 1800.0 0.0 1800.0 t 0 0 0 0 0 0 50.0 0.0 36.0 27.0 7.0 1800.0 84.0

MA0259.2_rc_shift7 (ARNT::HIF1A_rc)
; oligos_6nt_mkv4_m4 versus MA0259.2_rc (ARNT::HIF1A_rc); m=22/25; ncol2=5; w=0; offset=4; strand=R; shift=7; score=0.440373; -------CACGT- ; cor=; Ncor= a 0 0 0 0 0 0 0 0.0 104.0 0.0 1.0 1.0 0 c 0 0 0 0 0 0 0 104.0 0.0 104.0 0.0 23.0 0 g 0 0 0 0 0 0 0 0.0 0.0 0.0 103.0 2.0 0 t 0 0 0 0 0 0 0 0.0 0.0 0.0 0.0 78.0 0

MA1099.3_rc_shift7 (HES1_rc)
; oligos_6nt_mkv4_m4 versus MA1099.3_rc (HES1_rc); m=23/25; ncol2=8; w=0; offset=4; strand=R; shift=7; score=0.431159; -------CACGyG ; cor=; Ncor= a 0 0 0 0 0 0 0 53.0 18526.0 0.0 791.0 232.0 18.0 c 0 0 0 0 0 0 0 18526.0 0.0 18526.0 0.0 9081.0 0.0 g 0 0 0 0 0 0 0 0.0 4057.0 0.0 18526.0 0.0 18526.0 t 0 0 0 0 0 0 0 1.0 253.0 21.0 0.0 9446.0 464.0

MA1516.2_shift0 (KLF3)
; oligos_6nt_mkv4_m4 versus MA1516.2 (KLF3); m=24/25; ncol2=10; w=-3; offset=-3; strand=D; shift=0; score=0.424634; grCCrCGCCC--- ; cor=; Ncor= a 7717.0 24771.0 1442.0 298.0 26757.0 2261.0 4245.0 202.0 83.0 77.0 0 0 0 c 2655.0 615.0 43259.0 43259.0 707.0 43259.0 334.0 43259.0 43259.0 43259.0 0 0 0 g 26568.0 18489.0 1954.0 248.0 16503.0 21.0 43259.0 31.0 29.0 48.0 0 0 0 t 6319.0 207.0 705.0 335.0 419.0 1409.0 1212.0 0.0 0.0 1218.0 0 0 0

MA1583.2_shift2 (ZFP57)
; oligos_6nt_mkv4_m4 versus MA1583.2 (ZFP57); m=25/25; ncol2=7; w=-1; offset=-1; strand=D; shift=2; score=0.409436; --TGCCGCA---- ; cor=; Ncor= a 0 0 12.0 24.0 26.0 11.0 91.0 38.0 5116.0 0 0 0 0 c 0 0 37.0 71.0 6254.0 5595.0 16.0 5828.0 331.0 0 0 0 0 g 0 0 140.0 6213.0 16.0 719.0 6166.0 279.0 729.0 0 0 0 0 t 0 0 6143.0 24.0 36.0 7.0 59.0 187.0 156.0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m3_shift1 ; 5 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=10; shift=1; ncol=11; -ssCGGCCGss ; Alignment reference a 0 551 731 69 97 117 154 62 81 455 601 c 0 1932 1478 4293 617 724 3674 3891 224 2005 1585 g 0 1587 2004 224 3893 3674 724 617 4296 1476 1932 t 0 599 456 83 62 154 117 99 68 733 551

MA0131.3_rc_shift2 (HINFP_rc)
; oligos_6nt_mkv4_m3 versus MA0131.3_rc (HINFP_rc); m=1/4; ncol2=8; w=0; offset=1; strand=R; shift=2; score=0.573534; --GCGGACGy- ; cor=; Ncor= a 0 0 12.0 21.0 3.0 0.0 470.0 10.0 7.0 17.0 0 c 0 0 15.0 472.0 0.0 13.0 0.0 484.0 97.0 217.0 0 g 0 0 395.0 31.0 413.0 404.0 0.0 14.0 388.0 45.0 0 t 0 0 1.0 0.0 0.0 0.0 0.0 0.0 1.0 276.0 0

MA1959.2_shift4 (KLF7)
; oligos_6nt_mkv4_m3 versus MA1959.2 (KLF7); m=2/4; ncol2=8; w=0; offset=3; strand=D; shift=4; score=0.45079; ----GGGCGKg ; cor=; Ncor= a 0 0 0 0 1.0 1.0 1.0 45.0 1.0 1.0 150.0 c 0 0 0 0 1.0 1.0 1.0 788.0 1.0 25.0 42.0 g 0 0 0 0 997.0 997.0 997.0 1.0 997.0 720.0 642.0 t 0 0 0 0 1.0 1.0 1.0 167.0 1.0 254.0 167.0

MA1513.2_shift0 (KLF15)
; oligos_6nt_mkv4_m3 versus MA1513.2 (KLF15); m=3/4; ncol2=8; w=-1; offset=-1; strand=D; shift=0; score=0.447959; cCCCGCCC--- ; cor=; Ncor= a 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 0 0 0 c 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 0 0 0 g 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 0 0 0 t 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0 0 0 0

MA2126.1_shift4 (Zfp961)
; oligos_6nt_mkv4_m3 versus MA2126.1 (Zfp961); m=4/4; ncol2=8; w=0; offset=3; strand=D; shift=4; score=0.447569; ----GGGCGCC ; cor=; Ncor= a 0 0 0 0 18.0 13.0 11.0 8.0 23.0 12.0 9.0 c 0 0 0 0 20.0 22.0 13.0 1219.0 8.0 1367.0 1353.0 g 0 0 0 0 1372.0 1312.0 1278.0 9.0 1372.0 23.0 30.0 t 0 0 0 0 8.0 71.0 116.0 182.0 15.0 16.0 26.0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m2_shift0 ; 10 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m2_shift0 (oligos_6nt_mkv4_m2)
; oligos_6nt_mkv4_m2; m=0 (reference); ncol1=10; shift=0; ncol=10; ssCGaGCGcs ; Alignment reference a 431 358 62 33 1318 80 53 64 363 402 c 972 973 2745 58 646 117 2860 106 1296 953 g 1260 1366 178 2896 650 2779 60 2824 746 1293 t 373 339 51 49 422 60 63 42 631 388

MA1959.2_shift3 (KLF7)
; oligos_6nt_mkv4_m2 versus MA1959.2 (KLF7); m=1/9; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.505266; ---GGGCGKg ; cor=; Ncor= a 0 0 0 1.0 1.0 1.0 45.0 1.0 1.0 150.0 c 0 0 0 1.0 1.0 1.0 788.0 1.0 25.0 42.0 g 0 0 0 997.0 997.0 997.0 1.0 997.0 720.0 642.0 t 0 0 0 1.0 1.0 1.0 167.0 1.0 254.0 167.0

MA1513.2_rc_shift3 (KLF15_rc)
; oligos_6nt_mkv4_m2 versus MA1513.2_rc (KLF15_rc); m=2/9; ncol2=8; w=0; offset=3; strand=R; shift=3; score=0.496704; ---GGGCGGG ; cor=; Ncor= a 0 0 0 3.0 1.0 11.0 0.0 0.0 3.0 9.0 c 0 0 0 100.0 359.0 2.0 11369.0 1.0 333.0 86.0 g 0 0 0 11254.0 10954.0 11345.0 0.0 11368.0 10940.0 11234.0 t 0 0 0 12.0 55.0 11.0 0.0 0.0 93.0 40.0

MA0632.3_rc_shift3 (TCFL5_rc)
; oligos_6nt_mkv4_m2 versus MA0632.3_rc (TCFL5_rc); m=3/9; ncol2=8; w=0; offset=3; strand=R; shift=3; score=0.496217; ---GCGCGyG ; cor=; Ncor= a 0 0 0 635.0 0.0 15451.0 0.0 1643.0 9359.0 0.0 c 0 0 0 4594.0 72543.0 0.0 72543.0 0.0 29710.0 0.0 g 0 0 0 72543.0 657.0 57092.0 0.0 72543.0 0.0 72543.0 t 0 0 0 1593.0 3520.0 1765.0 1566.0 0.0 72543.0 0.0

MA2126.1_shift3 (Zfp961)
; oligos_6nt_mkv4_m2 versus MA2126.1 (Zfp961); m=4/9; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.493456; ---GGGCGCC ; cor=; Ncor= a 0 0 0 18.0 13.0 11.0 8.0 23.0 12.0 9.0 c 0 0 0 20.0 22.0 13.0 1219.0 8.0 1367.0 1353.0 g 0 0 0 1372.0 1312.0 1278.0 9.0 1372.0 23.0 30.0 t 0 0 0 8.0 71.0 116.0 182.0 15.0 16.0 26.0

MA1515.2_rc_shift3 (KLF2_rc)
; oligos_6nt_mkv4_m2 versus MA1515.2_rc (KLF2_rc); m=5/9; ncol2=8; w=0; offset=3; strand=R; shift=3; score=0.484924; ---GGGyGkG ; cor=; Ncor= a 0 0 0 444.0 9.0 22.0 167.0 78.0 214.0 312.0 c 0 0 0 105.0 195.0 49.0 2920.0 0.0 1060.0 186.0 g 0 0 0 4622.0 4622.0 4622.0 274.0 4622.0 2265.0 4622.0 t 0 0 0 68.0 128.0 0.0 1702.0 0.0 4622.0 403.0

MA1650.2_rc_shift3 (ZBTB14_rc)
; oligos_6nt_mkv4_m2 versus MA1650.2_rc (ZBTB14_rc); m=6/9; ncol2=8; w=0; offset=3; strand=R; shift=3; score=0.484134; ---GTGCGCG ; cor=; Ncor= a 0 0 0 123.0 0.0 52.0 67.0 82.0 62.0 59.0 c 0 0 0 651.0 10.0 261.0 4043.0 319.0 4098.0 155.0 g 0 0 0 3674.0 37.0 4178.0 305.0 4078.0 294.0 4292.0 t 0 0 0 99.0 4500.0 56.0 132.0 68.0 93.0 41.0

MA0493.3_shift3 (KLF1)
; oligos_6nt_mkv4_m2 versus MA0493.3 (KLF1); m=7/9; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.46518; ---GGGyGkG ; cor=; Ncor= a 0 0 0 1.0 1.0 1.0 125.0 1.0 1.0 82.0 c 0 0 0 1.0 1.0 1.0 529.0 1.0 1.0 1.0 g 0 0 0 998.0 998.0 998.0 1.0 998.0 675.0 896.0 t 0 0 0 1.0 1.0 1.0 346.0 1.0 324.0 21.0

MA1516.2_rc_shift3 (KLF3_rc)
; oligos_6nt_mkv4_m2 versus MA1516.2_rc (KLF3_rc); m=8/9; ncol2=10; w=0; offset=3; strand=R; shift=3; score=0.430558; ---GGGCGyG ; cor=; Ncor= a 0 0 0 1218.0 0.0 0.0 1212.0 1409.0 419.0 335.0 c 0 0 0 48.0 29.0 31.0 43259.0 21.0 16503.0 248.0 g 0 0 0 43259.0 43259.0 43259.0 334.0 43259.0 707.0 43259.0 t 0 0 0 77.0 83.0 202.0 4245.0 2261.0 26757.0 298.0

MA1727.2_shift4 (ZNF417)
; oligos_6nt_mkv4_m2 versus MA1727.2 (ZNF417); m=9/9; ncol2=7; w=0; offset=4; strand=D; shift=4; score=0.404535; ----GGCGCC ; cor=; Ncor= a 0 0 0 0 1.0 1.0 7.0 1.0 1.0 31.0 c 0 0 0 0 1.0 1.0 936.0 1.0 990.0 954.0 g 0 0 0 0 996.0 996.0 1.0 996.0 1.0 1.0 t 0 0 0 0 1.0 1.0 55.0 1.0 7.0 13.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m1_shift2 (oligos_7nt_mkv5_m1)				; oligos_7nt_mkv5_m1; m=0 (reference); ncol1=12; shift=2; ncol=14; --srCCACACCcws ; Alignment reference a 0 0 956 1515 416 86 4069 68 3410 86 201 321 1480 743 c 0 0 1393 969 3734 4277 236 4267 132 4187 4131 2833 953 1358 g 0 0 1265 1305 182 54 92 86 708 141 75 326 829 1471 t 0 0 901 726 183 98 118 94 265 101 108 1035 1253 943
MA1107.3_shift3 (KLF9)				; oligos_7nt_mkv5_m1 versus MA1107.3 (KLF9); m=1/34; ncol2=11; w=0; offset=1; strand=D; shift=3; score=0.826632; ---gCCACACCCAC ; cor=; Ncor= a 0 0 0 2862.0 4664.0 287.0 21899.0 221.0 19187.0 224.0 2428.0 146.0 18837.0 792.0 c 0 0 0 4342.0 17839.0 24709.0 2559.0 24863.0 1070.0 24365.0 22117.0 24682.0 4339.0 20644.0 g 0 0 0 16852.0 1660.0 291.0 708.0 353.0 4340.0 735.0 605.0 205.0 852.0 1778.0 t 0 0 0 1523.0 1416.0 292.0 413.0 142.0 982.0 255.0 429.0 546.0 1551.0 2365.0
MA0746.3_shift3 (SP3)				; oligos_7nt_mkv5_m1 versus MA0746.3 (SP3); m=2/34; ncol2=11; w=0; offset=1; strand=D; shift=3; score=0.765988; ---rCCACGCCCmC ; cor=; Ncor= a 0 0 0 2146.0 664.0 160.0 5253.0 6.0 465.0 0.0 0.0 2.0 3430.0 556.0 c 0 0 0 531.0 6591.0 6591.0 1338.0 6591.0 0.0 6591.0 6591.0 6591.0 3160.0 5116.0 g 0 0 0 4445.0 226.0 54.0 2.0 0.0 6591.0 0.0 0.0 2.0 39.0 297.0 t 0 0 0 421.0 345.0 202.0 11.0 12.0 504.0 0.0 9.0 718.0 552.0 1475.0
MA0741.1_shift3 (KLF16)				; oligos_7nt_mkv5_m1 versus MA0741.1 (KLF16); m=3/34; ncol2=11; w=0; offset=1; strand=D; shift=3; score=0.750166; ---gmCMCgCCCMC ; 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 32.0 c 0 0 0 535.0 1612.0 1612.0 461.0 1612.0 173.0 1612.0 1612.0 1612.0 1175.0 1612.0 g 0 0 0 1612.0 77.0 6.0 32.0 17.0 1612.0 0.0 8.0 3.0 19.0 23.0 t 0 0 0 240.0 116.0 45.0 0.0 19.0 403.0 0.0 0.0 97.0 40.0 370.0
MA1512.2_shift4 (KLF11)				; oligos_7nt_mkv5_m1 versus MA1512.2 (KLF11); m=4/34; ncol2=10; w=0; offset=2; strand=D; shift=4; score=0.712217; ----cCACGCCCmC ; cor=; Ncor= a 0 0 0 0 2022.0 650.0 8655.0 0.0 2426.0 11.0 1.0 0.0 4689.0 581.0 c 0 0 0 0 5549.0 8662.0 1289.0 9142.0 52.0 9161.0 9166.0 8941.0 4226.0 8403.0 g 0 0 0 0 401.0 156.0 115.0 0.0 8291.0 18.0 20.0 4.0 69.0 358.0 t 0 0 0 0 1192.0 506.0 27.0 38.0 349.0 23.0 7.0 885.0 761.0 1281.0
MA0599.1_shift3 (KLF5)				; oligos_7nt_mkv5_m1 versus MA0599.1 (KLF5); m=5/34; ncol2=10; w=0; offset=1; strand=D; shift=3; score=0.691559; ---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 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 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 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 0
MA1516.2_shift2 (KLF3)				; oligos_7nt_mkv5_m1 versus MA1516.2 (KLF3); m=6/34; ncol2=10; w=0; offset=0; strand=D; shift=2; score=0.68818; --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 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 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 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 0
MA1564.2_shift4 (SP9)				; oligos_7nt_mkv5_m1 versus MA1564.2 (SP9); m=7/34; ncol2=10; w=0; offset=2; strand=D; shift=4; score=0.683984; ----cCmCGCCCmc ; cor=; Ncor= a 0 0 0 0 566.0 321.0 2451.0 2.0 211.0 22.0 0.0 39.0 1192.0 188.0 c 0 0 0 0 2451.0 2451.0 1127.0 2451.0 200.0 2451.0 2451.0 2451.0 1259.0 1863.0 g 0 0 0 0 309.0 113.0 56.0 17.0 2451.0 0.0 0.0 24.0 38.0 191.0 t 0 0 0 0 518.0 284.0 96.0 9.0 173.0 14.0 30.0 412.0 353.0 588.0
MA1517.2_shift4 (KLF6)				; oligos_7nt_mkv5_m1 versus MA1517.2 (KLF6); m=8/34; ncol2=9; w=0; offset=2; strand=D; shift=4; score=0.677927; ----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 0 c 0 0 0 0 2192.0 2192.0 284.0 2192.0 0.0 2192.0 2192.0 2192.0 665.0 0 g 0 0 0 0 332.0 298.0 60.0 0.0 2192.0 0.0 60.0 12.0 52.0 0 t 0 0 0 0 219.0 140.0 60.0 24.0 0.0 0.0 0.0 64.0 520.0 0
MA0747.2_shift4 (SP8)				; oligos_7nt_mkv5_m1 versus MA0747.2 (SP8); m=9/34; ncol2=11; w=0; offset=2; strand=D; shift=4; score=0.647073; ----mCACgCCCmC ; 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 13.0 c 0 0 0 0 113.0 167.0 33.0 167.0 37.0 167.0 167.0 167.0 77.0 167.0 g 0 0 0 0 0.0 0.0 1.0 1.0 167.0 6.0 3.0 4.0 6.0 21.0 t 0 0 0 0 4.0 13.0 2.0 5.0 39.0 2.0 0.0 15.0 3.0 39.0
MA1515.2_shift4 (KLF2)				; oligos_7nt_mkv5_m1 versus MA1515.2 (KLF2); m=10/34; ncol2=8; w=0; offset=2; strand=D; shift=4; score=0.611322; ----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 0 c 0 0 0 0 4622.0 4622.0 2265.0 4622.0 274.0 4622.0 4622.0 4622.0 0 0 g 0 0 0 0 495.0 186.0 1060.0 0.0 2920.0 49.0 195.0 105.0 0 0 t 0 0 0 0 346.0 312.0 214.0 78.0 167.0 22.0 9.0 444.0 0 0
MA0493.3_rc_shift4 (KLF1_rc)				; oligos_7nt_mkv5_m1 versus MA0493.3_rc (KLF1_rc); m=11/34; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.570308; ----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 0 c 0 0 0 0 998.0 896.0 675.0 998.0 1.0 998.0 998.0 998.0 0 0 g 0 0 0 0 1.0 1.0 1.0 1.0 529.0 1.0 1.0 1.0 0 0 t 0 0 0 0 1.0 82.0 1.0 1.0 125.0 1.0 1.0 1.0 0 0
MA1511.2_rc_shift4 (KLF10_rc)				; oligos_7nt_mkv5_m1 versus MA1511.2_rc (KLF10_rc); m=12/34; ncol2=9; w=0; offset=2; strand=R; shift=4; score=0.56647; ----CCMCGCCCC- ; cor=; Ncor= a 0 0 0 0 49.3528 26.699 253.236 0.809061 152.913 0.809061 0.809061 0.809061 104.369 0 c 0 0 0 0 884.304 906.958 693.366 997.573 0.809061 997.573 997.573 997.573 819.579 0 g 0 0 0 0 0.809061 0.809061 52.589 0.809061 803.398 0.809061 0.809061 0.809061 0.809061 0 t 0 0 0 0 65.534 65.534 0.809061 0.809061 42.8803 0.809061 0.809061 0.809061 75.2427 0
MA0740.2_rc_shift4 (KLF14_rc)				; oligos_7nt_mkv5_m1 versus MA0740.2_rc (KLF14_rc); m=13/34; ncol2=9; w=0; offset=2; strand=R; shift=4; score=0.565469; ----CCMCGCCCm- ; cor=; Ncor= a 0 0 0 0 0.635877 0.635877 280.83 0.635877 90.067 0.635877 0.635877 0.635877 348.681 0 c 0 0 0 0 738.662 891.023 717.898 998.092 0.635877 998.092 998.092 998.092 619.525 0 g 0 0 0 0 62.0884 0.635877 0.635877 0.635877 814.392 0.635877 0.635877 0.635877 0.635877 0 t 0 0 0 0 198.614 107.705 0.635877 0.635877 94.9046 0.635877 0.635877 0.635877 31.158 0
MA0039.5_shift4 (KLF4)				; oligos_7nt_mkv5_m1 versus MA0039.5 (KLF4); m=14/34; ncol2=8; w=0; offset=2; strand=D; shift=4; score=0.561867; ----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 0 c 0 0 0 0 49209.0 47865.0 45405.0 52875.0 161.0 52366.0 51112.0 51045.0 0 0 g 0 0 0 0 1583.0 1214.0 1422.0 793.0 6598.0 1470.0 1870.0 1005.0 0 0 t 0 0 0 0 2560.0 4633.0 1969.0 976.0 3456.0 1129.0 1218.0 2565.0 0 0
MA1567.3_rc_shift3 (Tbx6_rc)				; oligos_7nt_mkv5_m1 versus MA1567.3_rc (Tbx6_rc); m=15/34; ncol2=9; w=0; offset=1; strand=R; shift=3; score=0.549162; ---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 0 c 0 0 0 898.0 332.0 8237.0 676.0 9393.0 152.0 9131.0 8347.0 2541.0 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 0 t 0 0 0 7889.0 9063.0 183.0 710.0 39.0 158.0 103.0 758.0 4968.0 0 0
MA2123.1_shift3 (Hand1)				; oligos_7nt_mkv5_m1 versus MA2123.1 (Hand1); m=16/34; ncol2=9; w=0; offset=1; strand=D; shift=3; score=0.547906; ---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 0 c 0 0 0 128.0 850.0 1036.0 16.0 24.0 33.0 955.0 962.0 235.0 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 0 t 0 0 0 609.0 27.0 6.0 20.0 14.0 17.0 33.0 14.0 613.0 0 0
MA0742.2_rc_shift4 (KLF12_rc)				; oligos_7nt_mkv5_m1 versus MA0742.2_rc (KLF12_rc); m=17/34; ncol2=9; w=0; offset=2; strand=R; shift=4; score=0.545336; ----CCCCGCCCC- ; cor=; Ncor= a 0 0 0 0 29.2208 0.649351 190.26 0.649351 0.649351 0.649351 0.649351 0.649351 187.662 0 c 0 0 0 0 969.481 930.519 725.325 998.052 0.649351 998.052 998.052 912.338 709.74 0 g 0 0 0 0 0.649351 0.649351 78.5714 0.649351 951.299 0.649351 0.649351 0.649351 0.649351 0 t 0 0 0 0 0.649351 68.1818 5.84416 0.649351 47.4026 0.649351 0.649351 86.3636 101.948 0
MA0657.2_shift2 (KLF13)				; oligos_7nt_mkv5_m1 versus MA0657.2 (KLF13); m=18/34; ncol2=17; w=0; offset=0; strand=D; shift=2; score=0.526081; --tRmCACGCCCCY ; cor=; Ncor= a 0 0 733.0 1891.0 496.0 75.0 2384.0 0.0 24.0 0.0 4.0 1.0 509.0 3.0 c 0 0 46.0 0.0 923.0 924.0 0.0 1353.0 2.0 1596.0 1469.0 1760.0 1766.0 638.0 g 0 0 796.0 4630.0 58.0 2.0 11.0 7.0 3028.0 0.0 0.0 0.0 0.0 3.0 t 0 0 1766.0 59.0 102.0 61.0 0.0 3.0 9.0 7.0 0.0 16.0 10.0 1403.0
MA0800.2_rc_shift3 (EOMES_rc)				; oligos_7nt_mkv5_m1 versus MA0800.2_rc (EOMES_rc); m=19/34; ncol2=9; w=0; offset=1; strand=R; shift=3; score=0.525865; ---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 0 c 0 0 0 1022.0 99.0 9832.0 98.0 9832.0 50.0 9832.0 9832.0 1259.0 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 0 t 0 0 0 9832.0 9832.0 210.0 495.0 9.0 19.0 23.0 1775.0 9832.0 0 0
MA1959.2_rc_shift4 (KLF7_rc)				; oligos_7nt_mkv5_m1 versus MA1959.2_rc (KLF7_rc); m=20/34; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.515048; ----CcMCGCCC-- ; cor=; Ncor= a 0 0 0 0 1.0 167.0 254.0 1.0 167.0 1.0 1.0 1.0 0 0 c 0 0 0 0 997.0 642.0 720.0 997.0 1.0 997.0 997.0 997.0 0 0 g 0 0 0 0 1.0 42.0 25.0 1.0 788.0 1.0 1.0 1.0 0 0 t 0 0 0 0 1.0 150.0 1.0 1.0 45.0 1.0 1.0 1.0 0 0
MA0807.1_rc_shift4 (TBX5_rc)				; oligos_7nt_mkv5_m1 versus MA0807.1_rc (TBX5_rc); m=21/34; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.510876; ----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 0 c 0 0 0 0 343.0 1804.0 201.0 1804.0 166.0 1804.0 1804.0 409.0 0 0 g 0 0 0 0 76.0 616.0 225.0 0.0 131.0 0.0 190.0 89.0 0 0 t 0 0 0 0 1804.0 126.0 162.0 27.0 45.0 0.0 235.0 1804.0 0 0
MA0801.1_rc_shift4 (MGA_rc)				; oligos_7nt_mkv5_m1 versus MA0801.1_rc (MGA_rc); m=22/34; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.504099; ----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 0 c 0 0 0 0 920.0 30489.0 381.0 30489.0 96.0 30489.0 30489.0 8873.0 0 0 g 0 0 0 0 110.0 1753.0 3089.0 1.0 3534.0 509.0 3737.0 1151.0 0 0 t 0 0 0 0 30489.0 689.0 1042.0 14.0 12.0 16.0 4310.0 30489.0 0 0
MA0803.1_rc_shift4 (TBX15_rc)				; oligos_7nt_mkv5_m1 versus MA0803.1_rc (TBX15_rc); m=23/34; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.498582; ----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 0 c 0 0 0 0 306.0 10502.0 324.0 10502.0 245.0 10502.0 10502.0 664.0 0 0 g 0 0 0 0 71.0 454.0 435.0 8.0 175.0 7.0 101.0 74.0 0 0 t 0 0 0 0 10502.0 44.0 140.0 0.0 61.0 19.0 458.0 10502.0 0 0
MA0805.1_rc_shift4 (TBX1_rc)				; oligos_7nt_mkv5_m1 versus MA0805.1_rc (TBX1_rc); m=24/34; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.488792; ----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 0 c 0 0 0 0 18.0 11931.0 109.0 11931.0 141.0 11931.0 11931.0 1007.0 0 0 g 0 0 0 0 33.0 720.0 613.0 5.0 214.0 0.0 711.0 113.0 0 0 t 0 0 0 0 11931.0 141.0 142.0 0.0 28.0 0.0 1560.0 11931.0 0 0
MA0806.1_rc_shift4 (TBX4_rc)				; oligos_7nt_mkv5_m1 versus MA0806.1_rc (TBX4_rc); m=25/34; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.482421; ----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 0 c 0 0 0 0 1733.0 18646.0 304.0 18646.0 191.0 18646.0 18646.0 2353.0 0 0 g 0 0 0 0 588.0 5396.0 2859.0 0.0 1644.0 189.0 2328.0 437.0 0 0 t 0 0 0 0 18646.0 1355.0 1551.0 0.0 0.0 38.0 3082.0 18646.0 0 0
MA0002.3_rc_shift1 (Runx1_rc)				; oligos_7nt_mkv5_m1 versus MA0002.3_rc (Runx1_rc); m=26/34; ncol2=9; w=-1; offset=-1; strand=R; shift=1; score=0.47638; -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 0 c 0 289.0 81.0 251.0 1848.0 1987.0 70.0 1872.0 7.0 149.0 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 0 t 0 500.0 131.0 10.0 17.0 0.0 87.0 0.0 57.0 123.0 0 0 0 0
MA1620.2_shift6 (Ptf1A)				; oligos_7nt_mkv5_m1 versus MA1620.2 (Ptf1A); m=27/34; ncol2=8; w=0; offset=4; strand=D; shift=6; score=0.473434; ------aCACCTGt ; cor=; Ncor= a 0 0 0 0 0 0 6867.0 184.0 10033.0 116.0 256.0 85.0 68.0 527.0 c 0 0 0 0 0 0 1188.0 9887.0 60.0 8567.0 9612.0 94.0 109.0 1615.0 g 0 0 0 0 0 0 1410.0 113.0 84.0 1182.0 294.0 98.0 9972.0 1516.0 t 0 0 0 0 0 0 826.0 107.0 114.0 426.0 129.0 10014.0 142.0 6633.0
MA0130.1_shift2 (ZNF354C)				; oligos_7nt_mkv5_m1 versus MA0130.1 (ZNF354C); m=28/34; ncol2=6; w=0; offset=0; strand=D; shift=2; score=0.456875; --mTCCAC------ ; cor=; Ncor= a 0 0 7.0 3.0 0.0 0.0 16.0 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 0 g 0 0 3.0 0.0 0.0 0.0 0.0 1.0 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 0
MA1989.2_shift1 (Bcl11B)				; oligos_7nt_mkv5_m1 versus MA1989.2 (Bcl11B); m=29/34; ncol2=9; w=-1; offset=-1; strand=D; shift=1; score=0.450432; -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 0 c 0 5084.0 2339.0 1397.0 36798.0 37476.0 940.0 35985.0 1397.0 3546.0 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 0 t 0 6252.0 3000.0 602.0 840.0 841.0 1321.0 871.0 1095.0 5436.0 0 0 0 0
MA0162.5_shift0 (EGR1)				; oligos_7nt_mkv5_m1 versus MA0162.5 (EGR1); m=30/34; ncol2=10; w=-2; offset=-2; strand=D; shift=0; score=0.432959; 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 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 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 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 0
MA1558.2_rc_shift7 (SNAI1_rc)				; oligos_7nt_mkv5_m1 versus MA1558.2_rc (SNAI1_rc); m=31/34; ncol2=7; w=0; offset=5; strand=R; shift=7; score=0.423679; -------CACCTGy ; cor=; Ncor= a 0 0 0 0 0 0 0 311.0 19982.0 28.0 306.0 568.0 340.0 3518.0 c 0 0 0 0 0 0 0 19982.0 42.0 19982.0 19982.0 91.0 275.0 12989.0 g 0 0 0 0 0 0 0 0.0 0.0 5.0 517.0 297.0 19982.0 501.0 t 0 0 0 0 0 0 0 706.0 38.0 72.0 1766.0 19982.0 446.0 6993.0
MA1648.2_shift7 (TCF12)				; oligos_7nt_mkv5_m1 versus MA1648.2 (TCF12); m=32/34; ncol2=7; w=0; offset=5; strand=D; shift=7; score=0.415883; -------CACCTGC ; cor=; Ncor= a 0 0 0 0 0 0 0 955.0 52529.0 744.0 1913.0 1380.0 2819.0 1089.0 c 0 0 0 0 0 0 0 57848.0 2007.0 55598.0 55765.0 3886.0 2088.0 55061.0 g 0 0 0 0 0 0 0 1186.0 5607.0 3780.0 3536.0 2625.0 55922.0 2314.0 t 0 0 0 0 0 0 0 1887.0 1733.0 1754.0 662.0 53985.0 1047.0 3412.0
MA0522.4_shift7 (TCF3)				; oligos_7nt_mkv5_m1 versus MA0522.4 (TCF3); m=33/34; ncol2=7; w=0; offset=5; strand=D; shift=7; score=0.413662; -------CACCTGC ; cor=; Ncor= a 0 0 0 0 0 0 0 469.0 28916.0 309.0 1127.0 380.0 1089.0 295.0 c 0 0 0 0 0 0 0 29379.0 396.0 28640.0 27199.0 2003.0 1038.0 28742.0 g 0 0 0 0 0 0 0 708.0 1574.0 1362.0 2652.0 1339.0 28642.0 987.0 t 0 0 0 0 0 0 0 705.0 375.0 950.0 283.0 27539.0 492.0 1237.0
MA0479.2_shift1 (FOXH1)				; oligos_7nt_mkv5_m1 versus MA0479.2 (FOXH1); m=34/34; ncol2=8; w=-1; offset=-1; strand=D; shift=1; score=0.407834; -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 0 c 0 0.0 0.0 0.0 5773.0 6797.0 0.0 8211.0 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 0 t 0 0.0 435.0 8211.0 64.0 0.0 0.0 0.0 1073.0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m3_shift4 (oligos_7nt_mkv5_m3)				; oligos_7nt_mkv5_m3; m=0 (reference); ncol1=11; shift=4; ncol=15; ----twCAAGGACat ; Alignment reference a 0 0 0 0 508 626 66 1830 1898 55 48 1820 41 926 481 c 0 0 0 0 445 436 1804 83 61 27 46 52 1920 321 494 g 0 0 0 0 477 375 54 74 54 1914 1903 41 28 353 502 t 0 0 0 0 668 661 174 111 85 102 101 185 109 498 621
MA0141.4_shift5 (ESRRB)				; oligos_7nt_mkv5_m3 versus MA0141.4 (ESRRB); m=1/11; ncol2=10; w=0; offset=1; strand=D; shift=5; score=0.708446; -----TCAAGGTCAw ; cor=; Ncor= a 0 0 0 0 0 108.0 9.0 1746.0 1746.0 3.0 1.0 6.0 2.0 1746.0 702.0 c 0 0 0 0 0 373.0 1746.0 1.0 1.0 2.0 4.0 11.0 1746.0 0.0 256.0 g 0 0 0 0 0 75.0 255.0 0.0 3.0 1746.0 1746.0 8.0 1.0 56.0 42.0 t 0 0 0 0 0 1746.0 7.0 4.0 0.0 1.0 3.0 1746.0 15.0 3.0 1045.0
MA0505.3_rc_shift5 (Nr5A2_rc)				; oligos_7nt_mkv5_m3 versus MA0505.3_rc (Nr5A2_rc); m=2/11; ncol2=9; w=0; offset=1; strand=R; shift=5; score=0.684546; -----TCAAGGtCA- ; cor=; Ncor= a 0 0 0 0 0 1125.0 322.0 29653.0 29125.0 343.0 237.0 2733.0 483.0 21101.0 0 c 0 0 0 0 0 2402.0 29010.0 285.0 359.0 166.0 124.0 6736.0 27158.0 2303.0 0 g 0 0 0 0 0 645.0 870.0 338.0 694.0 29734.0 29854.0 1185.0 869.0 3118.0 0 t 0 0 0 0 0 26370.0 340.0 266.0 364.0 299.0 327.0 19888.0 2032.0 4020.0 0
MA0592.4_shift5 (ESRRA)				; oligos_7nt_mkv5_m3 versus MA0592.4 (ESRRA); m=3/11; ncol2=9; w=0; offset=1; strand=D; shift=5; score=0.655011; -----tCAAGGTCA- ; cor=; Ncor= a 0 0 0 0 0 2305.0 972.0 24681.0 24744.0 480.0 223.0 1003.0 293.0 24648.0 0 c 0 0 0 0 0 6446.0 21854.0 355.0 415.0 340.0 146.0 379.0 23989.0 226.0 0 g 0 0 0 0 0 1850.0 2323.0 556.0 569.0 24676.0 25332.0 949.0 786.0 781.0 0 t 0 0 0 0 0 15394.0 846.0 403.0 267.0 499.0 294.0 23664.0 927.0 340.0 0
MA0643.2_shift5 (Esrrg)				; oligos_7nt_mkv5_m3 versus MA0643.2 (Esrrg); m=4/11; ncol2=9; w=0; offset=1; strand=D; shift=5; score=0.642545; -----tsAAGGTCA- ; cor=; Ncor= a 0 0 0 0 0 3489.0 705.0 14909.0 14909.0 12.0 0.0 472.0 7.0 14909.0 0 c 0 0 0 0 0 5974.0 10009.0 0.0 12.0 7.0 17.0 41.0 14909.0 34.0 0 g 0 0 0 0 0 2800.0 4901.0 603.0 34.0 14909.0 14909.0 844.0 271.0 1561.0 0 t 0 0 0 0 0 14909.0 490.0 195.0 5.0 298.0 14.0 14909.0 1280.0 60.0 0
MA1540.3_shift2 (NR5A1)				; oligos_7nt_mkv5_m3 versus MA1540.3 (NR5A1); m=5/11; ncol2=12; w=-2; offset=-2; strand=D; shift=2; score=0.624489; --agtTCAAGGtCA- ; cor=; Ncor= a 0 0 2945.0 708.0 376.0 160.0 72.0 4287.0 4340.0 106.0 87.0 389.0 67.0 4201.0 0 c 0 0 398.0 558.0 747.0 564.0 4316.0 193.0 86.0 45.0 53.0 964.0 4271.0 144.0 0 g 0 0 633.0 2825.0 729.0 130.0 189.0 125.0 160.0 4461.0 4440.0 171.0 112.0 154.0 0 t 0 0 721.0 606.0 2845.0 3843.0 120.0 92.0 111.0 85.0 117.0 3173.0 247.0 198.0 0
MA2338.1_shift7 (Ppara)				; oligos_7nt_mkv5_m3 versus MA2338.1 (Ppara); m=6/11; ncol2=7; w=0; offset=3; strand=D; shift=7; score= 0.4998; -------AAGGTCA- ; cor=; Ncor= a 0 0 0 0 0 0 0 16299.0 17009.0 258.0 354.0 259.0 440.0 13045.0 0 c 0 0 0 0 0 0 0 258.0 641.0 446.0 68.0 83.0 16858.0 2036.0 0 g 0 0 0 0 0 0 0 788.0 328.0 17024.0 17412.0 75.0 178.0 1148.0 0 t 0 0 0 0 0 0 0 833.0 200.0 450.0 344.0 17761.0 702.0 1949.0 0
MA1541.2_shift0 (NR6A1)				; oligos_7nt_mkv5_m3 versus MA1541.2 (NR6A1); m=7/11; ncol2=14; w=-4; offset=-4; strand=D; shift=0; score=0.492022; cAAGkTCAAGktCR- ; cor=; Ncor= a 124.0 896.0 896.0 13.0 19.0 1.0 7.0 896.0 896.0 21.0 29.0 91.0 39.0 896.0 0 c 896.0 4.0 91.0 9.0 12.0 74.0 896.0 0.0 96.0 15.0 11.0 185.0 896.0 20.0 0 g 342.0 44.0 72.0 896.0 443.0 26.0 29.0 2.0 35.0 896.0 524.0 355.0 109.0 359.0 0 t 132.0 11.0 51.0 62.0 453.0 896.0 40.0 14.0 65.0 62.0 373.0 896.0 254.0 41.0 0
MA1111.2_shift7 (NR2F2)				; oligos_7nt_mkv5_m3 versus MA1111.2 (NR2F2); m=8/11; ncol2=7; w=0; offset=3; strand=D; shift=7; score=0.484237; -------AAGGTCA- ; cor=; Ncor= a 0 0 0 0 0 0 0 1788.0 2084.0 37.0 33.0 17.0 30.0 2111.0 0 c 0 0 0 0 0 0 0 37.0 15.0 16.0 12.0 22.0 1978.0 16.0 0 g 0 0 0 0 0 0 0 173.0 82.0 2108.0 2132.0 30.0 26.0 43.0 0 t 0 0 0 0 0 0 0 206.0 23.0 43.0 27.0 2135.0 170.0 34.0 0
MA2336.1_shift7 (ZSCAN21)				; oligos_7nt_mkv5_m3 versus MA2336.1 (ZSCAN21); m=9/11; ncol2=7; w=0; offset=3; strand=D; shift=7; score=0.452596; -------AAGCACT- ; cor=; Ncor= a 0 0 0 0 0 0 0 703.0 896.0 28.0 17.0 893.0 25.0 37.0 0 c 0 0 0 0 0 0 0 124.0 16.0 25.0 744.0 21.0 881.0 9.0 0 g 0 0 0 0 0 0 0 55.0 25.0 853.0 32.0 22.0 30.0 16.0 0 t 0 0 0 0 0 0 0 65.0 10.0 41.0 154.0 11.0 11.0 885.0 0
MA2337.1_shift8 (Nr1h3)				; oligos_7nt_mkv5_m3 versus MA2337.1 (Nr1h3); m=10/11; ncol2=6; w=0; offset=4; strand=D; shift=8; score=0.422674; --------AGGkCA- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 3796.0 0.0 2.0 10.0 5.0 3836.0 0 c 0 0 0 0 0 0 0 0 31.0 27.0 17.0 5.0 3851.0 6.0 0 g 0 0 0 0 0 0 0 0 35.0 3832.0 3839.0 1600.0 1.0 19.0 0 t 0 0 0 0 0 0 0 0 0.0 3.0 4.0 2247.0 5.0 1.0 0
MA1581.2_rc_shift2 (ZBTB6_rc)				; oligos_7nt_mkv5_m3 versus MA1581.2_rc (ZBTB6_rc); m=11/11; ncol2=9; w=-2; offset=-2; strand=R; shift=2; score=0.407037; --GGCTCAAGs---- ; cor=; Ncor= a 0 0 223.0 46.0 14.0 21.0 7.0 1566.0 2042.0 28.0 165.0 0 0 0 0 c 0 0 88.0 38.0 2135.0 20.0 2148.0 409.0 52.0 25.0 593.0 0 0 0 0 g 0 0 1814.0 2087.0 20.0 28.0 59.0 45.0 104.0 2080.0 1157.0 0 0 0 0 t 0 0 102.0 56.0 58.0 2158.0 13.0 207.0 29.0 94.0 312.0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv4_m5_shift0 (oligos_6nt_mkv4_m5)				; oligos_6nt_mkv4_m5; m=0 (reference); ncol1=17; shift=0; ncol=17; sTGAGTTCmAGGmCAGC ; Alignment reference a 398 315 375 2863 185 93 41 22 1837 3013 56 53 930 47 2900 328 267 c 1195 290 96 72 94 104 70 2990 873 18 16 13 1363 2847 55 180 2282 g 1245 293 2550 88 2763 99 28 32 277 56 2996 2999 69 49 53 2293 206 t 268 2208 85 83 64 2810 2967 62 119 19 38 41 744 163 98 305 351
MA1540.3_shift3 (NR5A1)				; oligos_6nt_mkv4_m5 versus MA1540.3 (NR5A1); m=1/7; ncol2=12; w=0; offset=3; strand=D; shift=3; score=0.659398; ---agtTCAAGGtCA-- ; cor=; Ncor= a 0 0 0 2945.0 708.0 376.0 160.0 72.0 4287.0 4340.0 106.0 87.0 389.0 67.0 4201.0 0 0 c 0 0 0 398.0 558.0 747.0 564.0 4316.0 193.0 86.0 45.0 53.0 964.0 4271.0 144.0 0 0 g 0 0 0 633.0 2825.0 729.0 130.0 189.0 125.0 160.0 4461.0 4440.0 171.0 112.0 154.0 0 0 t 0 0 0 721.0 606.0 2845.0 3843.0 120.0 92.0 111.0 85.0 117.0 3173.0 247.0 198.0 0 0
MA1541.2_shift1 (NR6A1)				; oligos_6nt_mkv4_m5 versus MA1541.2 (NR6A1); m=2/7; ncol2=14; w=0; offset=1; strand=D; shift=1; score=0.611578; -cAAGkTCAAGktCR-- ; cor=; Ncor= a 0 124.0 896.0 896.0 13.0 19.0 1.0 7.0 896.0 896.0 21.0 29.0 91.0 39.0 896.0 0 0 c 0 896.0 4.0 91.0 9.0 12.0 74.0 896.0 0.0 96.0 15.0 11.0 185.0 896.0 20.0 0 0 g 0 342.0 44.0 72.0 896.0 443.0 26.0 29.0 2.0 35.0 896.0 524.0 355.0 109.0 359.0 0 0 t 0 132.0 11.0 51.0 62.0 453.0 896.0 40.0 14.0 65.0 62.0 373.0 896.0 254.0 41.0 0 0
MA0505.3_rc_shift6 (Nr5A2_rc)				; oligos_6nt_mkv4_m5 versus MA0505.3_rc (Nr5A2_rc); m=3/7; ncol2=9; w=0; offset=6; strand=R; shift=6; score=0.498201; ------TCAAGGtCA-- ; cor=; Ncor= a 0 0 0 0 0 0 1125.0 322.0 29653.0 29125.0 343.0 237.0 2733.0 483.0 21101.0 0 0 c 0 0 0 0 0 0 2402.0 29010.0 285.0 359.0 166.0 124.0 6736.0 27158.0 2303.0 0 0 g 0 0 0 0 0 0 645.0 870.0 338.0 694.0 29734.0 29854.0 1185.0 869.0 3118.0 0 0 t 0 0 0 0 0 0 26370.0 340.0 266.0 364.0 299.0 327.0 19888.0 2032.0 4020.0 0 0
MA0141.4_shift6 (ESRRB)				; oligos_6nt_mkv4_m5 versus MA0141.4 (ESRRB); m=4/7; ncol2=10; w=0; offset=6; strand=D; shift=6; score=0.489791; ------TCAAGGTCAw- ; cor=; Ncor= a 0 0 0 0 0 0 108.0 9.0 1746.0 1746.0 3.0 1.0 6.0 2.0 1746.0 702.0 0 c 0 0 0 0 0 0 373.0 1746.0 1.0 1.0 2.0 4.0 11.0 1746.0 0.0 256.0 0 g 0 0 0 0 0 0 75.0 255.0 0.0 3.0 1746.0 1746.0 8.0 1.0 56.0 42.0 0 t 0 0 0 0 0 0 1746.0 7.0 4.0 0.0 1.0 3.0 1746.0 15.0 3.0 1045.0 0
MA0592.4_shift6 (ESRRA)				; oligos_6nt_mkv4_m5 versus MA0592.4 (ESRRA); m=5/7; ncol2=9; w=0; offset=6; strand=D; shift=6; score=0.470455; ------tCAAGGTCA-- ; cor=; Ncor= a 0 0 0 0 0 0 2305.0 972.0 24681.0 24744.0 480.0 223.0 1003.0 293.0 24648.0 0 0 c 0 0 0 0 0 0 6446.0 21854.0 355.0 415.0 340.0 146.0 379.0 23989.0 226.0 0 0 g 0 0 0 0 0 0 1850.0 2323.0 556.0 569.0 24676.0 25332.0 949.0 786.0 781.0 0 0 t 0 0 0 0 0 0 15394.0 846.0 403.0 267.0 499.0 294.0 23664.0 927.0 340.0 0 0
MA0071.1_shift5 (RORA)				; oligos_6nt_mkv4_m5 versus MA0071.1 (RORA); m=6/7; ncol2=10; w=0; offset=5; strand=D; shift=5; score=0.455443; -----wwcwAGGTCA-- ; cor=; Ncor= a 0 0 0 0 0 15.0 9.0 6.0 11.0 21.0 0.0 0.0 0.0 0.0 25.0 0 0 c 0 0 0 0 0 1.0 1.0 12.0 2.0 0.0 0.0 0.0 0.0 25.0 0.0 0 0 g 0 0 0 0 0 2.0 0.0 4.0 5.0 4.0 25.0 25.0 0.0 0.0 0.0 0 0 t 0 0 0 0 0 7.0 15.0 3.0 7.0 0.0 0.0 0.0 25.0 0.0 0.0 0 0
MA0643.2_shift6 (Esrrg)				; oligos_6nt_mkv4_m5 versus MA0643.2 (Esrrg); m=7/7; ncol2=9; w=0; offset=6; strand=D; shift=6; score=0.455387; ------tsAAGGTCA-- ; cor=; Ncor= a 0 0 0 0 0 0 3489.0 705.0 14909.0 14909.0 12.0 0.0 472.0 7.0 14909.0 0 0 c 0 0 0 0 0 0 5974.0 10009.0 0.0 12.0 7.0 17.0 41.0 14909.0 34.0 0 0 g 0 0 0 0 0 0 2800.0 4901.0 603.0 34.0 14909.0 14909.0 844.0 271.0 1561.0 0 0 t 0 0 0 0 0 0 14909.0 490.0 195.0 5.0 298.0 14.0 14909.0 1280.0 60.0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv4_m1_shift0 (oligos_6nt_mkv4_m1)				; oligos_6nt_mkv4_m1; m=0 (reference); ncol1=18; shift=0; ncol=18; sTGAGTTCmAGGmCAGCC ; Alignment reference a 442 339 396 3070 239 92 61 48 1953 3268 91 67 932 54 3240 317 294 248 c 1338 312 139 85 116 175 111 3093 924 28 20 40 2069 3155 45 243 2455 2554 g 1308 364 2735 112 2960 145 67 86 418 55 3262 3246 67 26 56 2549 252 234 t 317 2390 135 138 90 2993 3166 178 110 54 32 52 337 170 64 296 404 369
MA1540.3_shift3 (NR5A1)				; oligos_6nt_mkv4_m1 versus MA1540.3 (NR5A1); m=1/8; ncol2=12; w=0; offset=3; strand=D; shift=3; score=0.610665; ---agtTCAAGGtCA--- ; cor=; Ncor= a 0 0 0 2945.0 708.0 376.0 160.0 72.0 4287.0 4340.0 106.0 87.0 389.0 67.0 4201.0 0 0 0 c 0 0 0 398.0 558.0 747.0 564.0 4316.0 193.0 86.0 45.0 53.0 964.0 4271.0 144.0 0 0 0 g 0 0 0 633.0 2825.0 729.0 130.0 189.0 125.0 160.0 4461.0 4440.0 171.0 112.0 154.0 0 0 0 t 0 0 0 721.0 606.0 2845.0 3843.0 120.0 92.0 111.0 85.0 117.0 3173.0 247.0 198.0 0 0 0
MA1541.2_shift1 (NR6A1)				; oligos_6nt_mkv4_m1 versus MA1541.2 (NR6A1); m=2/8; ncol2=14; w=0; offset=1; strand=D; shift=1; score=0.562082; -cAAGkTCAAGktCR--- ; cor=; Ncor= a 0 124.0 896.0 896.0 13.0 19.0 1.0 7.0 896.0 896.0 21.0 29.0 91.0 39.0 896.0 0 0 0 c 0 896.0 4.0 91.0 9.0 12.0 74.0 896.0 0.0 96.0 15.0 11.0 185.0 896.0 20.0 0 0 0 g 0 342.0 44.0 72.0 896.0 443.0 26.0 29.0 2.0 35.0 896.0 524.0 355.0 109.0 359.0 0 0 0 t 0 132.0 11.0 51.0 62.0 453.0 896.0 40.0 14.0 65.0 62.0 373.0 896.0 254.0 41.0 0 0 0
MA0505.3_rc_shift6 (Nr5A2_rc)				; oligos_6nt_mkv4_m1 versus MA0505.3_rc (Nr5A2_rc); m=3/8; ncol2=9; w=0; offset=6; strand=R; shift=6; score=0.457413; ------TCAAGGtCA--- ; cor=; Ncor= a 0 0 0 0 0 0 1125.0 322.0 29653.0 29125.0 343.0 237.0 2733.0 483.0 21101.0 0 0 0 c 0 0 0 0 0 0 2402.0 29010.0 285.0 359.0 166.0 124.0 6736.0 27158.0 2303.0 0 0 0 g 0 0 0 0 0 0 645.0 870.0 338.0 694.0 29734.0 29854.0 1185.0 869.0 3118.0 0 0 0 t 0 0 0 0 0 0 26370.0 340.0 266.0 364.0 299.0 327.0 19888.0 2032.0 4020.0 0 0 0
MA0141.4_shift6 (ESRRB)				; oligos_6nt_mkv4_m1 versus MA0141.4 (ESRRB); m=4/8; ncol2=10; w=0; offset=6; strand=D; shift=6; score=0.442014; ------TCAAGGTCAw-- ; cor=; Ncor= a 0 0 0 0 0 0 108.0 9.0 1746.0 1746.0 3.0 1.0 6.0 2.0 1746.0 702.0 0 0 c 0 0 0 0 0 0 373.0 1746.0 1.0 1.0 2.0 4.0 11.0 1746.0 0.0 256.0 0 0 g 0 0 0 0 0 0 75.0 255.0 0.0 3.0 1746.0 1746.0 8.0 1.0 56.0 42.0 0 0 t 0 0 0 0 0 0 1746.0 7.0 4.0 0.0 1.0 3.0 1746.0 15.0 3.0 1045.0 0 0
MA1973.2_shift6 (ZKSCAN3)				; oligos_6nt_mkv4_m1 versus MA1973.2 (ZKSCAN3); m=5/8; ncol2=14; w=0; offset=6; strand=D; shift=6; score=0.431612; ------CCcAGGCTAGCC ; cor=; Ncor= a 0 0 0 0 0 0 23.0 17.0 36.0 188.0 6.0 0.0 5.0 2.0 197.0 3.0 36.0 0.0 c 0 0 0 0 0 0 149.0 152.0 115.0 2.0 1.0 5.0 183.0 6.0 3.0 6.0 168.0 193.0 g 0 0 0 0 0 0 17.0 15.0 38.0 19.0 201.0 203.0 4.0 2.0 8.0 188.0 4.0 1.0 t 0 0 0 0 0 0 21.0 26.0 21.0 1.0 2.0 2.0 18.0 200.0 2.0 13.0 2.0 16.0
MA0592.4_shift6 (ESRRA)				; oligos_6nt_mkv4_m1 versus MA0592.4 (ESRRA); m=6/8; ncol2=9; w=0; offset=6; strand=D; shift=6; score=0.426833; ------tCAAGGTCA--- ; cor=; Ncor= a 0 0 0 0 0 0 2305.0 972.0 24681.0 24744.0 480.0 223.0 1003.0 293.0 24648.0 0 0 0 c 0 0 0 0 0 0 6446.0 21854.0 355.0 415.0 340.0 146.0 379.0 23989.0 226.0 0 0 0 g 0 0 0 0 0 0 1850.0 2323.0 556.0 569.0 24676.0 25332.0 949.0 786.0 781.0 0 0 0 t 0 0 0 0 0 0 15394.0 846.0 403.0 267.0 499.0 294.0 23664.0 927.0 340.0 0 0 0
MA0071.1_shift5 (RORA)				; oligos_6nt_mkv4_m1 versus MA0071.1 (RORA); m=7/8; ncol2=10; w=0; offset=5; strand=D; shift=5; score=0.414107; -----wwcwAGGTCA--- ; cor=; Ncor= a 0 0 0 0 0 15.0 9.0 6.0 11.0 21.0 0.0 0.0 0.0 0.0 25.0 0 0 0 c 0 0 0 0 0 1.0 1.0 12.0 2.0 0.0 0.0 0.0 0.0 25.0 0.0 0 0 0 g 0 0 0 0 0 2.0 0.0 4.0 5.0 4.0 25.0 25.0 0.0 0.0 0.0 0 0 0 t 0 0 0 0 0 7.0 15.0 3.0 7.0 0.0 0.0 0.0 25.0 0.0 0.0 0 0 0
MA0643.2_shift6 (Esrrg)				; oligos_6nt_mkv4_m1 versus MA0643.2 (Esrrg); m=8/8; ncol2=9; w=0; offset=6; strand=D; shift=6; score=0.41339; ------tsAAGGTCA--- ; cor=; Ncor= a 0 0 0 0 0 0 3489.0 705.0 14909.0 14909.0 12.0 0.0 472.0 7.0 14909.0 0 0 0 c 0 0 0 0 0 0 5974.0 10009.0 0.0 12.0 7.0 17.0 41.0 14909.0 34.0 0 0 0 g 0 0 0 0 0 0 2800.0 4901.0 603.0 34.0 14909.0 14909.0 844.0 271.0 1561.0 0 0 0 t 0 0 0 0 0 0 14909.0 490.0 195.0 5.0 298.0 14.0 14909.0 1280.0 60.0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m2_shift0 (oligos_7nt_mkv5_m2)				; oligos_7nt_mkv5_m2; m=0 (reference); ncol1=18; shift=0; ncol=18; GCTGkCCTkGAACTCAsw ; Alignment reference a 323 275 75 152 322 47 29 19 84 102 2865 2782 47 99 105 2224 240 1448 c 181 2247 54 20 62 2833 2859 44 346 39 19 74 2739 67 2365 258 1115 185 g 2258 158 61 2769 1765 31 14 23 781 2804 56 73 41 46 126 254 1256 328 t 207 289 2779 28 820 58 67 2883 1758 24 29 40 142 2757 373 233 358 1008
MA1540.3_rc_shift2 (NR5A1_rc)				; oligos_7nt_mkv5_m2 versus MA1540.3_rc (NR5A1_rc); m=1/7; ncol2=12; w=0; offset=2; strand=R; shift=2; score=0.609664; --TGaCCTTGAact---- ; cor=; Ncor= a 0 0 198.0 247.0 3173.0 117.0 85.0 111.0 92.0 120.0 3843.0 2845.0 606.0 721.0 0 0 0 0 c 0 0 154.0 112.0 171.0 4440.0 4461.0 160.0 125.0 189.0 130.0 729.0 2825.0 633.0 0 0 0 0 g 0 0 144.0 4271.0 964.0 53.0 45.0 86.0 193.0 4316.0 564.0 747.0 558.0 398.0 0 0 0 0 t 0 0 4201.0 67.0 389.0 87.0 106.0 4340.0 4287.0 72.0 160.0 376.0 708.0 2945.0 0 0 0 0
MA1541.2_rc_shift2 (NR6A1_rc)				; oligos_7nt_mkv5_m2 versus MA1541.2_rc (NR6A1_rc); m=2/7; ncol2=14; w=0; offset=2; strand=R; shift=2; score=0.56678; --YGamCTTGAmCTTg-- ; cor=; Ncor= a 0 0 41.0 254.0 896.0 373.0 62.0 65.0 14.0 40.0 896.0 453.0 62.0 51.0 11.0 132.0 0 0 c 0 0 359.0 109.0 355.0 524.0 896.0 35.0 2.0 29.0 26.0 443.0 896.0 72.0 44.0 342.0 0 0 g 0 0 20.0 896.0 185.0 11.0 15.0 96.0 0.0 896.0 74.0 12.0 9.0 91.0 4.0 896.0 0 0 t 0 0 896.0 39.0 91.0 29.0 21.0 896.0 896.0 7.0 1.0 19.0 13.0 896.0 896.0 124.0 0 0
MA0505.3_shift2 (Nr5A2)				; oligos_7nt_mkv5_m2 versus MA0505.3 (Nr5A2); m=3/7; ncol2=9; w=0; offset=2; strand=D; shift=2; score=0.460247; --TGaCCTTGA------- ; cor=; Ncor= a 0 0 4020.0 2032.0 19888.0 327.0 299.0 364.0 266.0 340.0 26370.0 0 0 0 0 0 0 0 c 0 0 3118.0 869.0 1185.0 29854.0 29734.0 694.0 338.0 870.0 645.0 0 0 0 0 0 0 0 g 0 0 2303.0 27158.0 6736.0 124.0 166.0 359.0 285.0 29010.0 2402.0 0 0 0 0 0 0 0 t 0 0 21101.0 483.0 2733.0 237.0 343.0 29125.0 29653.0 322.0 1125.0 0 0 0 0 0 0 0
MA0141.4_rc_shift1 (ESRRB_rc)				; oligos_7nt_mkv5_m2 versus MA0141.4_rc (ESRRB_rc); m=4/7; ncol2=10; w=0; offset=1; strand=R; shift=1; score=0.44421; -wTGACCTTGA------- ; cor=; Ncor= a 0 1045.0 3.0 15.0 1746.0 3.0 1.0 0.0 4.0 7.0 1746.0 0 0 0 0 0 0 0 c 0 42.0 56.0 1.0 8.0 1746.0 1746.0 3.0 0.0 255.0 75.0 0 0 0 0 0 0 0 g 0 256.0 0.0 1746.0 11.0 4.0 2.0 1.0 1.0 1746.0 373.0 0 0 0 0 0 0 0 t 0 702.0 1746.0 2.0 6.0 1.0 3.0 1746.0 1746.0 9.0 108.0 0 0 0 0 0 0 0
MA0592.4_rc_shift2 (ESRRA_rc)				; oligos_7nt_mkv5_m2 versus MA0592.4_rc (ESRRA_rc); m=5/7; ncol2=9; w=0; offset=2; strand=R; shift=2; score=0.428069; --TGACCTTGa------- ; cor=; Ncor= a 0 0 340.0 927.0 23664.0 294.0 499.0 267.0 403.0 846.0 15394.0 0 0 0 0 0 0 0 c 0 0 781.0 786.0 949.0 25332.0 24676.0 569.0 556.0 2323.0 1850.0 0 0 0 0 0 0 0 g 0 0 226.0 23989.0 379.0 146.0 340.0 415.0 355.0 21854.0 6446.0 0 0 0 0 0 0 0 t 0 0 24648.0 293.0 1003.0 223.0 480.0 24744.0 24681.0 972.0 2305.0 0 0 0 0 0 0 0
MA0643.2_rc_shift2 (Esrrg_rc)				; oligos_7nt_mkv5_m2 versus MA0643.2_rc (Esrrg_rc); m=6/7; ncol2=9; w=0; offset=2; strand=R; shift=2; score=0.413915; --TGACCTTsa------- ; cor=; Ncor= a 0 0 60.0 1280.0 14909.0 14.0 298.0 5.0 195.0 490.0 14909.0 0 0 0 0 0 0 0 c 0 0 1561.0 271.0 844.0 14909.0 14909.0 34.0 603.0 4901.0 2800.0 0 0 0 0 0 0 0 g 0 0 34.0 14909.0 41.0 17.0 7.0 12.0 0.0 10009.0 5974.0 0 0 0 0 0 0 0 t 0 0 14909.0 7.0 472.0 0.0 12.0 14909.0 14909.0 705.0 3489.0 0 0 0 0 0 0 0
MA0071.1_rc_shift2 (RORA_rc)				; oligos_7nt_mkv5_m2 versus MA0071.1_rc (RORA_rc); m=7/7; ncol2=10; w=0; offset=2; strand=R; shift=2; score=0.410701; --TGACCTwgww------ ; cor=; Ncor= a 0 0 0.0 0.0 25.0 0.0 0.0 0.0 7.0 3.0 15.0 7.0 0 0 0 0 0 0 c 0 0 0.0 0.0 0.0 25.0 25.0 4.0 5.0 4.0 0.0 2.0 0 0 0 0 0 0 g 0 0 0.0 25.0 0.0 0.0 0.0 0.0 2.0 12.0 1.0 1.0 0 0 0 0 0 0 t 0 0 25.0 0.0 0.0 0.0 0.0 21.0 11.0 6.0 9.0 15.0 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m4_shift6 (oligos_7nt_mkv5_m4)				; oligos_7nt_mkv5_m4; m=0 (reference); ncol1=11; shift=6; ncol=17; ------bsCGGCTGCsk ; Alignment reference a 0 0 0 0 0 0 376 343 61 81 70 42 157 63 83 414 398 c 0 0 0 0 0 0 1071 1112 2778 244 514 2843 324 194 2692 1150 751 g 0 0 0 0 0 0 770 1139 118 2607 2340 92 347 2635 117 904 1082 t 0 0 0 0 0 0 791 414 51 76 84 31 2180 116 116 540 777
MA0048.3_shift6 (NHLH1)				; oligos_7nt_mkv5_m4 versus MA0048.3 (NHLH1); m=1/14; ncol2=9; w=0; offset=0; strand=D; shift=6; score=0.60439; ------cGCAGCTGC-- ; cor=; Ncor= a 0 0 0 0 0 0 788.0 461.0 3.0 2166.0 0.0 96.0 0.0 2.0 296.0 0 0 c 0 0 0 0 0 0 2166.0 179.0 2166.0 3.0 301.0 2166.0 4.0 4.0 2166.0 0 0 g 0 0 0 0 0 0 181.0 2166.0 0.0 1.0 2166.0 124.0 4.0 2166.0 102.0 0 0 t 0 0 0 0 0 0 111.0 142.0 0.0 0.0 114.0 0.0 2166.0 1.0 350.0 0 0
MA1721.2_shift3 (ZNF93)				; oligos_7nt_mkv5_m4 versus MA1721.2 (ZNF93); m=2/14; ncol2=14; w=-3; offset=-3; strand=D; shift=3; score=0.568427; ---gGyrkCrGCAGCGG ; cor=; Ncor= a 0 0 0 467.0 175.0 117.0 1455.0 61.0 38.0 1001.0 18.0 23.0 1659.0 30.0 19.0 340.0 72.0 c 0 0 0 279.0 233.0 1120.0 177.0 114.0 2278.0 92.0 26.0 2279.0 96.0 20.0 2292.0 138.0 134.0 g 0 0 0 1499.0 1857.0 211.0 663.0 1483.0 22.0 1263.0 2334.0 42.0 576.0 2328.0 33.0 1784.0 2145.0 t 0 0 0 143.0 123.0 940.0 93.0 730.0 50.0 32.0 10.0 44.0 57.0 10.0 44.0 126.0 37.0
MA0500.3_shift7 (MYOG)				; oligos_7nt_mkv5_m4 versus MA0500.3 (MYOG); m=3/14; ncol2=8; w=0; offset=1; strand=D; shift=7; score=0.532783; -------rCAGCTGy-- ; cor=; Ncor= a 0 0 0 0 0 0 0 7159.0 86.0 21782.0 95.0 167.0 163.0 182.0 1667.0 0 0 c 0 0 0 0 0 0 0 2730.0 21988.0 176.0 130.0 21964.0 238.0 102.0 10792.0 0 0 g 0 0 0 0 0 0 0 10790.0 101.0 236.0 21963.0 131.0 179.0 21985.0 2706.0 0 0 t 0 0 0 0 0 0 0 1678.0 182.0 163.0 169.0 95.0 21777.0 88.0 7192.0 0 0
MA1728.2_shift9 (ZNF549)				; oligos_7nt_mkv5_m4 versus MA1728.2 (ZNF549); m=4/14; ncol2=8; w=0; offset=3; strand=D; shift=9; score=0.532689; ---------TGCTGCCC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 483.0 72.0 50.0 229.0 28.0 55.0 106.0 183.0 c 0 0 0 0 0 0 0 0 0 349.0 161.0 4622.0 175.0 80.0 4364.0 4435.0 4133.0 g 0 0 0 0 0 0 0 0 0 498.0 4489.0 77.0 128.0 4566.0 177.0 98.0 75.0 t 0 0 0 0 0 0 0 0 0 3497.0 105.0 78.0 4295.0 153.0 231.0 188.0 436.0
MA1100.3_shift7 (ASCL1)				; oligos_7nt_mkv5_m4 versus MA1100.3 (ASCL1); m=5/14; ncol2=8; w=0; offset=1; strand=D; shift=7; score=0.520121; -------rCAGCTGc-- ; cor=; Ncor= a 0 0 0 0 0 0 0 1334.0 0.0 4413.0 107.0 729.0 118.0 52.0 177.0 0 0 c 0 0 0 0 0 0 0 521.0 4413.0 157.0 1288.0 4413.0 24.0 0.0 3065.0 0 0 g 0 0 0 0 0 0 0 3079.0 0.0 60.0 4413.0 1320.0 121.0 4413.0 814.0 0 0 t 0 0 0 0 0 0 0 354.0 14.0 218.0 625.0 20.0 4413.0 29.0 1349.0 0 0
MA1529.2_shift3 (NHLH2)				; oligos_7nt_mkv5_m4 versus MA1529.2 (NHLH2); m=6/14; ncol2=16; w=-3; offset=-3; strand=D; shift=3; score=0.48217; ---gGyMGCAGCTGCGy ; cor=; Ncor= a 0 0 0 4312.0 3741.0 4921.0 5603.0 2378.0 2.0 21364.0 6.0 525.0 0.0 0.0 693.0 210.0 1184.0 c 0 0 0 2219.0 1065.0 6141.0 15451.0 2324.0 21359.0 0.0 2459.0 20268.0 14.0 2.0 20611.0 204.0 7207.0 g 0 0 0 13903.0 18450.0 4908.0 671.0 18930.0 2.0 26.0 20096.0 2266.0 3.0 21363.0 275.0 20977.0 1520.0 t 0 0 0 5198.0 2763.0 5394.0 151.0 2634.0 5.0 1.0 1054.0 0.0 21358.0 0.0 1230.0 740.0 13503.0
MA0697.3_rc_shift7 (Zic3_rc)				; oligos_7nt_mkv5_m4 versus MA0697.3_rc (Zic3_rc); m=7/14; ncol2=7; w=0; offset=1; strand=R; shift=7; score=0.46931; -------CCTGCTG--- ; cor=; Ncor= a 0 0 0 0 0 0 0 532.0 967.0 858.0 792.0 266.0 596.0 334.0 0 0 0 c 0 0 0 0 0 0 0 24340.0 24314.0 1768.0 756.0 24907.0 759.0 460.0 0 0 0 g 0 0 0 0 0 0 0 955.0 500.0 568.0 24272.0 670.0 872.0 25035.0 0 0 0 t 0 0 0 0 0 0 0 347.0 393.0 22980.0 354.0 331.0 23947.0 345.0 0 0 0
MA1628.2_rc_shift7 (Zic1::Zic2_rc)				; oligos_7nt_mkv5_m4 versus MA1628.2_rc (Zic1::Zic2_rc); m=8/14; ncol2=7; w=0; offset=1; strand=R; shift=7; score=0.466685; -------CCTGCTG--- ; cor=; Ncor= a 0 0 0 0 0 0 0 124.0 90.0 4.0 428.0 74.0 4.0 163.0 0 0 0 c 0 0 0 0 0 0 0 9631.0 9279.0 627.0 96.0 9527.0 266.0 106.0 0 0 0 g 0 0 0 0 0 0 0 91.0 512.0 311.0 9293.0 195.0 384.0 9594.0 0 0 0 t 0 0 0 0 0 0 0 46.0 11.0 8950.0 75.0 96.0 9238.0 29.0 0 0 0
MA1997.2_shift8 (Olig2)				; oligos_7nt_mkv5_m4 versus MA1997.2 (Olig2); m=9/14; ncol2=6; w=0; offset=2; strand=D; shift=8; score=0.417324; --------CAGCTG--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 10.0 59733.0 14.0 41.0 0.0 50.0 0 0 0 c 0 0 0 0 0 0 0 0 60968.0 668.0 18.0 61069.0 741.0 114.0 0 0 0 g 0 0 0 0 0 0 0 0 114.0 741.0 61069.0 18.0 668.0 60968.0 0 0 0 t 0 0 0 0 0 0 0 0 50.0 0.0 41.0 14.0 59733.0 10.0 0 0 0
MA1938.2_rc_shift0 (ERF::NHLH1_rc)				; oligos_7nt_mkv5_m4 versus MA1938.2_rc (ERF::NHLH1_rc); m=10/14; ncol2=16; w=-6; offset=-6; strand=R; shift=0; score=0.416239; ryWTCCGGCAGCTGCt- ; cor=; Ncor= a 210.0 40.0 84.0 12.0 26.0 7.0 1.0 8.0 15.0 324.0 8.0 28.0 0.0 18.0 21.0 7.0 0 c 16.0 176.0 11.0 3.0 313.0 325.0 11.0 6.0 317.0 13.0 2.0 288.0 0.0 14.0 290.0 81.0 0 g 108.0 3.0 0.0 21.0 10.0 0.0 327.0 316.0 12.0 20.0 301.0 11.0 0.0 317.0 14.0 81.0 0 t 0.0 113.0 241.0 324.0 4.0 27.0 12.0 0.0 1.0 10.0 26.0 1.0 324.0 5.0 0.0 156.0 0
MA1993.2_shift8 (Neurod2)				; oligos_7nt_mkv5_m4 versus MA1993.2 (Neurod2); m=11/14; ncol2=6; w=0; offset=2; strand=D; shift=8; score= 0.416; --------CAGCTG--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 14.0 53280.0 8.0 17.0 0.0 39.0 0 0 0 c 0 0 0 0 0 0 0 0 53913.0 310.0 15.0 53984.0 434.0 58.0 0 0 0 g 0 0 0 0 0 0 0 0 58.0 434.0 53984.0 15.0 310.0 53913.0 0 0 0 t 0 0 0 0 0 0 0 0 39.0 0.0 17.0 8.0 53280.0 14.0 0 0 0
MA0633.3_shift8 (Twist2)				; oligos_7nt_mkv5_m4 versus MA0633.3 (Twist2); m=12/14; ncol2=6; w=0; offset=2; strand=D; shift=8; score=0.415902; --------CAGCTG--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 15.0 48915.0 9.0 21.0 0.0 60.0 0 0 0 c 0 0 0 0 0 0 0 0 49473.0 345.0 16.0 49583.0 369.0 81.0 0 0 0 g 0 0 0 0 0 0 0 0 81.0 369.0 49583.0 16.0 342.0 49473.0 0 0 0 t 0 0 0 0 0 0 0 0 60.0 0.0 21.0 9.0 48918.0 15.0 0 0 0
MA1635.2_shift8 (BHLHE22)				; oligos_7nt_mkv5_m4 versus MA1635.2 (BHLHE22); m=13/14; ncol2=6; w=0; offset=2; strand=D; shift=8; score=0.414403; --------CAGCTG--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0.0 18267.0 1.0 14.0 0.0 14.0 0 0 0 c 0 0 0 0 0 0 0 0 18331.0 37.0 53.0 18288.0 52.0 15.0 0 0 0 g 0 0 0 0 0 0 0 0 11.0 52.0 18288.0 53.0 37.0 18327.0 0 0 0 t 0 0 0 0 0 0 0 0 14.0 0.0 14.0 1.0 18267.0 0.0 0 0 0
MA0521.3_shift8 (Tcf12)				; oligos_7nt_mkv5_m4 versus MA0521.3 (Tcf12); m=14/14; ncol2=6; w=0; offset=2; strand=D; shift=8; score=0.412347; --------CAGCTG--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 367.0 72283.0 836.0 1565.0 341.0 549.0 0 0 0 c 0 0 0 0 0 0 0 0 72674.0 739.0 1814.0 69780.0 632.0 402.0 0 0 0 g 0 0 0 0 0 0 0 0 404.0 632.0 69780.0 1814.0 738.0 72670.0 0 0 0 t 0 0 0 0 0 0 0 0 550.0 341.0 1565.0 836.0 72284.0 374.0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv4_m4_shift3 (oligos_6nt_mkv4_m4)				; oligos_6nt_mkv4_m4; m=0 (reference); ncol1=10; shift=3; ncol=13; ---srCGCaCGss ; Alignment reference a 0 0 0 469 863 68 219 80 1797 41 87 365 530 c 0 0 0 1350 736 3100 76 3047 650 3087 88 1525 1305 g 0 0 0 991 1359 80 2964 154 646 92 3102 897 1082 t 0 0 0 525 377 87 76 54 242 115 58 548 418
MA2325.1_shift5 (EPAS1)				; oligos_6nt_mkv4_m4 versus MA2325.1 (EPAS1); m=1/25; ncol2=9; w=0; offset=2; strand=D; shift=5; score=0.579609; -----cGCACGTm ; cor=; Ncor= a 0 0 0 0 0 73.0 28.0 1.0 620.0 2.0 7.0 5.0 410.0 c 0 0 0 0 0 352.0 23.0 635.0 4.0 629.0 2.0 36.0 174.0 g 0 0 0 0 0 115.0 545.0 1.0 15.0 6.0 626.0 16.0 43.0 t 0 0 0 0 0 100.0 44.0 3.0 1.0 3.0 5.0 583.0 13.0
MA0162.5_shift2 (EGR1)				; oligos_6nt_mkv4_m4 versus MA0162.5 (EGR1); m=2/25; ncol2=10; w=-1; offset=-1; strand=D; shift=2; score=0.578742; --mCGCCCACgC- ; cor=; Ncor= a 0 0 14508.0 642.0 5110.0 227.0 1440.0 314.0 22297.0 153.0 4696.0 969.0 0 c 0 0 10303.0 28403.0 1131.0 29338.0 27321.0 28958.0 5420.0 29507.0 2806.0 25196.0 0 g 0 0 3854.0 756.0 22237.0 665.0 1455.0 698.0 2122.0 699.0 20544.0 2157.0 0 t 0 0 1933.0 797.0 2120.0 368.0 382.0 628.0 759.0 239.0 2552.0 2276.0 0
MA0632.3_shift4 (TCFL5)				; oligos_6nt_mkv4_m4 versus MA0632.3 (TCFL5); m=3/25; ncol2=8; w=0; offset=1; strand=D; shift=4; score=0.561887; ----kCrCGCGC- ; cor=; Ncor= a 0 0 0 0 2810.0 0.0 72543.0 0.0 1566.0 1765.0 3520.0 1593.0 0 c 0 0 0 0 10582.0 72543.0 0.0 72543.0 0.0 57092.0 657.0 72543.0 0 g 0 0 0 0 22297.0 0.0 29710.0 0.0 72543.0 0.0 72543.0 4594.0 0 t 0 0 0 0 36854.0 0.0 9359.0 1643.0 0.0 15451.0 0.0 635.0 0
MA1650.2_shift2 (ZBTB14)				; oligos_6nt_mkv4_m4 versus MA1650.2 (ZBTB14); m=4/25; ncol2=8; w=-1; offset=-1; strand=D; shift=2; score=0.550141; --CCGCGCAC--- ; cor=; Ncor= a 0 0 335.0 41.0 93.0 68.0 132.0 56.0 4500.0 99.0 0 0 0 c 0 0 3525.0 4292.0 294.0 4078.0 305.0 4178.0 37.0 3674.0 0 0 0 g 0 0 614.0 155.0 4098.0 319.0 4043.0 261.0 10.0 651.0 0 0 0 t 0 0 73.0 59.0 62.0 82.0 67.0 52.0 0.0 123.0 0 0 0
MA0506.3_rc_shift4 (Nrf1_rc)				; oligos_6nt_mkv4_m4 versus MA0506.3_rc (Nrf1_rc); m=5/25; ncol2=12; w=0; offset=1; strand=R; shift=4; score=0.531355; ----gCGCAkGCG ; cor=; Ncor= a 0 0 0 0 2834.0 710.0 254.0 86.0 11578.0 408.0 234.0 224.0 195.0 c 0 0 0 0 1008.0 11169.0 201.0 12324.0 446.0 2514.0 510.0 12026.0 343.0 g 0 0 0 0 8461.0 576.0 12143.0 251.0 577.0 5475.0 11838.0 193.0 11783.0 t 0 0 0 0 426.0 274.0 131.0 68.0 128.0 4332.0 147.0 286.0 408.0
MA1959.2_rc_shift2 (KLF7_rc)				; oligos_6nt_mkv4_m4 versus MA1959.2_rc (KLF7_rc); m=6/25; ncol2=8; w=-1; offset=-1; strand=R; shift=2; score=0.495379; --CcMCGCCC--- ; cor=; Ncor= a 0 0 1.0 167.0 254.0 1.0 167.0 1.0 1.0 1.0 0 0 0 c 0 0 997.0 642.0 720.0 997.0 1.0 997.0 997.0 997.0 0 0 0 g 0 0 1.0 42.0 25.0 1.0 788.0 1.0 1.0 1.0 0 0 0 t 0 0 1.0 150.0 1.0 1.0 45.0 1.0 1.0 1.0 0 0 0
MA1106.2_rc_shift6 (HIF1A_rc)				; oligos_6nt_mkv4_m4 versus MA1106.2_rc (HIF1A_rc); m=7/25; ncol2=6; w=0; offset=3; strand=R; shift=6; score=0.494594; ------GCACGT- ; cor=; Ncor= a 0 0 0 0 0 0 35.0 11.0 934.0 0.0 1.0 2.0 0 c 0 0 0 0 0 0 20.0 844.0 11.0 979.0 0.0 2.0 0 g 0 0 0 0 0 0 837.0 41.0 33.0 0.0 979.0 0.0 0 t 0 0 0 0 0 0 88.0 84.0 2.0 1.0 0.0 976.0 0
MA1560.2_rc_shift6 (SOHLH2_rc)				; oligos_6nt_mkv4_m4 versus MA1560.2_rc (SOHLH2_rc); m=8/25; ncol2=8; w=0; offset=3; strand=R; shift=6; score=0.492212; ------gCACGTG ; cor=; Ncor= a 0 0 0 0 0 0 153.0 4.0 1212.0 15.0 7.0 0.0 70.0 c 0 0 0 0 0 0 172.0 1212.0 0.0 1212.0 11.0 41.0 29.0 g 0 0 0 0 0 0 1212.0 4.0 65.0 0.0 1212.0 0.0 1212.0 t 0 0 0 0 0 0 272.0 41.0 36.0 14.0 0.0 1212.0 45.0
MA1515.2_shift2 (KLF2)				; oligos_6nt_mkv4_m4 versus MA1515.2 (KLF2); m=9/25; ncol2=8; w=-1; offset=-1; strand=D; shift=2; score=0.484375; --CCmCrCCC--- ; cor=; Ncor= a 0 0 741.0 403.0 4622.0 0.0 1702.0 0.0 128.0 68.0 0 0 0 c 0 0 4622.0 4622.0 2265.0 4622.0 274.0 4622.0 4622.0 4622.0 0 0 0 g 0 0 495.0 186.0 1060.0 0.0 2920.0 49.0 195.0 105.0 0 0 0 t 0 0 346.0 312.0 214.0 78.0 167.0 22.0 9.0 444.0 0 0 0
MA2126.1_rc_shift2 (Zfp961_rc)				; oligos_6nt_mkv4_m4 versus MA2126.1_rc (Zfp961_rc); m=10/25; ncol2=8; w=-1; offset=-1; strand=R; shift=2; score=0.483126; --TGGCGCCC--- ; cor=; Ncor= a 0 0 61.0 26.0 16.0 15.0 182.0 116.0 71.0 8.0 0 0 0 c 0 0 69.0 30.0 23.0 1372.0 9.0 1278.0 1312.0 1372.0 0 0 0 g 0 0 74.0 1353.0 1367.0 8.0 1219.0 13.0 22.0 20.0 0 0 0 t 0 0 1214.0 9.0 12.0 23.0 8.0 11.0 13.0 18.0 0 0 0
MA1513.2_shift2 (KLF15)				; oligos_6nt_mkv4_m4 versus MA1513.2 (KLF15); m=11/25; ncol2=8; w=-1; offset=-1; strand=D; shift=2; score=0.480495; --cCCCGCCC--- ; cor=; Ncor= a 0 0 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 0 0 0 c 0 0 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 0 0 0 g 0 0 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 0 0 0 t 0 0 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0 0 0 0
MA0004.1_rc_shift7 (Arnt_rc)				; oligos_6nt_mkv4_m4 versus MA0004.1_rc (Arnt_rc); m=12/25; ncol2=6; w=0; offset=4; strand=R; shift=7; score=0.47054; -------CACGTG ; cor=; Ncor= a 0 0 0 0 0 0 0 0.0 20.0 0.0 0.0 0.0 0.0 c 0 0 0 0 0 0 0 20.0 0.0 20.0 0.0 1.0 0.0 g 0 0 0 0 0 0 0 0.0 0.0 0.0 20.0 0.0 16.0 t 0 0 0 0 0 0 0 0.0 0.0 0.0 0.0 19.0 4.0
MA0147.4_rc_shift6 (MYC_rc)				; oligos_6nt_mkv4_m4 versus MA0147.4_rc (MYC_rc); m=13/25; ncol2=8; w=0; offset=3; strand=R; shift=6; score=0.469975; ------gCACGTG ; cor=; Ncor= a 0 0 0 0 0 0 524.0 46.0 4658.0 38.0 293.0 113.0 27.0 c 0 0 0 0 0 0 1198.0 4817.0 63.0 4578.0 70.0 170.0 31.0 g 0 0 0 0 0 0 2801.0 56.0 162.0 157.0 4525.0 59.0 4840.0 t 0 0 0 0 0 0 419.0 23.0 59.0 169.0 54.0 4600.0 44.0
MA0493.3_rc_shift2 (KLF1_rc)				; oligos_6nt_mkv4_m4 versus MA0493.3_rc (KLF1_rc); m=14/25; ncol2=8; w=-1; offset=-1; strand=R; shift=2; score=0.458533; --CCmCrCCC--- ; cor=; Ncor= a 0 0 1.0 21.0 324.0 1.0 346.0 1.0 1.0 1.0 0 0 0 c 0 0 998.0 896.0 675.0 998.0 1.0 998.0 998.0 998.0 0 0 0 g 0 0 1.0 1.0 1.0 1.0 529.0 1.0 1.0 1.0 0 0 0 t 0 0 1.0 82.0 1.0 1.0 125.0 1.0 1.0 1.0 0 0 0
MA0006.2_rc_shift7 (Ahr::Arnt_rc)				; oligos_6nt_mkv4_m4 versus MA0006.2_rc (Ahr::Arnt_rc); m=15/25; ncol2=5; w=0; offset=4; strand=R; shift=7; score=0.457089; -------CACGC- ; cor=; Ncor= a 0 0 0 0 0 0 0 0.0 24.0 1.0 1.0 1.0 0 c 0 0 0 0 0 0 0 24.0 0.0 23.0 0.0 23.0 0 g 0 0 0 0 0 0 0 0.0 0.0 0.0 23.0 0.0 0 t 0 0 0 0 0 0 0 0.0 0.0 0.0 0.0 0.0 0
MA0622.2_shift7 (Mlxip)				; oligos_6nt_mkv4_m4 versus MA0622.2 (Mlxip); m=16/25; ncol2=6; w=0; offset=4; strand=D; shift=7; score=0.453286; -------CACGTG ; cor=; Ncor= a 0 0 0 0 0 0 0 0.0 999.0 0.0 0.0 0.0 0.0 c 0 0 0 0 0 0 0 999.0 0.0 999.0 0.0 0.0 0.0 g 0 0 0 0 0 0 0 0.0 0.0 0.0 999.0 0.0 999.0 t 0 0 0 0 0 0 0 0.0 0.0 0.0 0.0 999.0 0.0
MA0616.3_rc_shift6 (HES2_rc)				; oligos_6nt_mkv4_m4 versus MA0616.3_rc (HES2_rc); m=17/25; ncol2=9; w=0; offset=3; strand=R; shift=6; score=0.452628; ------rCACGTG ; cor=; Ncor= a 0 0 0 0 0 0 3849.0 0.0 8483.0 0.0 129.0 0.0 73.0 c 0 0 0 0 0 0 1289.0 8483.0 0.0 8483.0 0.0 2028.0 85.0 g 0 0 0 0 0 0 4634.0 15.0 1098.0 0.0 8483.0 0.0 8483.0 t 0 0 0 0 0 0 512.0 53.0 0.0 0.0 0.0 6455.0 118.0
MA0825.2_rc_shift7 (MNT_rc)				; oligos_6nt_mkv4_m4 versus MA0825.2_rc (MNT_rc); m=18/25; ncol2=6; w=0; offset=4; strand=R; shift=7; score=0.452455; -------CACGTG ; cor=; Ncor= a 0 0 0 0 0 0 0 25.0 681.0 0.0 16.0 21.0 5.0 c 0 0 0 0 0 0 0 681.0 15.0 681.0 7.0 0.0 0.0 g 0 0 0 0 0 0 0 0.0 0.0 0.0 681.0 0.0 681.0 t 0 0 0 0 0 0 0 0.0 0.0 15.0 0.0 681.0 27.0
MA0058.4_shift7 (MAX)				; oligos_6nt_mkv4_m4 versus MA0058.4 (MAX); m=19/25; ncol2=6; w=0; offset=4; strand=D; shift=7; score=0.45192; -------CACGTG ; cor=; Ncor= a 0 0 0 0 0 0 0 39.0 6876.0 0.0 329.0 69.0 0.0 c 0 0 0 0 0 0 0 6876.0 0.0 6876.0 39.0 159.0 27.0 g 0 0 0 0 0 0 0 0.0 87.0 7.0 6876.0 20.0 6876.0 t 0 0 0 0 0 0 0 0.0 38.0 229.0 19.0 6876.0 36.0
MA0464.3_rc_shift6 (BHLHE40_rc)				; oligos_6nt_mkv4_m4 versus MA0464.3_rc (BHLHE40_rc); m=20/25; ncol2=8; w=0; offset=3; strand=R; shift=6; score=0.450369; ------kCACGTG ; cor=; Ncor= a 0 0 0 0 0 0 500.0 72.0 11222.0 0.0 32.0 77.0 14.0 c 0 0 0 0 0 0 129.0 11222.0 87.0 11222.0 2.0 78.0 0.0 g 0 0 0 0 0 0 5295.0 12.0 248.0 30.0 11222.0 130.0 11222.0 t 0 0 0 0 0 0 5927.0 4.0 167.0 66.0 23.0 11222.0 59.0
MA0649.2_rc_shift6 (HEY2_rc)				; oligos_6nt_mkv4_m4 versus MA0649.2_rc (HEY2_rc); m=21/25; ncol2=9; w=0; offset=3; strand=R; shift=6; score=0.440562; ------rCACGTG ; cor=; Ncor= a 0 0 0 0 0 0 753.0 30.0 1800.0 0.0 0.0 0.0 58.0 c 0 0 0 0 0 0 128.0 1800.0 0.0 1800.0 0.0 128.0 83.0 g 0 0 0 0 0 0 1047.0 34.0 120.0 72.0 1800.0 0.0 1800.0 t 0 0 0 0 0 0 50.0 0.0 36.0 27.0 7.0 1800.0 84.0
MA0259.2_rc_shift7 (ARNT::HIF1A_rc)				; oligos_6nt_mkv4_m4 versus MA0259.2_rc (ARNT::HIF1A_rc); m=22/25; ncol2=5; w=0; offset=4; strand=R; shift=7; score=0.440373; -------CACGT- ; cor=; Ncor= a 0 0 0 0 0 0 0 0.0 104.0 0.0 1.0 1.0 0 c 0 0 0 0 0 0 0 104.0 0.0 104.0 0.0 23.0 0 g 0 0 0 0 0 0 0 0.0 0.0 0.0 103.0 2.0 0 t 0 0 0 0 0 0 0 0.0 0.0 0.0 0.0 78.0 0
MA1099.3_rc_shift7 (HES1_rc)				; oligos_6nt_mkv4_m4 versus MA1099.3_rc (HES1_rc); m=23/25; ncol2=8; w=0; offset=4; strand=R; shift=7; score=0.431159; -------CACGyG ; cor=; Ncor= a 0 0 0 0 0 0 0 53.0 18526.0 0.0 791.0 232.0 18.0 c 0 0 0 0 0 0 0 18526.0 0.0 18526.0 0.0 9081.0 0.0 g 0 0 0 0 0 0 0 0.0 4057.0 0.0 18526.0 0.0 18526.0 t 0 0 0 0 0 0 0 1.0 253.0 21.0 0.0 9446.0 464.0
MA1516.2_shift0 (KLF3)				; oligos_6nt_mkv4_m4 versus MA1516.2 (KLF3); m=24/25; ncol2=10; w=-3; offset=-3; strand=D; shift=0; score=0.424634; grCCrCGCCC--- ; cor=; Ncor= a 7717.0 24771.0 1442.0 298.0 26757.0 2261.0 4245.0 202.0 83.0 77.0 0 0 0 c 2655.0 615.0 43259.0 43259.0 707.0 43259.0 334.0 43259.0 43259.0 43259.0 0 0 0 g 26568.0 18489.0 1954.0 248.0 16503.0 21.0 43259.0 31.0 29.0 48.0 0 0 0 t 6319.0 207.0 705.0 335.0 419.0 1409.0 1212.0 0.0 0.0 1218.0 0 0 0
MA1583.2_shift2 (ZFP57)				; oligos_6nt_mkv4_m4 versus MA1583.2 (ZFP57); m=25/25; ncol2=7; w=-1; offset=-1; strand=D; shift=2; score=0.409436; --TGCCGCA---- ; cor=; Ncor= a 0 0 12.0 24.0 26.0 11.0 91.0 38.0 5116.0 0 0 0 0 c 0 0 37.0 71.0 6254.0 5595.0 16.0 5828.0 331.0 0 0 0 0 g 0 0 140.0 6213.0 16.0 719.0 6166.0 279.0 729.0 0 0 0 0 t 0 0 6143.0 24.0 36.0 7.0 59.0 187.0 156.0 0 0 0 0

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=10; shift=1; ncol=11; -ssCGGCCGss ; Alignment reference a 0 551 731 69 97 117 154 62 81 455 601 c 0 1932 1478 4293 617 724 3674 3891 224 2005 1585 g 0 1587 2004 224 3893 3674 724 617 4296 1476 1932 t 0 599 456 83 62 154 117 99 68 733 551
MA0131.3_rc_shift2 (HINFP_rc)				; oligos_6nt_mkv4_m3 versus MA0131.3_rc (HINFP_rc); m=1/4; ncol2=8; w=0; offset=1; strand=R; shift=2; score=0.573534; --GCGGACGy- ; cor=; Ncor= a 0 0 12.0 21.0 3.0 0.0 470.0 10.0 7.0 17.0 0 c 0 0 15.0 472.0 0.0 13.0 0.0 484.0 97.0 217.0 0 g 0 0 395.0 31.0 413.0 404.0 0.0 14.0 388.0 45.0 0 t 0 0 1.0 0.0 0.0 0.0 0.0 0.0 1.0 276.0 0
MA1959.2_shift4 (KLF7)				; oligos_6nt_mkv4_m3 versus MA1959.2 (KLF7); m=2/4; ncol2=8; w=0; offset=3; strand=D; shift=4; score=0.45079; ----GGGCGKg ; cor=; Ncor= a 0 0 0 0 1.0 1.0 1.0 45.0 1.0 1.0 150.0 c 0 0 0 0 1.0 1.0 1.0 788.0 1.0 25.0 42.0 g 0 0 0 0 997.0 997.0 997.0 1.0 997.0 720.0 642.0 t 0 0 0 0 1.0 1.0 1.0 167.0 1.0 254.0 167.0
MA1513.2_shift0 (KLF15)				; oligos_6nt_mkv4_m3 versus MA1513.2 (KLF15); m=3/4; ncol2=8; w=-1; offset=-1; strand=D; shift=0; score=0.447959; cCCCGCCC--- ; cor=; Ncor= a 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 0 0 0 c 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 0 0 0 g 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 0 0 0 t 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0 0 0 0
MA2126.1_shift4 (Zfp961)				; oligos_6nt_mkv4_m3 versus MA2126.1 (Zfp961); m=4/4; ncol2=8; w=0; offset=3; strand=D; shift=4; score=0.447569; ----GGGCGCC ; cor=; Ncor= a 0 0 0 0 18.0 13.0 11.0 8.0 23.0 12.0 9.0 c 0 0 0 0 20.0 22.0 13.0 1219.0 8.0 1367.0 1353.0 g 0 0 0 0 1372.0 1312.0 1278.0 9.0 1372.0 23.0 30.0 t 0 0 0 0 8.0 71.0 116.0 182.0 15.0 16.0 26.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv4_m2_shift0 (oligos_6nt_mkv4_m2)				; oligos_6nt_mkv4_m2; m=0 (reference); ncol1=10; shift=0; ncol=10; ssCGaGCGcs ; Alignment reference a 431 358 62 33 1318 80 53 64 363 402 c 972 973 2745 58 646 117 2860 106 1296 953 g 1260 1366 178 2896 650 2779 60 2824 746 1293 t 373 339 51 49 422 60 63 42 631 388
MA1959.2_shift3 (KLF7)				; oligos_6nt_mkv4_m2 versus MA1959.2 (KLF7); m=1/9; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.505266; ---GGGCGKg ; cor=; Ncor= a 0 0 0 1.0 1.0 1.0 45.0 1.0 1.0 150.0 c 0 0 0 1.0 1.0 1.0 788.0 1.0 25.0 42.0 g 0 0 0 997.0 997.0 997.0 1.0 997.0 720.0 642.0 t 0 0 0 1.0 1.0 1.0 167.0 1.0 254.0 167.0
MA1513.2_rc_shift3 (KLF15_rc)				; oligos_6nt_mkv4_m2 versus MA1513.2_rc (KLF15_rc); m=2/9; ncol2=8; w=0; offset=3; strand=R; shift=3; score=0.496704; ---GGGCGGG ; cor=; Ncor= a 0 0 0 3.0 1.0 11.0 0.0 0.0 3.0 9.0 c 0 0 0 100.0 359.0 2.0 11369.0 1.0 333.0 86.0 g 0 0 0 11254.0 10954.0 11345.0 0.0 11368.0 10940.0 11234.0 t 0 0 0 12.0 55.0 11.0 0.0 0.0 93.0 40.0
MA0632.3_rc_shift3 (TCFL5_rc)				; oligos_6nt_mkv4_m2 versus MA0632.3_rc (TCFL5_rc); m=3/9; ncol2=8; w=0; offset=3; strand=R; shift=3; score=0.496217; ---GCGCGyG ; cor=; Ncor= a 0 0 0 635.0 0.0 15451.0 0.0 1643.0 9359.0 0.0 c 0 0 0 4594.0 72543.0 0.0 72543.0 0.0 29710.0 0.0 g 0 0 0 72543.0 657.0 57092.0 0.0 72543.0 0.0 72543.0 t 0 0 0 1593.0 3520.0 1765.0 1566.0 0.0 72543.0 0.0
MA2126.1_shift3 (Zfp961)				; oligos_6nt_mkv4_m2 versus MA2126.1 (Zfp961); m=4/9; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.493456; ---GGGCGCC ; cor=; Ncor= a 0 0 0 18.0 13.0 11.0 8.0 23.0 12.0 9.0 c 0 0 0 20.0 22.0 13.0 1219.0 8.0 1367.0 1353.0 g 0 0 0 1372.0 1312.0 1278.0 9.0 1372.0 23.0 30.0 t 0 0 0 8.0 71.0 116.0 182.0 15.0 16.0 26.0
MA1515.2_rc_shift3 (KLF2_rc)				; oligos_6nt_mkv4_m2 versus MA1515.2_rc (KLF2_rc); m=5/9; ncol2=8; w=0; offset=3; strand=R; shift=3; score=0.484924; ---GGGyGkG ; cor=; Ncor= a 0 0 0 444.0 9.0 22.0 167.0 78.0 214.0 312.0 c 0 0 0 105.0 195.0 49.0 2920.0 0.0 1060.0 186.0 g 0 0 0 4622.0 4622.0 4622.0 274.0 4622.0 2265.0 4622.0 t 0 0 0 68.0 128.0 0.0 1702.0 0.0 4622.0 403.0
MA1650.2_rc_shift3 (ZBTB14_rc)				; oligos_6nt_mkv4_m2 versus MA1650.2_rc (ZBTB14_rc); m=6/9; ncol2=8; w=0; offset=3; strand=R; shift=3; score=0.484134; ---GTGCGCG ; cor=; Ncor= a 0 0 0 123.0 0.0 52.0 67.0 82.0 62.0 59.0 c 0 0 0 651.0 10.0 261.0 4043.0 319.0 4098.0 155.0 g 0 0 0 3674.0 37.0 4178.0 305.0 4078.0 294.0 4292.0 t 0 0 0 99.0 4500.0 56.0 132.0 68.0 93.0 41.0
MA0493.3_shift3 (KLF1)				; oligos_6nt_mkv4_m2 versus MA0493.3 (KLF1); m=7/9; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.46518; ---GGGyGkG ; cor=; Ncor= a 0 0 0 1.0 1.0 1.0 125.0 1.0 1.0 82.0 c 0 0 0 1.0 1.0 1.0 529.0 1.0 1.0 1.0 g 0 0 0 998.0 998.0 998.0 1.0 998.0 675.0 896.0 t 0 0 0 1.0 1.0 1.0 346.0 1.0 324.0 21.0
MA1516.2_rc_shift3 (KLF3_rc)				; oligos_6nt_mkv4_m2 versus MA1516.2_rc (KLF3_rc); m=8/9; ncol2=10; w=0; offset=3; strand=R; shift=3; score=0.430558; ---GGGCGyG ; cor=; Ncor= a 0 0 0 1218.0 0.0 0.0 1212.0 1409.0 419.0 335.0 c 0 0 0 48.0 29.0 31.0 43259.0 21.0 16503.0 248.0 g 0 0 0 43259.0 43259.0 43259.0 334.0 43259.0 707.0 43259.0 t 0 0 0 77.0 83.0 202.0 4245.0 2261.0 26757.0 298.0
MA1727.2_shift4 (ZNF417)				; oligos_6nt_mkv4_m2 versus MA1727.2 (ZNF417); m=9/9; ncol2=7; w=0; offset=4; strand=D; shift=4; score=0.404535; ----GGCGCC ; cor=; Ncor= a 0 0 0 0 1.0 1.0 7.0 1.0 1.0 31.0 c 0 0 0 0 1.0 1.0 936.0 1.0 990.0 954.0 g 0 0 0 0 996.0 996.0 1.0 996.0 1.0 1.0 t 0 0 0 0 1.0 1.0 55.0 1.0 7.0 13.0