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.2026-01-05.052000_2026-01-05.052000_2qIqyX/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.2026-01-05.052000_2026-01-05.052000_2qIqyX/results/discovered_vs_db/peak-motifs_motifs_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.tab

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m4_shift1 ; 19 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m4_shift1 (oligos_7nt_mkv4_m4)
; oligos_7nt_mkv4_m4; m=0 (reference); ncol1=11; shift=1; ncol=12; -grCAaGCCCrs ; Alignment reference a 0 92 199 5 420 302 5 7 6 4 148 59 c 0 91 100 447 33 35 11 443 450 461 102 137 g 0 211 127 17 17 23 451 10 16 5 144 222 t 0 83 51 8 7 117 10 17 5 7 83 59

MA0746.3_shift1 (SP3)
; oligos_7nt_mkv4_m4 versus MA0746.3 (SP3); m=1/18; ncol2=11; w=0; offset=0; strand=D; shift=1; score=0.744977; -rCCACGCCCmC ; cor=; Ncor= a 0 2146.0 664.0 160.0 5253.0 6.0 465.0 0.0 0.0 2.0 3430.0 556.0 c 0 531.0 6591.0 6591.0 1338.0 6591.0 0.0 6591.0 6591.0 6591.0 3160.0 5116.0 g 0 4445.0 226.0 54.0 2.0 0.0 6591.0 0.0 0.0 2.0 39.0 297.0 t 0 421.0 345.0 202.0 11.0 12.0 504.0 0.0 9.0 718.0 552.0 1475.0

MA0741.1_shift1 (KLF16)
; oligos_7nt_mkv4_m4 versus MA0741.1 (KLF16); m=2/18; ncol2=11; w=0; offset=0; strand=D; shift=1; score=0.728929; -gmCMCgCCCMC ; cor=; Ncor= a 0 666.0 901.0 62.0 1150.0 66.0 497.0 8.0 2.0 16.0 437.0 32.0 c 0 535.0 1612.0 1612.0 461.0 1612.0 173.0 1612.0 1612.0 1612.0 1175.0 1612.0 g 0 1612.0 77.0 6.0 32.0 17.0 1612.0 0.0 8.0 3.0 19.0 23.0 t 0 240.0 116.0 45.0 0.0 19.0 403.0 0.0 0.0 97.0 40.0 370.0

MA1599.2_shift0 (ZNF682)
; oligos_7nt_mkv4_m4 versus MA1599.2 (ZNF682); m=3/18; ncol2=11; w=-1; offset=-1; strand=D; shift=0; score=0.701491; GGCyAAGCCCC- ; cor=; Ncor= a 110.0 103.0 100.0 48.0 953.0 999.0 6.0 13.0 5.0 7.0 66.0 0 c 85.0 42.0 795.0 597.0 72.0 31.0 7.0 999.0 1033.0 1034.0 896.0 0 g 774.0 877.0 105.0 55.0 20.0 22.0 1038.0 13.0 9.0 10.0 32.0 0 t 89.0 36.0 58.0 358.0 13.0 6.0 7.0 33.0 11.0 7.0 64.0 0

MA1512.2_shift2 (KLF11)
; oligos_7nt_mkv4_m4 versus MA1512.2 (KLF11); m=4/18; ncol2=10; w=0; offset=1; strand=D; shift=2; score=0.681397; --cCACGCCCmC ; cor=; Ncor= a 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 5549.0 8662.0 1289.0 9142.0 52.0 9161.0 9166.0 8941.0 4226.0 8403.0 g 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 1192.0 506.0 27.0 38.0 349.0 23.0 7.0 885.0 761.0 1281.0

MA1564.2_shift2 (SP9)
; oligos_7nt_mkv4_m4 versus MA1564.2 (SP9); m=5/18; ncol2=10; w=0; offset=1; strand=D; shift=2; score=0.664644; --cCmCGCCCmc ; cor=; Ncor= a 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 2451.0 2451.0 1127.0 2451.0 200.0 2451.0 2451.0 2451.0 1259.0 1863.0 g 0 0 309.0 113.0 56.0 17.0 2451.0 0.0 0.0 24.0 38.0 191.0 t 0 0 518.0 284.0 96.0 9.0 173.0 14.0 30.0 412.0 353.0 588.0

MA1517.2_shift2 (KLF6)
; oligos_7nt_mkv4_m4 versus MA1517.2 (KLF6); m=6/18; ncol2=9; w=0; offset=1; strand=D; shift=2; score=0.624835; --cCACRCCCm- ; cor=; Ncor= a 0 0 569.0 432.0 2192.0 0.0 1024.0 0.0 25.0 71.0 955.0 0 c 0 0 2192.0 2192.0 284.0 2192.0 0.0 2192.0 2192.0 2192.0 665.0 0 g 0 0 332.0 298.0 60.0 0.0 2192.0 0.0 60.0 12.0 52.0 0 t 0 0 219.0 140.0 60.0 24.0 0.0 0.0 0.0 64.0 520.0 0

MA0747.2_shift2 (SP8)
; oligos_7nt_mkv4_m4 versus MA0747.2 (SP8); m=7/18; ncol2=11; w=0; offset=1; strand=D; shift=2; score=0.621249; --mCACgCCCmC ; cor=; Ncor= a 0 0 54.0 25.0 133.0 7.0 25.0 5.0 2.0 0.0 90.0 13.0 c 0 0 113.0 167.0 33.0 167.0 37.0 167.0 167.0 167.0 77.0 167.0 g 0 0 0.0 0.0 1.0 1.0 167.0 6.0 3.0 4.0 6.0 21.0 t 0 0 4.0 13.0 2.0 5.0 39.0 2.0 0.0 15.0 3.0 39.0

MA1516.2_shift0 (KLF3)
; oligos_7nt_mkv4_m4 versus MA1516.2 (KLF3); m=8/18; ncol2=10; w=-1; offset=-1; strand=D; shift=0; score=0.57155; 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 c 2655.0 615.0 43259.0 43259.0 707.0 43259.0 334.0 43259.0 43259.0 43259.0 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 t 6319.0 207.0 705.0 335.0 419.0 1409.0 1212.0 0.0 0.0 1218.0 0 0

MA1515.2_shift2 (KLF2)
; oligos_7nt_mkv4_m4 versus MA1515.2 (KLF2); m=9/18; ncol2=8; w=0; offset=1; strand=D; shift=2; score=0.528756; --CCmCrCCC-- ; cor=; Ncor= a 0 0 741.0 403.0 4622.0 0.0 1702.0 0.0 128.0 68.0 0 0 c 0 0 4622.0 4622.0 2265.0 4622.0 274.0 4622.0 4622.0 4622.0 0 0 g 0 0 495.0 186.0 1060.0 0.0 2920.0 49.0 195.0 105.0 0 0 t 0 0 346.0 312.0 214.0 78.0 167.0 22.0 9.0 444.0 0 0

MA1656.2_shift4 (ZNF449)
; oligos_7nt_mkv4_m4 versus MA1656.2 (ZNF449); m=10/18; ncol2=10; w=0; offset=3; strand=D; shift=4; score=0.502888; ----aAGCCCAA ; cor=; Ncor= a 0 0 0 0 4135.0 6239.0 108.0 139.0 64.0 68.0 6851.0 6620.0 c 0 0 0 0 1759.0 582.0 92.0 7088.0 7540.0 7479.0 300.0 96.0 g 0 0 0 0 1463.0 224.0 7368.0 322.0 28.0 54.0 182.0 829.0 t 0 0 0 0 303.0 615.0 92.0 111.0 28.0 59.0 327.0 115.0

MA0106.3_shift1 (TP53)
; oligos_7nt_mkv4_m4 versus MA0106.3 (TP53); m=11/18; ncol2=18; w=0; offset=0; strand=D; shift=1; score=0.492575; -rACATGyCcgG ; cor=; Ncor= a 0 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 3584.0 c 0 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 756.0 g 0 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 17846.0 t 0 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0 1546.0

MA0657.2_shift0 (KLF13)
; oligos_7nt_mkv4_m4 versus MA0657.2 (KLF13); m=12/18; ncol2=17; w=-1; offset=-1; strand=D; shift=0; score=0.488366; tRmCACGCCCCY ; cor=; Ncor= a 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 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 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 1766.0 59.0 102.0 61.0 0.0 3.0 9.0 7.0 0.0 16.0 10.0 1403.0

MA0597.3_rc_shift5 (THAP1_rc)
; oligos_7nt_mkv4_m4 versus MA0597.3_rc (THAP1_rc); m=13/18; ncol2=8; w=0; offset=4; strand=R; shift=5; score=0.448651; -----TGCCCTg ; cor=; Ncor= a 0 0 0 0 0 11.0 115.0 78.0 62.0 71.0 8.0 341.0 c 0 0 0 0 0 172.0 104.0 4942.0 4893.0 4958.0 220.0 933.0 g 0 0 0 0 0 95.0 4861.0 67.0 183.0 127.0 219.0 3351.0 t 0 0 0 0 0 4900.0 98.0 91.0 40.0 22.0 4731.0 553.0

MA0738.2_shift4 (HIC2)
; oligos_7nt_mkv4_m4 versus MA0738.2 (HIC2); m=14/18; ncol2=6; w=0; offset=3; strand=D; shift=4; score=0.42076; ----rTGCCM-- ; cor=; Ncor= a 0 0 0 0 2606.0 0.0 494.0 23.0 435.0 1466.0 0 0 c 0 0 0 0 394.0 117.0 354.0 4891.0 4891.0 3425.0 0 0 g 0 0 0 0 2285.0 0.0 4891.0 14.0 0.0 0.0 0 0 t 0 0 0 0 367.0 4891.0 151.0 0.0 59.0 0.0 0 0

MA1979.2_rc_shift5 (ZNF416_rc)
; oligos_7nt_mkv4_m4 versus MA1979.2_rc (ZNF416_rc); m=15/18; ncol2=10; w=0; offset=4; strand=R; shift=5; score=0.418309; -----tGCCCAG ; cor=; Ncor= a 0 0 0 0 0 66.0 18.0 3.0 3.0 2.0 336.0 3.0 c 0 0 0 0 0 29.0 3.0 341.0 335.0 335.0 1.0 7.0 g 0 0 0 0 0 38.0 320.0 1.0 5.0 7.0 6.0 334.0 t 0 0 0 0 0 212.0 4.0 0.0 2.0 1.0 2.0 1.0

MA0161.3_rc_shift0 (NFIC_rc)
; oligos_7nt_mkv4_m4 versus MA0161.3_rc (NFIC_rc); m=16/18; ncol2=7; w=-1; offset=-1; strand=R; shift=0; score=0.41021; TGCCAAG----- ; cor=; Ncor= a 574.0 530.0 290.0 81.0 10745.0 10781.0 324.0 0 0 0 0 0 c 478.0 88.0 10973.0 11087.0 177.0 369.0 329.0 0 0 0 0 0 g 397.0 10725.0 121.0 129.0 333.0 303.0 10542.0 0 0 0 0 0 t 10158.0 264.0 223.0 310.0 352.0 154.0 412.0 0 0 0 0 0

MA0733.2_shift4 (EGR4)
; oligos_7nt_mkv4_m4 versus MA0733.2 (EGR4); m=17/18; ncol2=11; w=0; offset=3; strand=D; shift=4; score=0.406464; ----mCGCCCAC ; cor=; Ncor= a 0 0 0 0 2745.0 101.0 556.0 11.0 120.0 0.0 4500.0 44.0 c 0 0 0 0 1924.0 4466.0 475.0 4447.0 4448.0 4403.0 1055.0 4402.0 g 0 0 0 0 151.0 150.0 7053.0 63.0 107.0 110.0 348.0 114.0 t 0 0 0 0 158.0 319.0 707.0 88.0 76.0 131.0 363.0 245.0

MA0732.2_shift4 (EGR3)
; oligos_7nt_mkv4_m4 versus MA0732.2 (EGR3); m=18/18; ncol2=11; w=0; offset=3; strand=D; shift=4; score=0.402184; ----mCGCCCMC ; cor=; Ncor= a 0 0 0 0 1031.0 2.0 66.0 0.0 0.0 0.0 1159.0 0.0 c 0 0 0 0 701.0 1855.0 32.0 1856.0 1858.0 1823.0 455.0 1875.0 g 0 0 0 0 10.0 0.0 2158.0 2.0 0.0 7.0 11.0 7.0 t 0 0 0 0 20.0 13.0 36.0 0.0 10.0 80.0 4.0 2.0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m2_shift4 ; 15 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m2_shift4 (oligos_7nt_mkv4_m2)
; oligos_7nt_mkv4_m2; m=0 (reference); ncol1=12; shift=4; ncol=16; ----tgCCCAGACAtg ; Alignment reference a 0 0 0 0 115 78 22 24 13 580 21 494 21 602 145 125 c 0 0 0 0 108 128 556 594 620 9 21 32 586 17 125 80 g 0 0 0 0 99 362 23 6 1 19 595 106 30 7 127 366 t 0 0 0 0 327 81 48 25 15 41 12 17 12 23 252 78

MA1979.2_rc_shift4 (ZNF416_rc)
; oligos_7nt_mkv4_m2 versus MA1979.2_rc (ZNF416_rc); m=1/14; ncol2=10; w=0; offset=0; strand=R; shift=4; score=0.73695; ----tGCCCAGAtA-- ; cor=; Ncor= a 0 0 0 0 66.0 18.0 3.0 3.0 2.0 336.0 3.0 254.0 46.0 240.0 0 0 c 0 0 0 0 29.0 3.0 341.0 335.0 335.0 1.0 7.0 15.0 77.0 26.0 0 0 g 0 0 0 0 38.0 320.0 1.0 5.0 7.0 6.0 334.0 28.0 25.0 32.0 0 0 t 0 0 0 0 212.0 4.0 0.0 2.0 1.0 2.0 1.0 48.0 197.0 47.0 0 0

MA2121.1_shift5 (ZNF213)
; oligos_7nt_mkv4_m2 versus MA2121.1 (ZNF213); m=2/14; ncol2=12; w=0; offset=1; strand=D; shift=5; score=0.640537; -----gCCCAGGCwGs ; cor=; Ncor= a 0 0 0 0 0 119.0 26.0 18.0 15.0 577.0 10.0 12.0 16.0 229.0 42.0 61.0 c 0 0 0 0 0 89.0 581.0 603.0 630.0 34.0 13.0 25.0 642.0 97.0 76.0 319.0 g 0 0 0 0 0 403.0 52.0 34.0 34.0 54.0 661.0 639.0 22.0 124.0 519.0 260.0 t 0 0 0 0 0 76.0 28.0 32.0 8.0 22.0 3.0 11.0 7.0 237.0 50.0 47.0

MA2125.1_shift4 (Zfp809)
; oligos_7nt_mkv4_m2 versus MA2125.1 (Zfp809); m=3/14; ncol2=9; w=0; offset=0; strand=D; shift=4; score=0.571705; ----wTCCCAGCc--- ; cor=; Ncor= a 0 0 0 0 828.0 23.0 15.0 20.0 10.0 1529.0 32.0 287.0 217.0 0 0 0 c 0 0 0 0 66.0 41.0 1607.0 1610.0 1621.0 26.0 35.0 1218.0 1091.0 0 0 0 g 0 0 0 0 81.0 23.0 18.0 14.0 16.0 73.0 1572.0 99.0 115.0 0 0 0 t 0 0 0 0 690.0 1578.0 25.0 21.0 18.0 37.0 26.0 61.0 242.0 0 0 0

MA0092.2_rc_shift4 (Hand1::Tcf3_rc)
; oligos_7nt_mkv4_m2 versus MA0092.2_rc (Hand1::Tcf3_rc); m=4/14; ncol2=9; w=0; offset=0; strand=R; shift=4; score= 0.5495; ----awkCCAGAy--- ; cor=; Ncor= a 0 0 0 0 16.0 10.0 5.0 1.0 0.0 29.0 1.0 24.0 4.0 0 0 0 c 0 0 0 0 4.0 3.0 1.0 25.0 29.0 0.0 0.0 1.0 15.0 0 0 0 g 0 0 0 0 4.0 0.0 14.0 3.0 0.0 0.0 28.0 2.0 0.0 0 0 0 t 0 0 0 0 5.0 16.0 9.0 0.0 0.0 0.0 0.0 2.0 10.0 0 0 0

MA2123.1_shift6 (Hand1)
; oligos_7nt_mkv4_m2 versus MA2123.1 (Hand1); m=5/14; ncol2=9; w=0; offset=2; strand=D; shift=6; score=0.537978; ------tCCAGACCt- ; cor=; Ncor= a 0 0 0 0 0 0 177.0 84.0 8.0 1016.0 8.0 908.0 28.0 40.0 153.0 0 c 0 0 0 0 0 0 128.0 850.0 1036.0 16.0 24.0 33.0 955.0 962.0 235.0 0 g 0 0 0 0 0 0 148.0 101.0 12.0 10.0 1016.0 104.0 46.0 46.0 61.0 0 t 0 0 0 0 0 0 609.0 27.0 6.0 20.0 14.0 17.0 33.0 14.0 613.0 0

MA0155.1_rc_shift2 (INSM1_rc)
; oligos_7nt_mkv4_m2 versus MA0155.1_rc (INSM1_rc); m=6/14; ncol2=12; w=-2; offset=-2; strand=R; shift=2; score=0.523587; --ygmCCCCwkrCA-- ; cor=; Ncor= a 0 0 2.0 5.0 6.0 0.0 0.0 0.0 0.0 8.0 3.0 13.0 4.0 19.0 0 0 c 0 0 12.0 0.0 16.0 24.0 24.0 23.0 24.0 0.0 0.0 3.0 20.0 4.0 0 0 g 0 0 0.0 16.0 2.0 0.0 0.0 1.0 0.0 0.0 15.0 8.0 0.0 0.0 0 0 t 0 0 10.0 3.0 0.0 0.0 0.0 0.0 0.0 16.0 6.0 0.0 0.0 1.0 0 0

MA1153.2_rc_shift7 (Smad4_rc)
; oligos_7nt_mkv4_m2 versus MA1153.2_rc (Smad4_rc); m=7/14; ncol2=7; w=0; offset=3; strand=R; shift=7; score=0.515258; -------CyAGACr-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0.0 0.0 1000.0 0.0 1000.0 0.0 581.0 0 0 c 0 0 0 0 0 0 0 1000.0 404.0 0.0 0.0 0.0 1000.0 81.0 0 0 g 0 0 0 0 0 0 0 0.0 0.0 0.0 1000.0 0.0 0.0 250.0 0 0 t 0 0 0 0 0 0 0 0.0 596.0 0.0 0.0 0.0 0.0 88.0 0 0

MA0106.3_shift0 (TP53)
; oligos_7nt_mkv4_m2 versus MA0106.3 (TP53); m=8/14; ncol2=18; w=-4; offset=-4; strand=D; shift=0; score=0.510222; rACATGyCcgGrCATG ; cor=; Ncor= a 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 3584.0 7104.0 0.0 12925.0 1825.0 327.0 c 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 756.0 26.0 19350.0 250.0 118.0 33.0 g 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 17846.0 8821.0 4.0 157.0 89.0 20549.0 t 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0 1546.0 190.0 1.0 1155.0 17864.0 68.0

MA1964.2_shift7 (SMAD2)
; oligos_7nt_mkv4_m2 versus MA1964.2 (SMAD2); m=9/14; ncol2=6; w=0; offset=3; strand=D; shift=7; score=0.494778; -------CCAGAC--- ; cor=; Ncor= a 0 0 0 0 0 0 0 42.0 6.0 3447.0 7.0 3747.0 1.0 0 0 0 c 0 0 0 0 0 0 0 3610.0 3484.0 149.0 30.0 0.0 3757.0 0 0 0 g 0 0 0 0 0 0 0 86.0 171.0 154.0 3703.0 0.0 0.0 0 0 0 t 0 0 0 0 0 0 0 20.0 97.0 8.0 18.0 11.0 0.0 0 0 0

MA1731.2_rc_shift8 (ZNF768_rc)
; oligos_7nt_mkv4_m2 versus MA1731.2_rc (ZNF768_rc); m=10/14; ncol2=9; w=0; offset=4; strand=R; shift=8; score=0.46407; --------CAGAGAgG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1.0 987.0 1.0 945.0 20.0 917.0 123.0 141.0 c 0 0 0 0 0 0 0 0 973.0 11.0 11.0 43.0 29.0 11.0 179.0 62.0 g 0 0 0 0 0 0 0 0 25.0 1.0 987.0 6.0 950.0 39.0 655.0 768.0 t 0 0 0 0 0 0 0 0 1.0 1.0 1.0 6.0 1.0 34.0 43.0 29.0

MA0161.3_rc_shift4 (NFIC_rc)
; oligos_7nt_mkv4_m2 versus MA0161.3_rc (NFIC_rc); m=11/14; ncol2=7; w=0; offset=0; strand=R; shift=4; score=0.422108; ----TGCCAAG----- ; cor=; Ncor= a 0 0 0 0 574.0 530.0 290.0 81.0 10745.0 10781.0 324.0 0 0 0 0 0 c 0 0 0 0 478.0 88.0 10973.0 11087.0 177.0 369.0 329.0 0 0 0 0 0 g 0 0 0 0 397.0 10725.0 121.0 129.0 333.0 303.0 10542.0 0 0 0 0 0 t 0 0 0 0 10158.0 264.0 223.0 310.0 352.0 154.0 412.0 0 0 0 0 0

MA1986.2_shift3 (ZNF692)
; oligos_7nt_mkv4_m2 versus MA1986.2 (ZNF692); m=12/14; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.413506; ---gGGCCCAs----- ; cor=; Ncor= a 0 0 0 1403.0 0.0 31.0 27.0 41.0 3.0 10535.0 852.0 0 0 0 0 0 c 0 0 0 1314.0 90.0 4.0 10689.0 10446.0 10545.0 0.0 4998.0 0 0 0 0 0 g 0 0 0 6833.0 10642.0 10684.0 7.0 241.0 176.0 210.0 3703.0 0 0 0 0 0 t 0 0 0 1195.0 13.0 26.0 22.0 17.0 21.0 0.0 1192.0 0 0 0 0 0

MA2002.2_shift7 (Zfp335)
; oligos_7nt_mkv4_m2 versus MA2002.2 (Zfp335); m=13/14; ncol2=7; w=0; offset=3; strand=D; shift=7; score=0.409952; -------tCAGGCA-- ; cor=; Ncor= a 0 0 0 0 0 0 0 12.0 2.0 78.0 0.0 0.0 2.0 72.0 0 0 c 0 0 0 0 0 0 0 5.0 82.0 3.0 2.0 0.0 81.0 1.0 0 0 g 0 0 0 0 0 0 0 15.0 0.0 0.0 81.0 82.0 1.0 10.0 0 0 t 0 0 0 0 0 0 0 52.0 0.0 3.0 1.0 2.0 0.0 1.0 0 0

MA1116.2_rc_shift4 (RBPJ_rc)
; oligos_7nt_mkv4_m2 versus MA1116.2_rc (RBPJ_rc); m=14/14; ncol2=6; w=0; offset=0; strand=R; shift=4; score=0.405779; ----TTCCCA------ ; cor=; Ncor= a 0 0 0 0 4.0 29.0 78.0 60.0 1.0 2386.0 0 0 0 0 0 0 c 0 0 0 0 1.0 4.0 2309.0 2313.0 2341.0 2.0 0 0 0 0 0 0 g 0 0 0 0 15.0 0.0 8.0 20.0 25.0 12.0 0 0 0 0 0 0 t 0 0 0 0 2382.0 2369.0 7.0 9.0 35.0 2.0 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m1_shift0 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m1_shift0 (oligos_6nt_mkv3_m1)
; oligos_6nt_mkv3_m1; m=0 (reference); ncol1=24; shift=0; ncol=24; skrGrCATGyCCrGrCATGyCyms ; Alignment reference a 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 497 106 20 26 44 66 171 123 c 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 22 17 11 196 420 315 154 180 g 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 10 28 535 22 25 38 136 156 t 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2 44 422 7 329 84 154 112 114

MA0106.3_shift3 (TP53)
; oligos_6nt_mkv3_m1 versus MA0106.3 (TP53); m=1/4; ncol2=18; w=0; offset=3; strand=D; shift=3; score=0.70851; ---rACATGyCcgGrCATGTy--- ; cor=; Ncor= a 0 0 0 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 3584.0 7104.0 0.0 12925.0 1825.0 327.0 879.0 1472.0 0 0 0 c 0 0 0 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 756.0 26.0 19350.0 250.0 118.0 33.0 3338.0 9183.0 0 0 0 g 0 0 0 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 17846.0 8821.0 4.0 157.0 89.0 20549.0 116.0 825.0 0 0 0 t 0 0 0 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0 1546.0 190.0 1.0 1155.0 17864.0 68.0 17859.0 9120.0 0 0 0

MA0861.2_rc_shift4 (TP73_rc)
; oligos_6nt_mkv3_m1 versus MA0861.2_rc (TP73_rc); m=2/4; ncol2=16; w=0; offset=4; strand=R; shift=4; score=0.568857; ----rCrTGTyyrgACATGy---- ; cor=; Ncor= a 0 0 0 0 6995.0 39.0 8476.0 2302.0 0.0 442.0 1002.0 2457.0 4242.0 2749.0 11892.0 1.0 11480.0 198.0 0.0 208.0 0 0 0 0 c 0 0 0 0 181.0 13026.0 130.0 279.0 0.0 1414.0 7797.0 3558.0 2230.0 783.0 91.0 11787.0 806.0 557.0 0.0 3304.0 0 0 0 0 g 0 0 0 0 6944.0 170.0 5965.0 143.0 11703.0 145.0 441.0 2418.0 2940.0 8161.0 2591.0 28.0 293.0 124.0 10829.0 429.0 0 0 0 0 t 0 0 0 0 993.0 16.0 256.0 10125.0 0.0 9639.0 3988.0 3488.0 2166.0 1377.0 130.0 8.0 3837.0 8760.0 0.0 6206.0 0 0 0 0

MA0525.2_rc_shift3 (TP63_rc)
; oligos_6nt_mkv3_m1 versus MA0525.2_rc (TP63_rc); m=3/4; ncol2=18; w=0; offset=3; strand=R; shift=3; score=0.561194; ---gACATGTymcrACATGTy--- ; cor=; Ncor= a 0 0 0 606.0 3126.0 0.0 2823.0 192.0 0.0 45.0 47.0 829.0 13.0 1961.0 3025.0 0.0 2353.0 4.0 0.0 21.0 115.0 0 0 0 c 0 0 0 198.0 1.0 3532.0 8.0 1.0 0.0 48.0 2132.0 1656.0 2070.0 26.0 0.0 4021.0 0.0 76.0 0.0 185.0 997.0 0 0 0 g 0 0 0 2099.0 202.0 0.0 617.0 0.0 2788.0 0.0 1.0 681.0 478.0 1025.0 85.0 0.0 33.0 0.0 2533.0 1.0 26.0 0 0 0 t 0 0 0 701.0 49.0 0.0 75.0 2151.0 0.0 2192.0 993.0 112.0 649.0 97.0 14.0 0.0 692.0 2246.0 0.0 2261.0 1586.0 0 0 0

MA1719.2_rc_shift10 (ZNF816_rc)
; oligos_6nt_mkv3_m1 versus MA1719.2_rc (ZNF816_rc); m=4/4; ncol2=15; w=0; offset=10; strand=R; shift=10; score=0.400896; ----------cCcwgCATGTCCCC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 118.0 82.0 193.0 265.0 252.0 39.0 810.0 35.0 6.0 3.0 6.0 5.0 4.0 12.0 c 0 0 0 0 0 0 0 0 0 0 683.0 732.0 508.0 174.0 53.0 949.0 111.0 89.0 13.0 10.0 1020.0 1035.0 1033.0 1006.0 g 0 0 0 0 0 0 0 0 0 0 126.0 90.0 106.0 210.0 612.0 27.0 85.0 143.0 1015.0 3.0 12.0 6.0 6.0 4.0 t 0 0 0 0 0 0 0 0 0 0 126.0 149.0 246.0 404.0 136.0 38.0 47.0 786.0 19.0 1037.0 15.0 7.0 10.0 31.0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m1_shift0 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m1_shift0 (oligos_7nt_mkv4_m1)
; oligos_7nt_mkv4_m1; m=0 (reference); ncol1=19; shift=0; ncol=19; skgGACATGCCCAGrCawG ; Alignment reference a 106 123 130 97 429 7 483 42 6 7 21 18 416 35 171 49 397 159 70 c 196 138 31 41 16 557 24 16 4 466 531 500 17 31 34 463 82 64 57 g 185 157 356 416 126 15 20 23 572 6 8 11 116 496 361 44 39 77 398 t 98 167 68 31 14 6 58 504 3 106 25 56 36 23 19 29 67 285 60

MA0106.3_shift3 (TP53)
; oligos_7nt_mkv4_m1 versus MA0106.3 (TP53); m=1/4; ncol2=18; w=0; offset=3; strand=D; shift=3; score=0.691784; ---rACATGyCcgGrCATG ; cor=; Ncor= a 0 0 0 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 3584.0 7104.0 0.0 12925.0 1825.0 327.0 c 0 0 0 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 756.0 26.0 19350.0 250.0 118.0 33.0 g 0 0 0 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 17846.0 8821.0 4.0 157.0 89.0 20549.0 t 0 0 0 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0 1546.0 190.0 1.0 1155.0 17864.0 68.0

MA0861.2_shift4 (TP73)
; oligos_7nt_mkv4_m1 versus MA0861.2 (TP73); m=2/4; ncol2=16; w=0; offset=4; strand=D; shift=4; score=0.578805; ----rCATGTcyrrACAyG ; cor=; Ncor= a 0 0 0 0 6206.0 0.0 8760.0 3837.0 8.0 130.0 1377.0 2166.0 3488.0 3988.0 9639.0 0.0 10125.0 256.0 16.0 c 0 0 0 0 429.0 10829.0 124.0 293.0 28.0 2591.0 8161.0 2940.0 2418.0 441.0 145.0 11703.0 143.0 5965.0 170.0 g 0 0 0 0 3304.0 0.0 557.0 806.0 11787.0 91.0 783.0 2230.0 3558.0 7797.0 1414.0 0.0 279.0 130.0 13026.0 t 0 0 0 0 208.0 0.0 198.0 11480.0 1.0 11892.0 2749.0 4242.0 2457.0 1002.0 442.0 0.0 2302.0 8476.0 39.0

MA2121.1_shift8 (ZNF213)
; oligos_7nt_mkv4_m1 versus MA2121.1 (ZNF213); m=3/4; ncol2=12; w=0; offset=8; strand=D; shift=8; score=0.455727; --------gCCCAGGCwGs ; cor=; Ncor= a 0 0 0 0 0 0 0 0 119.0 26.0 18.0 15.0 577.0 10.0 12.0 16.0 229.0 42.0 61.0 c 0 0 0 0 0 0 0 0 89.0 581.0 603.0 630.0 34.0 13.0 25.0 642.0 97.0 76.0 319.0 g 0 0 0 0 0 0 0 0 403.0 52.0 34.0 34.0 54.0 661.0 639.0 22.0 124.0 519.0 260.0 t 0 0 0 0 0 0 0 0 76.0 28.0 32.0 8.0 22.0 3.0 11.0 7.0 237.0 50.0 47.0

MA1979.2_rc_shift7 (ZNF416_rc)
; oligos_7nt_mkv4_m1 versus MA1979.2_rc (ZNF416_rc); m=4/4; ncol2=10; w=0; offset=7; strand=R; shift=7; score=0.448287; -------tGCCCAGAtA-- ; cor=; Ncor= a 0 0 0 0 0 0 0 66.0 18.0 3.0 3.0 2.0 336.0 3.0 254.0 46.0 240.0 0 0 c 0 0 0 0 0 0 0 29.0 3.0 341.0 335.0 335.0 1.0 7.0 15.0 77.0 26.0 0 0 g 0 0 0 0 0 0 0 38.0 320.0 1.0 5.0 7.0 6.0 334.0 28.0 25.0 32.0 0 0 t 0 0 0 0 0 0 0 212.0 4.0 0.0 2.0 1.0 2.0 1.0 48.0 197.0 47.0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m4_shift3 ; 14 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m4_shift3 (oligos_6nt_mkv3_m4)
; oligos_6nt_mkv3_m4; m=0 (reference); ncol1=12; shift=3; ncol=15; ---waCAAAGAAAaa ; Alignment reference a 0 0 0 252 231 69 572 542 564 35 508 547 547 220 249 c 0 0 0 86 114 446 13 22 7 55 51 21 16 104 85 g 0 0 0 110 136 47 3 25 18 474 30 24 20 137 140 t 0 0 0 150 117 36 10 9 9 34 9 6 15 137 124

MA0041.3_shift1 (FOXD3)
; oligos_6nt_mkv3_m4 versus MA0041.3 (FOXD3); m=1/13; ncol2=14; w=-2; offset=-2; strand=D; shift=1; score=0.624851; -wawrhAAAYAAACa ; cor=; Ncor= a 0 86.0 120.0 91.0 56.0 99.0 171.0 171.0 171.0 0.0 171.0 171.0 171.0 13.0 125.0 c 0 22.0 17.0 45.0 17.0 109.0 37.0 8.0 1.0 43.0 4.0 11.0 17.0 171.0 20.0 g 0 13.0 52.0 45.0 115.0 8.0 1.0 0.0 7.0 0.0 2.0 8.0 20.0 13.0 30.0 t 0 85.0 22.0 81.0 10.0 171.0 2.0 7.0 2.0 128.0 7.0 11.0 35.0 30.0 47.0

MA0867.3_shift3 (SOX4)
; oligos_6nt_mkv3_m4 versus MA0867.3 (SOX4); m=2/13; ncol2=8; w=0; offset=0; strand=D; shift=3; score=0.541858; ---aACAAwGr---- ; cor=; Ncor= a 0 0 0 5582.0 5582.0 0.0 5582.0 5582.0 5582.0 1018.0 2093.0 0 0 0 0 c 0 0 0 951.0 0.0 5582.0 1.0 6.0 120.0 64.0 1422.0 0 0 0 0 g 0 0 0 2047.0 0.0 37.0 6.0 11.0 50.0 5582.0 3489.0 0 0 0 0 t 0 0 0 431.0 9.0 33.0 0.0 0.0 2719.0 83.0 174.0 0 0 0 0

MA1125.2_shift6 (ZNF384)
; oligos_6nt_mkv3_m4 versus MA1125.2 (ZNF384); m=3/13; ncol2=8; w=0; offset=3; strand=D; shift=6; score=0.537408; ------AAAAAAaa- ; cor=; Ncor= a 0 0 0 0 0 0 30354.0 30191.0 30072.0 30252.0 30202.0 30406.0 20322.0 18916.0 0 c 0 0 0 0 0 0 7.0 35.0 21.0 13.0 26.0 6.0 2908.0 3963.0 0 g 0 0 0 0 0 0 13.0 19.0 26.0 15.0 14.0 0.0 2767.0 2898.0 0 t 0 0 0 0 0 0 59.0 188.0 314.0 153.0 191.0 21.0 4436.0 4656.0 0

MA0769.3_rc_shift3 (TCF7_rc)
; oligos_6nt_mkv3_m4 versus MA0769.3_rc (TCF7_rc); m=4/13; ncol2=7; w=0; offset=0; strand=R; shift=3; score=0.51448; ---wTCAAAG----- ; cor=; Ncor= a 0 0 0 8498.0 239.0 478.0 14489.0 14178.0 14556.0 157.0 0 0 0 0 0 c 0 0 0 1220.0 115.0 13972.0 83.0 266.0 67.0 206.0 0 0 0 0 0 g 0 0 0 855.0 63.0 278.0 62.0 248.0 125.0 14379.0 0 0 0 0 0 t 0 0 0 4421.0 14577.0 266.0 360.0 302.0 246.0 252.0 0 0 0 0 0

MA0869.3_shift2 (Sox11)
; oligos_6nt_mkv3_m4 versus MA0869.3 (Sox11); m=5/13; ncol2=8; w=-1; offset=-1; strand=D; shift=2; score=0.495536; --GAACAAAG----- ; cor=; Ncor= a 0 0 1014.0 7912.0 9856.0 119.0 10020.0 9676.0 9276.0 506.0 0 0 0 0 0 c 0 0 764.0 766.0 100.0 9471.0 108.0 264.0 61.0 148.0 0 0 0 0 0 g 0 0 8063.0 1298.0 211.0 501.0 49.0 248.0 233.0 9486.0 0 0 0 0 0 t 0 0 407.0 272.0 81.0 157.0 71.0 60.0 678.0 108.0 0 0 0 0 0

MA0768.3_rc_shift3 (Lef1_rc)
; oligos_6nt_mkv3_m4 versus MA0768.3_rc (Lef1_rc); m=6/13; ncol2=8; w=0; offset=0; strand=R; shift=3; score=0.492282; ---ATCAAAGG---- ; cor=; Ncor= a 0 0 0 872.0 41.0 51.0 1030.0 976.0 1036.0 45.0 90.0 0 0 0 0 c 0 0 0 51.0 25.0 882.0 15.0 39.0 14.0 21.0 130.0 0 0 0 0 g 0 0 0 28.0 28.0 75.0 18.0 47.0 19.0 989.0 788.0 0 0 0 0 t 0 0 0 130.0 987.0 73.0 18.0 19.0 12.0 26.0 73.0 0 0 0 0

MA2098.1_shift7 (ZNF766)
; oligos_6nt_mkv3_m4 versus MA2098.1 (ZNF766); m=7/13; ncol2=9; w=0; offset=4; strand=D; shift=7; score=0.479571; -------AAkAAACC ; cor=; Ncor= a 0 0 0 0 0 0 0 6635.0 7378.0 51.0 7935.0 8002.0 7986.0 67.0 326.0 c 0 0 0 0 0 0 0 373.0 20.0 67.0 95.0 26.0 15.0 7904.0 7492.0 g 0 0 0 0 0 0 0 831.0 431.0 5092.0 20.0 21.0 47.0 35.0 56.0 t 0 0 0 0 0 0 0 230.0 240.0 2859.0 19.0 20.0 21.0 63.0 195.0

MA0442.3_shift4 (SOX10)
; oligos_6nt_mkv3_m4 versus MA0442.3 (SOX10); m=8/13; ncol2=6; w=0; offset=1; strand=D; shift=4; score=0.467955; ----ACAAAG----- ; cor=; Ncor= a 0 0 0 0 2023.0 3.0 2029.0 1968.0 1959.0 10.0 0 0 0 0 0 c 0 0 0 0 4.0 1989.0 7.0 28.0 23.0 13.0 0 0 0 0 0 g 0 0 0 0 3.0 11.0 7.0 20.0 12.0 2012.0 0 0 0 0 0 t 0 0 0 0 25.0 52.0 12.0 39.0 61.0 20.0 0 0 0 0 0

MA0523.2_shift1 (TCF7L2)
; oligos_6nt_mkv3_m4 versus MA0523.2 (TCF7L2); m=9/13; ncol2=9; w=-2; offset=-2; strand=D; shift=1; score=0.438951; -AswTCAAAG----- ; cor=; Ncor= a 0 3070.0 85.0 2795.0 138.0 155.0 4188.0 4103.0 4169.0 303.0 0 0 0 0 0 c 0 136.0 1947.0 26.0 0.0 3304.0 0.0 15.0 0.0 37.0 0 0 0 0 0 g 0 559.0 2008.0 0.0 0.0 729.0 0.0 70.0 19.0 3848.0 0 0 0 0 0 t 0 423.0 148.0 1367.0 4050.0 0.0 0.0 0.0 0.0 0.0 0 0 0 0 0

MA1991.2_rc_shift1 (Hnf1A_rc)
; oligos_6nt_mkv3_m4 versus MA1991.2_rc (Hnf1A_rc); m=10/13; ncol2=10; w=-2; offset=-2; strand=R; shift=1; score=0.438136; -asATCAAAGg---- ; cor=; Ncor= a 0 784.0 98.0 1092.0 73.0 68.0 1210.0 1122.0 1193.0 62.0 198.0 0 0 0 0 c 0 99.0 377.0 31.0 16.0 1033.0 12.0 60.0 7.0 39.0 204.0 0 0 0 0 g 0 210.0 689.0 21.0 35.0 118.0 11.0 51.0 30.0 1130.0 744.0 0 0 0 0 t 0 156.0 85.0 105.0 1125.0 30.0 16.0 16.0 19.0 18.0 103.0 0 0 0 0

MA1487.3_shift0 (FOXE1)
; oligos_6nt_mkv3_m4 versus MA1487.3 (FOXE1); m=11/13; ncol2=12; w=-3; offset=-3; strand=D; shift=0; score=0.42923; yTAARyAAACAa--- ; cor=; Ncor= a 86.0 581.0 3126.0 2547.0 2255.0 587.0 3126.0 3126.0 3126.0 0.0 3126.0 2026.0 0 0 0 c 1646.0 43.0 28.0 113.0 117.0 1062.0 362.0 90.0 0.0 3126.0 32.0 392.0 0 0 0 g 57.0 0.0 402.0 116.0 871.0 17.0 0.0 0.0 23.0 0.0 18.0 258.0 0 0 0 t 1479.0 2545.0 43.0 579.0 27.0 2064.0 20.0 53.0 9.0 85.0 110.0 450.0 0 0 0

MA0847.4_shift0 (FOXD2)
; oligos_6nt_mkv3_m4 versus MA0847.4 (FOXD2); m=12/13; ncol2=11; w=-3; offset=-3; strand=D; shift=0; score=0.410277; yTAAryAAACA---- ; cor=; Ncor= a 219.0 480.0 2484.0 2484.0 2484.0 84.0 2484.0 2484.0 2484.0 0.0 2484.0 0 0 0 0 c 906.0 19.0 16.0 285.0 23.0 1342.0 81.0 23.0 0.0 2484.0 24.0 0 0 0 0 g 131.0 0.0 137.0 292.0 1615.0 3.0 0.0 18.0 5.0 0.0 34.0 0 0 0 0 t 1578.0 2004.0 0.0 262.0 4.0 1141.0 79.0 1.0 2.0 768.0 232.0 0 0 0 0

MA0515.1_rc_shift1 (Sox6_rc)
; oligos_6nt_mkv3_m4 versus MA0515.1_rc (Sox6_rc); m=13/13; ncol2=10; w=-2; offset=-2; strand=R; shift=1; score=0.405238; -rrrACAAwGg---- ; cor=; Ncor= a 0 128.0 133.0 129.0 249.0 0.0 249.0 249.0 88.0 28.0 56.0 0 0 0 0 c 0 31.0 0.0 5.0 0.0 249.0 0.0 0.0 0.0 0.0 50.0 0 0 0 0 g 0 76.0 112.0 115.0 0.0 0.0 0.0 0.0 0.0 221.0 139.0 0 0 0 0 t 0 14.0 4.0 0.0 0.0 0.0 0.0 0.0 161.0 0.0 4.0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m5_shift4 ; 18 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m5_shift4 (oligos_6nt_mkv3_m5)
; oligos_6nt_mkv3_m5; m=0 (reference); ncol1=12; shift=4; ncol=16; ----rwAAGGAAggrw ; Alignment reference a 0 0 0 0 191 148 482 495 9 36 502 497 91 100 167 168 c 0 0 0 0 83 82 8 11 11 8 9 12 27 54 107 99 g 0 0 0 0 144 129 24 14 499 477 10 9 346 305 133 128 t 0 0 0 0 111 170 15 9 10 8 8 11 65 70 122 134

MA0136.4_shift6 (Elf5)
; oligos_6nt_mkv3_m5 versus MA0136.4 (Elf5); m=1/17; ncol2=8; w=0; offset=2; strand=D; shift=6; score=0.614027; ------AAGGAAGT-- ; cor=; Ncor= a 0 0 0 0 0 0 29427.0 38778.0 512.0 587.0 40896.0 40552.0 2609.0 5180.0 0 0 c 0 0 0 0 0 0 6065.0 978.0 182.0 510.0 580.0 389.0 1234.0 3355.0 0 0 g 0 0 0 0 0 0 5204.0 2049.0 41025.0 40626.0 390.0 481.0 37803.0 4948.0 0 0 t 0 0 0 0 0 0 1450.0 341.0 427.0 423.0 280.0 724.0 500.0 28663.0 0 0

MA0474.4_shift5 (Erg)
; oligos_6nt_mkv3_m5 versus MA0474.4 (Erg); m=2/17; ncol2=10; w=0; offset=1; strand=D; shift=5; score=0.61168; -----aCAGGAAGTg- ; cor=; Ncor= a 0 0 0 0 0 19688.0 1837.0 26773.0 170.0 297.0 29248.0 27881.0 4894.0 2318.0 4846.0 0 c 0 0 0 0 0 2742.0 24759.0 2559.0 133.0 265.0 355.0 370.0 1173.0 3310.0 3938.0 0 g 0 0 0 0 0 4936.0 2732.0 463.0 29562.0 29221.0 274.0 277.0 23600.0 2870.0 18018.0 0 t 0 0 0 0 0 2695.0 733.0 266.0 196.0 278.0 184.0 1533.0 394.0 21563.0 3259.0 0

MA0062.4_rc_shift5 (GABPA_rc)
; oligos_6nt_mkv3_m5 versus MA0062.4_rc (GABPA_rc); m=3/17; ncol2=10; w=0; offset=1; strand=R; shift=5; score=0.601221; -----aCAGGAAGTg- ; cor=; Ncor= a 0 0 0 0 0 40409.0 5012.0 57654.0 859.0 1558.0 61754.0 59186.0 6717.0 4358.0 9453.0 0 c 0 0 0 0 0 7720.0 51920.0 4561.0 520.0 1150.0 1633.0 965.0 2169.0 4873.0 6989.0 0 g 0 0 0 0 0 12006.0 6328.0 1542.0 63107.0 61373.0 1230.0 1443.0 55664.0 3988.0 41398.0 0 t 0 0 0 0 0 5344.0 2219.0 1722.0 993.0 1398.0 862.0 3885.0 929.0 52260.0 7639.0 0

MA0640.3_rc_shift6 (ELF3_rc)
; oligos_6nt_mkv3_m5 versus MA0640.3_rc (ELF3_rc); m=4/17; ncol2=9; w=0; offset=2; strand=R; shift=6; score=0.584945; ------cAGGAAGTg- ; cor=; Ncor= a 0 0 0 0 0 0 8528.0 44422.0 475.0 793.0 46173.0 45195.0 4633.0 3204.0 9951.0 0 c 0 0 0 0 0 0 28319.0 1989.0 473.0 566.0 954.0 768.0 1365.0 2615.0 4122.0 0 g 0 0 0 0 0 0 9278.0 1315.0 47107.0 46481.0 943.0 1368.0 41950.0 2040.0 27973.0 0 t 0 0 0 0 0 0 2377.0 776.0 447.0 662.0 432.0 1171.0 554.0 40643.0 6456.0 0

MA0598.4_rc_shift6 (EHF_rc)
; oligos_6nt_mkv3_m5 versus MA0598.4_rc (EHF_rc); m=5/17; ncol2=9; w=0; offset=2; strand=R; shift=6; score=0.576289; ------cAGGAAGTg- ; cor=; Ncor= a 0 0 0 0 0 0 2629.0 12794.0 112.0 201.0 14865.0 14622.0 1706.0 723.0 2827.0 0 c 0 0 0 0 0 0 9061.0 1538.0 101.0 139.0 199.0 152.0 377.0 775.0 1540.0 0 g 0 0 0 0 0 0 2983.0 608.0 14997.0 14833.0 164.0 167.0 13116.0 456.0 8887.0 0 t 0 0 0 0 0 0 695.0 428.0 158.0 195.0 140.0 427.0 169.0 13414.0 2114.0 0

MA2332.1_shift5 (ZNF175)
; oligos_6nt_mkv3_m5 versus MA2332.1 (ZNF175); m=6/17; ncol2=9; w=0; offset=1; strand=D; shift=5; score=0.560477; -----aCAGGAAGT-- ; cor=; Ncor= a 0 0 0 0 0 923.0 114.0 1333.0 26.0 44.0 1399.0 1343.0 99.0 126.0 0 0 c 0 0 0 0 0 177.0 1138.0 66.0 26.0 12.0 32.0 32.0 44.0 144.0 0 0 g 0 0 0 0 0 207.0 142.0 42.0 1397.0 1373.0 21.0 28.0 1309.0 102.0 0 0 t 0 0 0 0 0 169.0 82.0 35.0 27.0 47.0 24.0 73.0 24.0 1104.0 0 0

MA0761.3_shift5 (ETV1)
; oligos_6nt_mkv3_m5 versus MA0761.3 (ETV1); m=7/17; ncol2=9; w=0; offset=1; strand=D; shift=5; score=0.553884; -----aCAGGAAGT-- ; cor=; Ncor= a 0 0 0 0 0 22801.0 1848.0 33305.0 231.0 378.0 36130.0 33368.0 4235.0 3343.0 0 0 c 0 0 0 0 0 4339.0 32139.0 3064.0 275.0 271.0 471.0 486.0 1307.0 3889.0 0 0 g 0 0 0 0 0 6015.0 2389.0 573.0 36483.0 36121.0 375.0 412.0 31256.0 3146.0 0 0 t 0 0 0 0 0 4184.0 963.0 397.0 350.0 569.0 363.0 3073.0 541.0 26961.0 0 0

MA1992.2_shift6 (Ikzf3)
; oligos_6nt_mkv3_m5 versus MA1992.2 (Ikzf3); m=8/17; ncol2=9; w=0; offset=2; strand=D; shift=6; score=0.551389; ------CAGGAAGTG- ; cor=; Ncor= a 0 0 0 0 0 0 51.0 1054.0 4.0 18.0 1130.0 1058.0 102.0 115.0 125.0 0 c 0 0 0 0 0 0 998.0 62.0 7.0 16.0 25.0 12.0 45.0 147.0 141.0 0 g 0 0 0 0 0 0 103.0 48.0 1166.0 1141.0 22.0 20.0 1011.0 111.0 808.0 0 t 0 0 0 0 0 0 31.0 19.0 6.0 8.0 6.0 93.0 25.0 810.0 109.0 0

MA0149.1_shift0 (EWSR1-FLI1)
; oligos_6nt_mkv3_m5 versus MA0149.1 (EWSR1-FLI1); m=9/17; ncol2=18; w=-4; offset=-4; strand=D; shift=0; score=0.543539; GGAAGGAAGGAAGGAA ; cor=; Ncor= a 0.0 2.0 104.0 104.0 1.0 2.0 103.0 102.0 0.0 0.0 99.0 105.0 0.0 0.0 100.0 102.0 c 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 2.0 4.0 0.0 0.0 2.0 3.0 0.0 g 105.0 103.0 1.0 1.0 104.0 102.0 2.0 3.0 104.0 103.0 2.0 0.0 105.0 103.0 0.0 2.0 t 0.0 0.0 0.0 0.0 0.0 1.0 0.0 0.0 1.0 0.0 0.0 0.0 0.0 0.0 2.0 1.0

MA0473.4_shift6 (ELF1)
; oligos_6nt_mkv3_m5 versus MA0473.4 (ELF1); m=10/17; ncol2=9; w=0; offset=2; strand=D; shift=6; score=0.541439; ------CAGGAAGTG- ; cor=; Ncor= a 0 0 0 0 0 0 3094.0 42164.0 320.0 649.0 45930.0 45243.0 4063.0 3009.0 5688.0 0 c 0 0 0 0 0 0 37923.0 4038.0 421.0 505.0 796.0 705.0 1570.0 1993.0 4236.0 0 g 0 0 0 0 0 0 4819.0 932.0 46642.0 45970.0 676.0 779.0 41738.0 2007.0 34757.0 0 t 0 0 0 0 0 0 1934.0 636.0 387.0 646.0 368.0 1043.0 399.0 40761.0 3089.0 0

MA1508.2_shift4 (IKZF1)
; oligos_6nt_mkv3_m5 versus MA1508.2 (IKZF1); m=11/17; ncol2=8; w=0; offset=0; strand=D; shift=4; score=0.506723; ----AACAGGAA---- ; cor=; Ncor= a 0 0 0 0 8122.0 9137.0 673.0 10194.0 125.0 418.0 10323.0 10254.0 0 0 0 0 c 0 0 0 0 1158.0 473.0 8678.0 212.0 106.0 178.0 247.0 114.0 0 0 0 0 g 0 0 0 0 1007.0 956.0 1272.0 252.0 10569.0 10185.0 297.0 261.0 0 0 0 0 t 0 0 0 0 631.0 352.0 295.0 260.0 118.0 137.0 51.0 289.0 0 0 0 0

MA1935.2_shift3 (ERF::FOXI1)
; oligos_6nt_mkv3_m5 versus MA1935.2 (ERF::FOXI1); m=12/17; ncol2=10; w=-1; offset=-1; strand=D; shift=3; score=0.495484; ---aaACmGGAAr--- ; cor=; Ncor= a 0 0 0 719.0 719.0 719.0 87.0 403.0 35.0 0.0 719.0 719.0 287.0 0 0 0 c 0 0 0 287.0 161.0 50.0 719.0 316.0 28.0 33.0 1.0 89.0 87.0 0 0 0 g 0 0 0 125.0 150.0 175.0 112.0 27.0 719.0 719.0 6.0 5.0 433.0 0 0 0 t 0 0 0 178.0 224.0 12.0 52.0 0.0 0.0 20.0 10.0 236.0 16.0 0 0 0

MA2326.1_shift7 (IKZF2)
; oligos_6nt_mkv3_m5 versus MA2326.1 (IKZF2); m=13/17; ncol2=6; w=0; offset=3; strand=D; shift=7; score=0.492277; -------AGGAAG--- ; cor=; Ncor= a 0 0 0 0 0 0 0 11101.0 2.0 5.0 11264.0 11159.0 21.0 0 0 0 c 0 0 0 0 0 0 0 208.0 127.0 7.0 25.0 191.0 57.0 0 0 0 g 0 0 0 0 0 0 0 79.0 11244.0 11270.0 17.0 26.0 11273.0 0 0 0 t 0 0 0 0 0 0 0 6.0 21.0 112.0 88.0 18.0 43.0 0 0 0

MA1944.2_shift7 (ETV5::DRGX)
; oligos_6nt_mkv3_m5 versus MA1944.2 (ETV5::DRGX); m=14/17; ncol2=12; w=0; offset=3; strand=D; shift=7; score=0.45162; -------mGGAAGyAA ; cor=; Ncor= a 0 0 0 0 0 0 0 157.0 4.0 0.0 440.0 329.0 51.0 31.0 440.0 440.0 c 0 0 0 0 0 0 0 283.0 3.0 11.0 10.0 29.0 51.0 178.0 18.0 51.0 g 0 0 0 0 0 0 0 12.0 440.0 440.0 0.0 15.0 440.0 35.0 141.0 79.0 t 0 0 0 0 0 0 0 16.0 2.0 0.0 1.0 111.0 0.0 262.0 3.0 56.0

MA1121.2_rc_shift8 (TEAD2_rc)
; oligos_6nt_mkv3_m5 versus MA1121.2_rc (TEAD2_rc); m=15/17; ncol2=7; w=0; offset=4; strand=R; shift=8; score=0.447427; --------GGAATGT- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 18.0 24.0 510.0 524.0 9.0 11.0 14.0 0 c 0 0 0 0 0 0 0 0 3.0 10.0 9.0 6.0 11.0 14.0 70.0 0 g 0 0 0 0 0 0 0 0 513.0 500.0 8.0 10.0 5.0 478.0 17.0 0 t 0 0 0 0 0 0 0 0 8.0 8.0 15.0 2.0 517.0 39.0 441.0 0

MA0101.1_rc_shift8 (REL_rc)
; oligos_6nt_mkv3_m5 versus MA0101.1_rc (REL_rc); m=16/17; ncol2=10; w=0; offset=4; strand=R; shift=8; score=0.427759; --------GGAAwkyC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0.0 2.0 15.0 16.0 10.0 3.0 2.0 1.0 c 0 0 0 0 0 0 0 0 0.0 0.0 0.0 0.0 1.0 3.0 9.0 15.0 g 0 0 0 0 0 0 0 0 16.0 15.0 0.0 0.0 1.0 5.0 1.0 0.0 t 0 0 0 0 0 0 0 0 1.0 0.0 2.0 1.0 5.0 6.0 5.0 1.0

MA1937.2_shift7 (ERF::HOXB13)
; oligos_6nt_mkv3_m5 versus MA1937.2 (ERF::HOXB13); m=17/17; ncol2=13; w=0; offset=3; strand=D; shift=7; score=0.411805; -------cGGAaryhr ; cor=; Ncor= a 0 0 0 0 0 0 0 545.0 19.0 28.0 2141.0 2141.0 845.0 69.0 619.0 1067.0 c 0 0 0 0 0 0 0 1597.0 4.0 0.0 49.0 284.0 193.0 795.0 634.0 94.0 g 0 0 0 0 0 0 0 249.0 2141.0 2141.0 28.0 84.0 1296.0 93.0 335.0 1074.0 t 0 0 0 0 0 0 0 35.0 7.0 36.0 41.0 725.0 37.0 1184.0 554.0 287.0

One-to-n matrix alignment; reference matrix: positions_6nt_m2_shift0 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m2_shift0 (positions_6nt_m2)
; positions_6nt_m2; m=0 (reference); ncol1=15; shift=0; ncol=15; crrACATGCCCagrc ; Alignment reference a 187 285 296 736 7 734 37 16 21 45 40 500 88 316 181 c 255 121 111 22 812 36 13 6 725 763 671 68 127 136 454 g 197 310 368 75 18 21 23 809 7 17 12 180 552 296 123 t 207 130 71 13 9 55 773 15 93 21 123 98 79 98 88

MA0106.3_shift2 (TP53)
; positions_6nt_m2 versus MA0106.3 (TP53); m=1/4; ncol2=18; w=0; offset=2; strand=D; shift=2; score=0.594259; --rACATGyCcgGrC ; cor=; Ncor= a 0 0 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 3584.0 7104.0 0.0 c 0 0 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 756.0 26.0 19350.0 g 0 0 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 17846.0 8821.0 4.0 t 0 0 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0 1546.0 190.0 1.0

MA1979.2_rc_shift6 (ZNF416_rc)
; positions_6nt_m2 versus MA1979.2_rc (ZNF416_rc); m=2/4; ncol2=10; w=0; offset=6; strand=R; shift=6; score=0.494261; ------tGCCCAGAt ; cor=; Ncor= a 0 0 0 0 0 0 66.0 18.0 3.0 3.0 2.0 336.0 3.0 254.0 46.0 c 0 0 0 0 0 0 29.0 3.0 341.0 335.0 335.0 1.0 7.0 15.0 77.0 g 0 0 0 0 0 0 38.0 320.0 1.0 5.0 7.0 6.0 334.0 28.0 25.0 t 0 0 0 0 0 0 212.0 4.0 0.0 2.0 1.0 2.0 1.0 48.0 197.0

MA0861.2_shift3 (TP73)
; positions_6nt_m2 versus MA0861.2 (TP73); m=3/4; ncol2=16; w=0; offset=3; strand=D; shift=3; score=0.472395; ---rCATGTcyrrAC ; cor=; Ncor= a 0 0 0 6206.0 0.0 8760.0 3837.0 8.0 130.0 1377.0 2166.0 3488.0 3988.0 9639.0 0.0 c 0 0 0 429.0 10829.0 124.0 293.0 28.0 2591.0 8161.0 2940.0 2418.0 441.0 145.0 11703.0 g 0 0 0 3304.0 0.0 557.0 806.0 11787.0 91.0 783.0 2230.0 3558.0 7797.0 1414.0 0.0 t 0 0 0 208.0 0.0 198.0 11480.0 1.0 11892.0 2749.0 4242.0 2457.0 1002.0 442.0 0.0

MA0597.3_rc_shift6 (THAP1_rc)
; positions_6nt_m2 versus MA0597.3_rc (THAP1_rc); m=4/4; ncol2=8; w=0; offset=6; strand=R; shift=6; score=0.437377; ------TGCCCTgc- ; cor=; Ncor= a 0 0 0 0 0 0 11.0 115.0 78.0 62.0 71.0 8.0 341.0 549.0 0 c 0 0 0 0 0 0 172.0 104.0 4942.0 4893.0 4958.0 220.0 933.0 3186.0 0 g 0 0 0 0 0 0 95.0 4861.0 67.0 183.0 127.0 219.0 3351.0 966.0 0 t 0 0 0 0 0 0 4900.0 98.0 91.0 40.0 22.0 4731.0 553.0 477.0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m2_shift0 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m2_shift0 (oligos_6nt_mkv3_m2)
; oligos_6nt_mkv3_m2; m=0 (reference); ncol1=12; shift=0; ncol=12; hrgACAAGTCys ; Alignment reference a 146 198 81 397 7 556 404 5 11 18 140 141 c 168 70 59 44 557 11 24 7 16 535 202 157 g 108 209 350 116 12 9 15 560 6 6 54 172 t 159 104 91 24 5 5 138 9 548 22 185 111

MA0844.2_shift2 (XBP1)
; oligos_6nt_mkv3_m2 versus MA0844.2 (XBP1); m=1/6; ncol2=11; w=0; offset=2; strand=D; shift=2; score=0.559066; --GmCACGTCAk ; cor=; Ncor= a 0 0 974.0 3699.0 167.0 7840.0 9.0 52.0 0.0 380.0 8004.0 230.0 c 0 0 367.0 3809.0 7169.0 17.0 7356.0 0.0 16.0 7264.0 48.0 2273.0 g 0 0 9168.0 59.0 222.0 276.0 2.0 11353.0 8.0 47.0 173.0 3157.0 t 0 0 2321.0 247.0 442.0 118.0 10.0 10.0 9107.0 35.0 92.0 6389.0

MA0676.1_shift3 (Nr2e1)
; oligos_6nt_mkv3_m2 versus MA0676.1 (Nr2e1); m=2/6; ncol2=9; w=0; offset=3; strand=D; shift=3; score=0.525572; ---aaAAGTCAA ; cor=; Ncor= a 0 0 0 1118.0 1118.0 1118.0 1118.0 40.0 0.0 11.0 1118.0 1118.0 c 0 0 0 244.0 89.0 1.0 0.0 0.0 58.0 1118.0 0.0 131.0 g 0 0 0 191.0 448.0 101.0 74.0 1118.0 0.0 12.0 0.0 117.0 t 0 0 0 401.0 369.0 19.0 5.0 8.0 1118.0 112.0 0.0 247.0

MA0861.2_shift3 (TP73)
; oligos_6nt_mkv3_m2 versus MA0861.2 (TP73); m=3/6; ncol2=16; w=0; offset=3; strand=D; shift=3; score=0.431617; ---rCATGTcyr ; cor=; Ncor= a 0 0 0 6206.0 0.0 8760.0 3837.0 8.0 130.0 1377.0 2166.0 3488.0 c 0 0 0 429.0 10829.0 124.0 293.0 28.0 2591.0 8161.0 2940.0 2418.0 g 0 0 0 3304.0 0.0 557.0 806.0 11787.0 91.0 783.0 2230.0 3558.0 t 0 0 0 208.0 0.0 198.0 11480.0 1.0 11892.0 2749.0 4242.0 2457.0

MA0525.2_rc_shift2 (TP63_rc)
; oligos_6nt_mkv3_m2 versus MA0525.2_rc (TP63_rc); m=4/6; ncol2=18; w=0; offset=2; strand=R; shift=2; score=0.416263; --gACATGTymc ; cor=; Ncor= a 0 0 606.0 3126.0 0.0 2823.0 192.0 0.0 45.0 47.0 829.0 13.0 c 0 0 198.0 1.0 3532.0 8.0 1.0 0.0 48.0 2132.0 1656.0 2070.0 g 0 0 2099.0 202.0 0.0 617.0 0.0 2788.0 0.0 1.0 681.0 478.0 t 0 0 701.0 49.0 0.0 75.0 2151.0 0.0 2192.0 993.0 112.0 649.0

MA0775.2_shift0 (MEIS3)
; oligos_6nt_mkv3_m2 versus MA0775.2 (MEIS3); m=5/6; ncol2=7; w=0; offset=0; strand=D; shift=0; score=0.413672; wTGACAg----- ; cor=; Ncor= a 1866.0 465.0 0.0 7165.0 53.0 7165.0 1690.0 0 0 0 0 0 c 60.0 383.0 6.0 20.0 7165.0 8.0 1889.0 0 0 0 0 0 g 1788.0 260.0 7165.0 455.0 8.0 468.0 7165.0 0 0 0 0 0 t 3451.0 7165.0 0.0 53.0 160.0 145.0 2094.0 0 0 0 0 0

MA0161.3_rc_shift1 (NFIC_rc)
; oligos_6nt_mkv3_m2 versus MA0161.3_rc (NFIC_rc); m=6/6; ncol2=7; w=0; offset=1; strand=R; shift=1; score=0.412971; -TGCCAAG---- ; cor=; Ncor= a 0 574.0 530.0 290.0 81.0 10745.0 10781.0 324.0 0 0 0 0 c 0 478.0 88.0 10973.0 11087.0 177.0 369.0 329.0 0 0 0 0 g 0 397.0 10725.0 121.0 129.0 333.0 303.0 10542.0 0 0 0 0 t 0 10158.0 264.0 223.0 310.0 352.0 154.0 412.0 0 0 0 0

One-to-n matrix alignment; reference matrix: positions_7nt_m2_shift5 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m2_shift5 (positions_7nt_m2)
; positions_7nt_m2; m=0 (reference); ncol1=16; shift=5; ncol=21; -----gyctGGGCATGTCyrg ; Alignment reference a 0 0 0 0 0 87 95 75 86 98 30 99 7 744 68 11 12 36 94 231 151 c 0 0 0 0 0 149 302 475 169 18 23 12 799 20 17 19 135 612 452 182 198 g 0 0 0 0 0 419 110 166 70 668 740 699 6 18 33 788 19 67 44 240 333 t 0 0 0 0 0 167 315 106 497 38 29 12 10 40 704 4 656 107 232 169 140

MA0106.3_rc_shift0 (TP53_rc)
; positions_7nt_m2 versus MA0106.3_rc (TP53_rc); m=1/4; ncol2=18; w=-5; offset=-5; strand=R; shift=0; score=0.550697; rACATGyCcgGrCATGTy--- ; cor=; Ncor= a 9120.0 17859.0 68.0 17864.0 1155.0 1.0 190.0 1546.0 2118.0 3774.0 2642.0 7106.0 0.0 18893.0 739.0 837.0 735.0 2268.0 0 0 0 c 825.0 116.0 20549.0 89.0 157.0 4.0 8821.0 17846.0 9954.0 2151.0 417.0 109.0 20393.0 137.0 653.0 13.0 2433.0 6563.0 0 0 0 g 9183.0 3338.0 33.0 118.0 250.0 19350.0 26.0 756.0 1474.0 11875.0 17286.0 12014.0 2.0 374.0 204.0 19689.0 116.0 1037.0 0 0 0 t 1472.0 879.0 327.0 1825.0 12925.0 0.0 7104.0 3584.0 3851.0 1145.0 1228.0 244.0 8.0 1710.0 11931.0 45.0 10514.0 7544.0 0 0 0

MA1979.2_shift4 (ZNF416)
; positions_7nt_m2 versus MA1979.2 (ZNF416); m=2/4; ncol2=10; w=-1; offset=-1; strand=D; shift=4; score=0.463425; ----TaTCTGGGCa------- ; cor=; Ncor= a 0 0 0 0 47.0 197.0 48.0 1.0 2.0 1.0 2.0 0.0 4.0 212.0 0 0 0 0 0 0 0 c 0 0 0 0 32.0 25.0 28.0 334.0 6.0 7.0 5.0 1.0 320.0 38.0 0 0 0 0 0 0 0 g 0 0 0 0 26.0 77.0 15.0 7.0 1.0 335.0 335.0 341.0 3.0 29.0 0 0 0 0 0 0 0 t 0 0 0 0 240.0 46.0 254.0 3.0 336.0 2.0 3.0 3.0 18.0 66.0 0 0 0 0 0 0 0

MA0861.2_rc_shift1 (TP73_rc)
; positions_7nt_m2 versus MA0861.2_rc (TP73_rc); m=3/4; ncol2=16; w=-4; offset=-4; strand=R; shift=1; score=0.447563; -rCrTGTyyrgACATGy---- ; cor=; Ncor= a 0 6995.0 39.0 8476.0 2302.0 0.0 442.0 1002.0 2457.0 4242.0 2749.0 11892.0 1.0 11480.0 198.0 0.0 208.0 0 0 0 0 c 0 181.0 13026.0 130.0 279.0 0.0 1414.0 7797.0 3558.0 2230.0 783.0 91.0 11787.0 806.0 557.0 0.0 3304.0 0 0 0 0 g 0 6944.0 170.0 5965.0 143.0 11703.0 145.0 441.0 2418.0 2940.0 8161.0 2591.0 28.0 293.0 124.0 10829.0 429.0 0 0 0 0 t 0 993.0 16.0 256.0 10125.0 0.0 9639.0 3988.0 3488.0 2166.0 1377.0 130.0 8.0 3837.0 8760.0 0.0 6206.0 0 0 0 0

MA0597.3_shift6 (THAP1)
; positions_7nt_m2 versus MA0597.3 (THAP1); m=4/4; ncol2=8; w=0; offset=1; strand=D; shift=6; score=0.405375; ------gcAGGGCA------- ; cor=; Ncor= a 0 0 0 0 0 0 477.0 553.0 4731.0 22.0 40.0 91.0 98.0 4900.0 0 0 0 0 0 0 0 c 0 0 0 0 0 0 966.0 3351.0 219.0 127.0 183.0 67.0 4861.0 95.0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 3186.0 933.0 220.0 4958.0 4893.0 4942.0 104.0 172.0 0 0 0 0 0 0 0 t 0 0 0 0 0 0 549.0 341.0 8.0 71.0 62.0 78.0 115.0 11.0 0 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m3_shift8 ; 6 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m3_shift8 (oligos_7nt_mkv4_m3)
; oligos_7nt_mkv4_m3; m=0 (reference); ncol1=12; shift=8; ncol=20; --------yrGACAAGTCyv ; Alignment reference a 0 0 0 0 0 0 0 0 97 172 26 353 7 433 316 4 8 10 97 119 c 0 0 0 0 0 0 0 0 148 38 19 14 429 6 22 1 40 415 182 126 g 0 0 0 0 0 0 0 0 75 177 389 79 11 9 8 442 12 7 27 132 t 0 0 0 0 0 0 0 0 131 64 17 5 4 3 105 4 391 19 145 74

MA0844.2_shift10 (XBP1)
; oligos_7nt_mkv4_m3 versus MA0844.2 (XBP1); m=1/5; ncol2=11; w=0; offset=2; strand=D; shift=10; score=0.547156; ----------GmCACGTCAk ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 974.0 3699.0 167.0 7840.0 9.0 52.0 0.0 380.0 8004.0 230.0 c 0 0 0 0 0 0 0 0 0 0 367.0 3809.0 7169.0 17.0 7356.0 0.0 16.0 7264.0 48.0 2273.0 g 0 0 0 0 0 0 0 0 0 0 9168.0 59.0 222.0 276.0 2.0 11353.0 8.0 47.0 173.0 3157.0 t 0 0 0 0 0 0 0 0 0 0 2321.0 247.0 442.0 118.0 10.0 10.0 9107.0 35.0 92.0 6389.0

MA0775.2_shift8 (MEIS3)
; oligos_7nt_mkv4_m3 versus MA0775.2 (MEIS3); m=2/5; ncol2=7; w=0; offset=0; strand=D; shift=8; score=0.431482; --------wTGACAg----- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1866.0 465.0 0.0 7165.0 53.0 7165.0 1690.0 0 0 0 0 0 c 0 0 0 0 0 0 0 0 60.0 383.0 6.0 20.0 7165.0 8.0 1889.0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 1788.0 260.0 7165.0 455.0 8.0 468.0 7165.0 0 0 0 0 0 t 0 0 0 0 0 0 0 0 3451.0 7165.0 0.0 53.0 160.0 145.0 2094.0 0 0 0 0 0

MA0861.2_shift11 (TP73)
; oligos_7nt_mkv4_m3 versus MA0861.2 (TP73); m=3/5; ncol2=16; w=0; offset=3; strand=D; shift=11; score=0.430271; -----------rCATGTcyr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 6206.0 0.0 8760.0 3837.0 8.0 130.0 1377.0 2166.0 3488.0 c 0 0 0 0 0 0 0 0 0 0 0 429.0 10829.0 124.0 293.0 28.0 2591.0 8161.0 2940.0 2418.0 g 0 0 0 0 0 0 0 0 0 0 0 3304.0 0.0 557.0 806.0 11787.0 91.0 783.0 2230.0 3558.0 t 0 0 0 0 0 0 0 0 0 0 0 208.0 0.0 198.0 11480.0 1.0 11892.0 2749.0 4242.0 2457.0

MA0525.2_rc_shift10 (TP63_rc)
; oligos_7nt_mkv4_m3 versus MA0525.2_rc (TP63_rc); m=4/5; ncol2=18; w=0; offset=2; strand=R; shift=10; score=0.414371; ----------gACATGTymc ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 606.0 3126.0 0.0 2823.0 192.0 0.0 45.0 47.0 829.0 13.0 c 0 0 0 0 0 0 0 0 0 0 198.0 1.0 3532.0 8.0 1.0 0.0 48.0 2132.0 1656.0 2070.0 g 0 0 0 0 0 0 0 0 0 0 2099.0 202.0 0.0 617.0 0.0 2788.0 0.0 1.0 681.0 478.0 t 0 0 0 0 0 0 0 0 0 0 701.0 49.0 0.0 75.0 2151.0 0.0 2192.0 993.0 112.0 649.0

MA0106.3_shift0 (TP53)
; oligos_7nt_mkv4_m3 versus MA0106.3 (TP53); m=5/5; ncol2=18; w=-8; offset=-8; strand=D; shift=0; score=0.40136; rACATGyCcgGrCATGTy-- ; cor=; Ncor= a 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 3584.0 7104.0 0.0 12925.0 1825.0 327.0 879.0 1472.0 0 0 c 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 756.0 26.0 19350.0 250.0 118.0 33.0 3338.0 9183.0 0 0 g 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 17846.0 8821.0 4.0 157.0 89.0 20549.0 116.0 825.0 0 0 t 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0 1546.0 190.0 1.0 1155.0 17864.0 68.0 17859.0 9120.0 0 0

One-to-n matrix alignment; reference matrix: positions_6nt_m1_shift0 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m1_shift0 (positions_6nt_m1)
; positions_6nt_m1; m=0 (reference); ncol1=17; shift=0; ncol=17; ycyrGACATGCCCagrc ; Alignment reference a 126 136 150 231 81 622 4 698 32 7 19 18 42 444 101 310 160 c 323 337 218 43 48 21 769 19 14 6 658 726 608 67 153 111 417 g 91 181 144 430 634 139 17 14 19 778 10 15 21 193 475 297 135 t 255 141 283 91 32 13 5 64 730 4 108 36 124 91 66 77 83

MA0106.3_shift4 (TP53)
; positions_6nt_m1 versus MA0106.3 (TP53); m=1/3; ncol2=18; w=0; offset=4; strand=D; shift=4; score=0.529999; ----rACATGyCcgGrC ; cor=; Ncor= a 0 0 0 0 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 3584.0 7104.0 0.0 c 0 0 0 0 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 756.0 26.0 19350.0 g 0 0 0 0 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 17846.0 8821.0 4.0 t 0 0 0 0 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0 1546.0 190.0 1.0

MA0861.2_shift5 (TP73)
; positions_6nt_m1 versus MA0861.2 (TP73); m=2/3; ncol2=16; w=0; offset=5; strand=D; shift=5; score=0.436945; -----rCATGTcyrrAC ; cor=; Ncor= a 0 0 0 0 0 6206.0 0.0 8760.0 3837.0 8.0 130.0 1377.0 2166.0 3488.0 3988.0 9639.0 0.0 c 0 0 0 0 0 429.0 10829.0 124.0 293.0 28.0 2591.0 8161.0 2940.0 2418.0 441.0 145.0 11703.0 g 0 0 0 0 0 3304.0 0.0 557.0 806.0 11787.0 91.0 783.0 2230.0 3558.0 7797.0 1414.0 0.0 t 0 0 0 0 0 208.0 0.0 198.0 11480.0 1.0 11892.0 2749.0 4242.0 2457.0 1002.0 442.0 0.0

MA1979.2_rc_shift8 (ZNF416_rc)
; positions_6nt_m1 versus MA1979.2_rc (ZNF416_rc); m=3/3; ncol2=10; w=0; offset=8; strand=R; shift=8; score=0.432019; --------tGCCCAGAt ; cor=; Ncor= a 0 0 0 0 0 0 0 0 66.0 18.0 3.0 3.0 2.0 336.0 3.0 254.0 46.0 c 0 0 0 0 0 0 0 0 29.0 3.0 341.0 335.0 335.0 1.0 7.0 15.0 77.0 g 0 0 0 0 0 0 0 0 38.0 320.0 1.0 5.0 7.0 6.0 334.0 28.0 25.0 t 0 0 0 0 0 0 0 0 212.0 4.0 0.0 2.0 1.0 2.0 1.0 48.0 197.0

One-to-n matrix alignment; reference matrix: positions_7nt_m1_shift0 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m1_shift0 (positions_7nt_m1)
; positions_7nt_m1; m=0 (reference); ncol1=17; shift=0; ncol=17; yccaGACATGCCCagrc ; Alignment reference a 111 127 107 449 74 578 8 611 38 9 17 43 27 447 97 304 157 c 310 303 386 41 70 12 686 35 11 5 592 620 584 53 143 99 365 g 80 151 112 142 537 115 13 14 15 695 5 18 13 133 401 231 117 t 213 133 109 82 33 9 7 54 650 5 100 33 90 81 73 80 75

MA0106.3_shift4 (TP53)
; positions_7nt_m1 versus MA0106.3 (TP53); m=1/3; ncol2=18; w=0; offset=4; strand=D; shift=4; score=0.522612; ----rACATGyCcgGrC ; cor=; Ncor= a 0 0 0 0 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 3584.0 7104.0 0.0 c 0 0 0 0 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 756.0 26.0 19350.0 g 0 0 0 0 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 17846.0 8821.0 4.0 t 0 0 0 0 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0 1546.0 190.0 1.0

MA1979.2_rc_shift8 (ZNF416_rc)
; positions_7nt_m1 versus MA1979.2_rc (ZNF416_rc); m=2/3; ncol2=10; w=0; offset=8; strand=R; shift=8; score=0.440041; --------tGCCCAGAt ; cor=; Ncor= a 0 0 0 0 0 0 0 0 66.0 18.0 3.0 3.0 2.0 336.0 3.0 254.0 46.0 c 0 0 0 0 0 0 0 0 29.0 3.0 341.0 335.0 335.0 1.0 7.0 15.0 77.0 g 0 0 0 0 0 0 0 0 38.0 320.0 1.0 5.0 7.0 6.0 334.0 28.0 25.0 t 0 0 0 0 0 0 0 0 212.0 4.0 0.0 2.0 1.0 2.0 1.0 48.0 197.0

MA0861.2_shift5 (TP73)
; positions_7nt_m1 versus MA0861.2 (TP73); m=3/3; ncol2=16; w=0; offset=5; strand=D; shift=5; score=0.432018; -----rCATGTcyrrAC ; cor=; Ncor= a 0 0 0 0 0 6206.0 0.0 8760.0 3837.0 8.0 130.0 1377.0 2166.0 3488.0 3988.0 9639.0 0.0 c 0 0 0 0 0 429.0 10829.0 124.0 293.0 28.0 2591.0 8161.0 2940.0 2418.0 441.0 145.0 11703.0 g 0 0 0 0 0 3304.0 0.0 557.0 806.0 11787.0 91.0 783.0 2230.0 3558.0 7797.0 1414.0 0.0 t 0 0 0 0 0 208.0 0.0 198.0 11480.0 1.0 11892.0 2749.0 4242.0 2457.0 1002.0 442.0 0.0

One-to-n matrix alignment; reference matrix: positions_6nt_m3_shift4 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m3_shift4 (positions_6nt_m3)
; positions_6nt_m3; m=0 (reference); ncol1=18; shift=4; ncol=22; ----gyccrGACATGCCCagrc ; Alignment reference a 0 0 0 0 92 120 129 132 443 72 682 10 746 51 10 15 44 44 481 120 344 186 c 0 0 0 0 187 394 435 399 54 56 19 837 36 17 8 728 769 662 82 175 117 430 g 0 0 0 0 472 91 160 149 270 714 157 14 19 23 847 10 23 27 196 504 312 159 t 0 0 0 0 119 265 146 190 103 28 12 9 69 779 5 117 34 137 111 71 97 95

MA0106.3_shift9 (TP53)
; positions_6nt_m3 versus MA0106.3 (TP53); m=1/3; ncol2=18; w=0; offset=5; strand=D; shift=9; score=0.501161; ---------rACATGyCcgGrC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 3584.0 7104.0 0.0 c 0 0 0 0 0 0 0 0 0 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 756.0 26.0 19350.0 g 0 0 0 0 0 0 0 0 0 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 17846.0 8821.0 4.0 t 0 0 0 0 0 0 0 0 0 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0 1546.0 190.0 1.0

MA0861.2_rc_shift0 (TP73_rc)
; positions_6nt_m3 versus MA0861.2_rc (TP73_rc); m=2/3; ncol2=16; w=-4; offset=-4; strand=R; shift=0; score=0.458156; rCrTGTyyrgACATGy------ ; cor=; Ncor= a 6995.0 39.0 8476.0 2302.0 0.0 442.0 1002.0 2457.0 4242.0 2749.0 11892.0 1.0 11480.0 198.0 0.0 208.0 0 0 0 0 0 0 c 181.0 13026.0 130.0 279.0 0.0 1414.0 7797.0 3558.0 2230.0 783.0 91.0 11787.0 806.0 557.0 0.0 3304.0 0 0 0 0 0 0 g 6944.0 170.0 5965.0 143.0 11703.0 145.0 441.0 2418.0 2940.0 8161.0 2591.0 28.0 293.0 124.0 10829.0 429.0 0 0 0 0 0 0 t 993.0 16.0 256.0 10125.0 0.0 9639.0 3988.0 3488.0 2166.0 1377.0 130.0 8.0 3837.0 8760.0 0.0 6206.0 0 0 0 0 0 0

MA1979.2_rc_shift13 (ZNF416_rc)
; positions_6nt_m3 versus MA1979.2_rc (ZNF416_rc); m=3/3; ncol2=10; w=0; offset=9; strand=R; shift=13; score=0.411503; -------------tGCCCAGAt ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 0 66.0 18.0 3.0 3.0 2.0 336.0 3.0 254.0 46.0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 29.0 3.0 341.0 335.0 335.0 1.0 7.0 15.0 77.0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 38.0 320.0 1.0 5.0 7.0 6.0 334.0 28.0 25.0 t 0 0 0 0 0 0 0 0 0 0 0 0 0 212.0 4.0 0.0 2.0 1.0 2.0 1.0 48.0 197.0

One-to-n matrix alignment; reference matrix: positions_6nt_m4_shift6 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m4_shift6 (positions_6nt_m4)
; positions_6nt_m4; m=0 (reference); ncol1=16; shift=6; ncol=22; ------ycygGACATGTCcrgr ; Alignment reference a 0 0 0 0 0 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 139 278 c 0 0 0 0 0 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 163 98 g 0 0 0 0 0 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 302 272 t 0 0 0 0 0 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121 141 97

MA0106.3_shift0 (TP53)
; positions_6nt_m4 versus MA0106.3 (TP53); m=1/3; ncol2=18; w=-6; offset=-6; strand=D; shift=0; score=0.485533; rACATGyCcgGrCATGTy---- ; cor=; Ncor= a 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 3584.0 7104.0 0.0 12925.0 1825.0 327.0 879.0 1472.0 0 0 0 0 c 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 756.0 26.0 19350.0 250.0 118.0 33.0 3338.0 9183.0 0 0 0 0 g 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 17846.0 8821.0 4.0 157.0 89.0 20549.0 116.0 825.0 0 0 0 0 t 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0 1546.0 190.0 1.0 1155.0 17864.0 68.0 17859.0 9120.0 0 0 0 0

MA0861.2_rc_shift1 (TP73_rc)
; positions_6nt_m4 versus MA0861.2_rc (TP73_rc); m=2/3; ncol2=16; w=-5; offset=-5; strand=R; shift=1; score=0.47143; -rCrTGTyyrgACATGy----- ; cor=; Ncor= a 0 6995.0 39.0 8476.0 2302.0 0.0 442.0 1002.0 2457.0 4242.0 2749.0 11892.0 1.0 11480.0 198.0 0.0 208.0 0 0 0 0 0 c 0 181.0 13026.0 130.0 279.0 0.0 1414.0 7797.0 3558.0 2230.0 783.0 91.0 11787.0 806.0 557.0 0.0 3304.0 0 0 0 0 0 g 0 6944.0 170.0 5965.0 143.0 11703.0 145.0 441.0 2418.0 2940.0 8161.0 2591.0 28.0 293.0 124.0 10829.0 429.0 0 0 0 0 0 t 0 993.0 16.0 256.0 10125.0 0.0 9639.0 3988.0 3488.0 2166.0 1377.0 130.0 8.0 3837.0 8760.0 0.0 6206.0 0 0 0 0 0

MA0525.2_shift0 (TP63)
; positions_6nt_m4 versus MA0525.2 (TP63); m=3/3; ncol2=18; w=-6; offset=-6; strand=D; shift=0; score=0.454378; rACATGTygkrACATGTc---- ; cor=; Ncor= a 1586.0 2261.0 0.0 2246.0 692.0 0.0 14.0 97.0 649.0 112.0 993.0 2192.0 0.0 2151.0 75.0 0.0 49.0 701.0 0 0 0 0 c 26.0 1.0 2533.0 0.0 33.0 0.0 85.0 1025.0 478.0 681.0 1.0 0.0 2788.0 0.0 617.0 0.0 202.0 2099.0 0 0 0 0 g 997.0 185.0 0.0 76.0 0.0 4021.0 0.0 26.0 2070.0 1656.0 2132.0 48.0 0.0 1.0 8.0 3532.0 1.0 198.0 0 0 0 0 t 115.0 21.0 0.0 4.0 2353.0 0.0 3025.0 1961.0 13.0 829.0 47.0 45.0 0.0 192.0 2823.0 0.0 3126.0 606.0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m3_shift7 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m3_shift7 (oligos_6nt_mkv3_m3)
; oligos_6nt_mkv3_m3; m=0 (reference); ncol1=14; shift=7; ncol=21; -------cyrGACATGTCyrg ; Alignment reference a 0 0 0 0 0 0 0 144 170 237 64 626 9 750 38 5 14 26 105 243 175 c 0 0 0 0 0 0 0 323 259 42 25 8 791 8 19 10 167 700 431 143 172 g 0 0 0 0 0 0 0 173 143 431 700 167 10 19 8 790 8 25 42 260 323 t 0 0 0 0 0 0 0 175 243 105 26 14 5 38 750 10 626 64 237 169 145

MA0861.2_shift11 (TP73)
; oligos_6nt_mkv3_m3 versus MA0861.2 (TP73); m=1/3; ncol2=16; w=0; offset=4; strand=D; shift=11; score=0.474352; -----------rCATGTcyrr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 6206.0 0.0 8760.0 3837.0 8.0 130.0 1377.0 2166.0 3488.0 3988.0 c 0 0 0 0 0 0 0 0 0 0 0 429.0 10829.0 124.0 293.0 28.0 2591.0 8161.0 2940.0 2418.0 441.0 g 0 0 0 0 0 0 0 0 0 0 0 3304.0 0.0 557.0 806.0 11787.0 91.0 783.0 2230.0 3558.0 7797.0 t 0 0 0 0 0 0 0 0 0 0 0 208.0 0.0 198.0 11480.0 1.0 11892.0 2749.0 4242.0 2457.0 1002.0

MA0106.3_rc_shift10 (TP53_rc)
; oligos_6nt_mkv3_m3 versus MA0106.3_rc (TP53_rc); m=2/3; ncol2=18; w=0; offset=3; strand=R; shift=10; score=0.47031; ----------rACATGyCcgG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 9120.0 17859.0 68.0 17864.0 1155.0 1.0 190.0 1546.0 2118.0 3774.0 2642.0 c 0 0 0 0 0 0 0 0 0 0 825.0 116.0 20549.0 89.0 157.0 4.0 8821.0 17846.0 9954.0 2151.0 417.0 g 0 0 0 0 0 0 0 0 0 0 9183.0 3338.0 33.0 118.0 250.0 19350.0 26.0 756.0 1474.0 11875.0 17286.0 t 0 0 0 0 0 0 0 0 0 0 1472.0 879.0 327.0 1825.0 12925.0 0.0 7104.0 3584.0 3851.0 1145.0 1228.0

MA0525.2_shift0 (TP63)
; oligos_6nt_mkv3_m3 versus MA0525.2 (TP63); m=3/3; ncol2=18; w=-7; offset=-7; strand=D; shift=0; score=0.465853; rACATGTygkrACATGTc--- ; cor=; Ncor= a 1586.0 2261.0 0.0 2246.0 692.0 0.0 14.0 97.0 649.0 112.0 993.0 2192.0 0.0 2151.0 75.0 0.0 49.0 701.0 0 0 0 c 26.0 1.0 2533.0 0.0 33.0 0.0 85.0 1025.0 478.0 681.0 1.0 0.0 2788.0 0.0 617.0 0.0 202.0 2099.0 0 0 0 g 997.0 185.0 0.0 76.0 0.0 4021.0 0.0 26.0 2070.0 1656.0 2132.0 48.0 0.0 1.0 8.0 3532.0 1.0 198.0 0 0 0 t 115.0 21.0 0.0 4.0 2353.0 0.0 3025.0 1961.0 13.0 829.0 47.0 45.0 0.0 192.0 2823.0 0.0 3126.0 606.0 0 0 0

One-to-n matrix alignment; reference matrix: positions_6nt_m5_shift7 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m5_shift7 (positions_6nt_m5)
; positions_6nt_m5; m=0 (reference); ncol1=15; shift=7; ncol=22; -------cyrGGCATGTCyagr ; Alignment reference a 0 0 0 0 0 0 0 91 115 289 25 110 3 676 29 6 15 22 54 305 134 257 c 0 0 0 0 0 0 0 329 261 37 10 9 720 18 14 8 129 613 441 126 154 76 g 0 0 0 0 0 0 0 172 87 340 685 598 8 17 14 714 13 36 35 172 316 309 t 0 0 0 0 0 0 0 142 271 68 14 17 3 23 677 6 577 63 204 131 130 92

MA0861.2_rc_shift11 (TP73_rc)
; positions_6nt_m5 versus MA0861.2_rc (TP73_rc); m=1/6; ncol2=16; w=0; offset=4; strand=R; shift=11; score=0.471855; -----------rCrTGTyyrgA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 6995.0 39.0 8476.0 2302.0 0.0 442.0 1002.0 2457.0 4242.0 2749.0 11892.0 c 0 0 0 0 0 0 0 0 0 0 0 181.0 13026.0 130.0 279.0 0.0 1414.0 7797.0 3558.0 2230.0 783.0 91.0 g 0 0 0 0 0 0 0 0 0 0 0 6944.0 170.0 5965.0 143.0 11703.0 145.0 441.0 2418.0 2940.0 8161.0 2591.0 t 0 0 0 0 0 0 0 0 0 0 0 993.0 16.0 256.0 10125.0 0.0 9639.0 3988.0 3488.0 2166.0 1377.0 130.0

MA0106.3_rc_shift0 (TP53_rc)
; positions_6nt_m5 versus MA0106.3_rc (TP53_rc); m=2/6; ncol2=18; w=-7; offset=-7; strand=R; shift=0; score=0.459769; rACATGyCcgGrCATGTy---- ; cor=; Ncor= a 9120.0 17859.0 68.0 17864.0 1155.0 1.0 190.0 1546.0 2118.0 3774.0 2642.0 7106.0 0.0 18893.0 739.0 837.0 735.0 2268.0 0 0 0 0 c 825.0 116.0 20549.0 89.0 157.0 4.0 8821.0 17846.0 9954.0 2151.0 417.0 109.0 20393.0 137.0 653.0 13.0 2433.0 6563.0 0 0 0 0 g 9183.0 3338.0 33.0 118.0 250.0 19350.0 26.0 756.0 1474.0 11875.0 17286.0 12014.0 2.0 374.0 204.0 19689.0 116.0 1037.0 0 0 0 0 t 1472.0 879.0 327.0 1825.0 12925.0 0.0 7104.0 3584.0 3851.0 1145.0 1228.0 244.0 8.0 1710.0 11931.0 45.0 10514.0 7544.0 0 0 0 0

MA0090.4_rc_shift8 (TEAD1_rc)
; positions_6nt_m5 versus MA0090.4_rc (TEAD1_rc); m=3/6; ncol2=9; w=0; offset=1; strand=R; shift=8; score=0.421307; --------CTGGAATGT----- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 7203.0 9428.0 1687.0 1332.0 63590.0 68517.0 700.0 1103.0 1941.0 0 0 0 0 0 c 0 0 0 0 0 0 0 0 47856.0 2051.0 374.0 765.0 1210.0 646.0 946.0 1923.0 9179.0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 6215.0 1729.0 67635.0 66953.0 622.0 700.0 646.0 61276.0 1248.0 0 0 0 0 0 t 0 0 0 0 0 0 0 0 9124.0 57190.0 702.0 1348.0 4976.0 535.0 68106.0 6096.0 58030.0 0 0 0 0 0

MA0739.2_rc_shift7 (Hic1_rc)
; positions_6nt_m5 versus MA0739.2_rc (Hic1_rc); m=4/6; ncol2=8; w=0; offset=0; strand=R; shift=7; score=0.414845; -------GtTGGCAy------- ; cor=; Ncor= a 0 0 0 0 0 0 0 1488.0 614.0 317.0 68.0 0.0 183.0 11007.0 666.0 0 0 0 0 0 0 0 c 0 0 0 0 0 0 0 1629.0 2267.0 3.0 31.0 121.0 11007.0 73.0 4670.0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 11007.0 1986.0 1999.0 11007.0 11007.0 588.0 422.0 719.0 0 0 0 0 0 0 0 t 0 0 0 0 0 0 0 1220.0 6140.0 9008.0 88.0 50.0 950.0 62.0 6337.0 0 0 0 0 0 0 0

MA0525.2_rc_shift10 (TP63_rc)
; positions_6nt_m5 versus MA0525.2_rc (TP63_rc); m=5/6; ncol2=18; w=0; offset=3; strand=R; shift=10; score=0.414267; ----------gACATGTymcrA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 606.0 3126.0 0.0 2823.0 192.0 0.0 45.0 47.0 829.0 13.0 1961.0 3025.0 c 0 0 0 0 0 0 0 0 0 0 198.0 1.0 3532.0 8.0 1.0 0.0 48.0 2132.0 1656.0 2070.0 26.0 0.0 g 0 0 0 0 0 0 0 0 0 0 2099.0 202.0 0.0 617.0 0.0 2788.0 0.0 1.0 681.0 478.0 1025.0 85.0 t 0 0 0 0 0 0 0 0 0 0 701.0 49.0 0.0 75.0 2151.0 0.0 2192.0 993.0 112.0 649.0 97.0 14.0

MA0808.1_rc_shift9 (TEAD3_rc)
; positions_6nt_m5 versus MA0808.1_rc (TEAD3_rc); m=6/6; ncol2=8; w=0; offset=2; strand=R; shift=9; score=0.402734; ---------wGGAATGy----- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 13663.0 4.0 0.0 16878.0 21444.0 0.0 0.0 1109.0 0 0 0 0 0 c 0 0 0 0 0 0 0 0 0 8654.0 0.0 0.0 969.0 0.0 0.0 441.0 8913.0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 1039.0 21444.0 21444.0 23.0 0.0 0.0 18920.0 66.0 0 0 0 0 0 t 0 0 0 0 0 0 0 0 0 21444.0 0.0 0.0 4566.0 0.0 21444.0 2524.0 12530.0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: positions_7nt_m3_shift6 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m3_shift6 (positions_7nt_m3)
; positions_7nt_m3; m=0 (reference); ncol1=16; shift=6; ncol=22; ------yyCAGACATGTCTGrr ; Alignment reference a 0 0 0 0 0 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 124 c 0 0 0 0 0 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 37 g 0 0 0 0 0 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 120 t 0 0 0 0 0 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58 35

MA0106.3_shift0 (TP53)
; positions_7nt_m3 versus MA0106.3 (TP53); m=1/4; ncol2=18; w=-6; offset=-6; strand=D; shift=0; score=0.470483; rACATGyCcgGrCATGTy---- ; cor=; Ncor= a 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 3584.0 7104.0 0.0 12925.0 1825.0 327.0 879.0 1472.0 0 0 0 0 c 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 756.0 26.0 19350.0 250.0 118.0 33.0 3338.0 9183.0 0 0 0 0 g 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 17846.0 8821.0 4.0 157.0 89.0 20549.0 116.0 825.0 0 0 0 0 t 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0 1546.0 190.0 1.0 1155.0 17864.0 68.0 17859.0 9120.0 0 0 0 0

MA0861.2_shift11 (TP73)
; positions_7nt_m3 versus MA0861.2 (TP73); m=2/4; ncol2=16; w=0; offset=5; strand=D; shift=11; score=0.464714; -----------rCATGTcyrrA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 6206.0 0.0 8760.0 3837.0 8.0 130.0 1377.0 2166.0 3488.0 3988.0 9639.0 c 0 0 0 0 0 0 0 0 0 0 0 429.0 10829.0 124.0 293.0 28.0 2591.0 8161.0 2940.0 2418.0 441.0 145.0 g 0 0 0 0 0 0 0 0 0 0 0 3304.0 0.0 557.0 806.0 11787.0 91.0 783.0 2230.0 3558.0 7797.0 1414.0 t 0 0 0 0 0 0 0 0 0 0 0 208.0 0.0 198.0 11480.0 1.0 11892.0 2749.0 4242.0 2457.0 1002.0 442.0

MA0525.2_shift0 (TP63)
; positions_7nt_m3 versus MA0525.2 (TP63); m=3/4; ncol2=18; w=-6; offset=-6; strand=D; shift=0; score=0.419713; rACATGTygkrACATGTc---- ; cor=; Ncor= a 1586.0 2261.0 0.0 2246.0 692.0 0.0 14.0 97.0 649.0 112.0 993.0 2192.0 0.0 2151.0 75.0 0.0 49.0 701.0 0 0 0 0 c 26.0 1.0 2533.0 0.0 33.0 0.0 85.0 1025.0 478.0 681.0 1.0 0.0 2788.0 0.0 617.0 0.0 202.0 2099.0 0 0 0 0 g 997.0 185.0 0.0 76.0 0.0 4021.0 0.0 26.0 2070.0 1656.0 2132.0 48.0 0.0 1.0 8.0 3532.0 1.0 198.0 0 0 0 0 t 115.0 21.0 0.0 4.0 2353.0 0.0 3025.0 1961.0 13.0 829.0 47.0 45.0 0.0 192.0 2823.0 0.0 3126.0 606.0 0 0 0 0

MA2123.1_shift6 (Hand1)
; positions_7nt_m3 versus MA2123.1 (Hand1); m=4/4; ncol2=9; w=0; offset=0; strand=D; shift=6; score=0.401487; ------tCCAGACCt------- ; cor=; Ncor= a 0 0 0 0 0 0 177.0 84.0 8.0 1016.0 8.0 908.0 28.0 40.0 153.0 0 0 0 0 0 0 0 c 0 0 0 0 0 0 128.0 850.0 1036.0 16.0 24.0 33.0 955.0 962.0 235.0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 148.0 101.0 12.0 10.0 1016.0 104.0 46.0 46.0 61.0 0 0 0 0 0 0 0 t 0 0 0 0 0 0 609.0 27.0 6.0 20.0 14.0 17.0 33.0 14.0 613.0 0 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: positions_7nt_m5_shift4 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m5_shift4 (positions_7nt_m5)
; positions_7nt_m5; m=0 (reference); ncol1=18; shift=4; ncol=22; ----gyctGGGCATGCCCagrc ; Alignment reference a 0 0 0 0 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 44 179 83 c 0 0 0 0 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 94 66 265 g 0 0 0 0 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 308 212 93 t 0 0 0 0 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48 57 46 62

MA0106.3_shift9 (TP53)
; positions_7nt_m5 versus MA0106.3 (TP53); m=1/3; ncol2=18; w=0; offset=5; strand=D; shift=9; score=0.469214; ---------rACATGyCcgGrC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 3584.0 7104.0 0.0 c 0 0 0 0 0 0 0 0 0 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 756.0 26.0 19350.0 g 0 0 0 0 0 0 0 0 0 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 17846.0 8821.0 4.0 t 0 0 0 0 0 0 0 0 0 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0 1546.0 190.0 1.0

MA1979.2_rc_shift13 (ZNF416_rc)
; positions_7nt_m5 versus MA1979.2_rc (ZNF416_rc); m=2/3; ncol2=10; w=0; offset=9; strand=R; shift=13; score=0.409658; -------------tGCCCAGAt ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 0 66.0 18.0 3.0 3.0 2.0 336.0 3.0 254.0 46.0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 29.0 3.0 341.0 335.0 335.0 1.0 7.0 15.0 77.0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 38.0 320.0 1.0 5.0 7.0 6.0 334.0 28.0 25.0 t 0 0 0 0 0 0 0 0 0 0 0 0 0 212.0 4.0 0.0 2.0 1.0 2.0 1.0 48.0 197.0

MA0861.2_rc_shift0 (TP73_rc)
; positions_7nt_m5 versus MA0861.2_rc (TP73_rc); m=3/3; ncol2=16; w=-4; offset=-4; strand=R; shift=0; score=0.403014; rCrTGTyyrgACATGy------ ; cor=; Ncor= a 6995.0 39.0 8476.0 2302.0 0.0 442.0 1002.0 2457.0 4242.0 2749.0 11892.0 1.0 11480.0 198.0 0.0 208.0 0 0 0 0 0 0 c 181.0 13026.0 130.0 279.0 0.0 1414.0 7797.0 3558.0 2230.0 783.0 91.0 11787.0 806.0 557.0 0.0 3304.0 0 0 0 0 0 0 g 6944.0 170.0 5965.0 143.0 11703.0 145.0 441.0 2418.0 2940.0 8161.0 2591.0 28.0 293.0 124.0 10829.0 429.0 0 0 0 0 0 0 t 993.0 16.0 256.0 10125.0 0.0 9639.0 3988.0 3488.0 2166.0 1377.0 130.0 8.0 3837.0 8760.0 0.0 6206.0 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: positions_7nt_m4_shift7 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m4_shift7 (positions_7nt_m4)
; positions_7nt_m4; m=0 (reference); ncol1=15; shift=7; ncol=22; -------cyrGGCATGTCTggr ; Alignment reference a 0 0 0 0 0 0 0 87 99 288 33 94 7 571 24 9 8 17 45 86 141 191 c 0 0 0 0 0 0 0 265 237 22 10 7 587 13 14 6 79 507 112 64 84 55 g 0 0 0 0 0 0 0 146 82 255 553 507 12 7 14 593 7 37 30 372 280 296 t 0 0 0 0 0 0 0 118 198 51 20 8 10 25 564 8 522 55 429 94 111 74

MA0861.2_shift11 (TP73)
; positions_7nt_m4 versus MA0861.2 (TP73); m=1/6; ncol2=16; w=0; offset=4; strand=D; shift=11; score=0.463236; -----------rCATGTcyrrA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 6206.0 0.0 8760.0 3837.0 8.0 130.0 1377.0 2166.0 3488.0 3988.0 9639.0 c 0 0 0 0 0 0 0 0 0 0 0 429.0 10829.0 124.0 293.0 28.0 2591.0 8161.0 2940.0 2418.0 441.0 145.0 g 0 0 0 0 0 0 0 0 0 0 0 3304.0 0.0 557.0 806.0 11787.0 91.0 783.0 2230.0 3558.0 7797.0 1414.0 t 0 0 0 0 0 0 0 0 0 0 0 208.0 0.0 198.0 11480.0 1.0 11892.0 2749.0 4242.0 2457.0 1002.0 442.0

MA0106.3_rc_shift0 (TP53_rc)
; positions_7nt_m4 versus MA0106.3_rc (TP53_rc); m=2/6; ncol2=18; w=-7; offset=-7; strand=R; shift=0; score=0.457527; rACATGyCcgGrCATGTy---- ; cor=; Ncor= a 9120.0 17859.0 68.0 17864.0 1155.0 1.0 190.0 1546.0 2118.0 3774.0 2642.0 7106.0 0.0 18893.0 739.0 837.0 735.0 2268.0 0 0 0 0 c 825.0 116.0 20549.0 89.0 157.0 4.0 8821.0 17846.0 9954.0 2151.0 417.0 109.0 20393.0 137.0 653.0 13.0 2433.0 6563.0 0 0 0 0 g 9183.0 3338.0 33.0 118.0 250.0 19350.0 26.0 756.0 1474.0 11875.0 17286.0 12014.0 2.0 374.0 204.0 19689.0 116.0 1037.0 0 0 0 0 t 1472.0 879.0 327.0 1825.0 12925.0 0.0 7104.0 3584.0 3851.0 1145.0 1228.0 244.0 8.0 1710.0 11931.0 45.0 10514.0 7544.0 0 0 0 0

MA0090.4_rc_shift8 (TEAD1_rc)
; positions_7nt_m4 versus MA0090.4_rc (TEAD1_rc); m=3/6; ncol2=9; w=0; offset=1; strand=R; shift=8; score=0.426799; --------CTGGAATGT----- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 7203.0 9428.0 1687.0 1332.0 63590.0 68517.0 700.0 1103.0 1941.0 0 0 0 0 0 c 0 0 0 0 0 0 0 0 47856.0 2051.0 374.0 765.0 1210.0 646.0 946.0 1923.0 9179.0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 6215.0 1729.0 67635.0 66953.0 622.0 700.0 646.0 61276.0 1248.0 0 0 0 0 0 t 0 0 0 0 0 0 0 0 9124.0 57190.0 702.0 1348.0 4976.0 535.0 68106.0 6096.0 58030.0 0 0 0 0 0

MA0739.2_rc_shift7 (Hic1_rc)
; positions_7nt_m4 versus MA0739.2_rc (Hic1_rc); m=4/6; ncol2=8; w=0; offset=0; strand=R; shift=7; score=0.409433; -------GtTGGCAy------- ; cor=; Ncor= a 0 0 0 0 0 0 0 1488.0 614.0 317.0 68.0 0.0 183.0 11007.0 666.0 0 0 0 0 0 0 0 c 0 0 0 0 0 0 0 1629.0 2267.0 3.0 31.0 121.0 11007.0 73.0 4670.0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 11007.0 1986.0 1999.0 11007.0 11007.0 588.0 422.0 719.0 0 0 0 0 0 0 0 t 0 0 0 0 0 0 0 1220.0 6140.0 9008.0 88.0 50.0 950.0 62.0 6337.0 0 0 0 0 0 0 0

MA0808.1_rc_shift9 (TEAD3_rc)
; positions_7nt_m4 versus MA0808.1_rc (TEAD3_rc); m=5/6; ncol2=8; w=0; offset=2; strand=R; shift=9; score=0.403587; ---------wGGAATGy----- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 13663.0 4.0 0.0 16878.0 21444.0 0.0 0.0 1109.0 0 0 0 0 0 c 0 0 0 0 0 0 0 0 0 8654.0 0.0 0.0 969.0 0.0 0.0 441.0 8913.0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 1039.0 21444.0 21444.0 23.0 0.0 0.0 18920.0 66.0 0 0 0 0 0 t 0 0 0 0 0 0 0 0 0 21444.0 0.0 0.0 4566.0 0.0 21444.0 2524.0 12530.0 0 0 0 0 0

MA1153.2_shift14 (Smad4)
; positions_7nt_m4 versus MA1153.2 (Smad4); m=6/6; ncol2=7; w=0; offset=7; strand=D; shift=14; score=0.403531; --------------yGTCTrG- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 0 0 88.0 0.0 0.0 0.0 0.0 596.0 0.0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 250.0 0.0 0.0 1000.0 0.0 0.0 0.0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 81.0 1000.0 0.0 0.0 0.0 404.0 1000.0 0 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0 581.0 0.0 1000.0 0.0 1000.0 0.0 0.0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m5_shift7 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m5_shift7 (oligos_7nt_mkv4_m5)
; oligos_7nt_mkv4_m5; m=0 (reference); ncol1=12; shift=7; ncol=19; -------srGACwTGCCyr ; Alignment reference a 0 0 0 0 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 c 0 0 0 0 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 g 0 0 0 0 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 t 0 0 0 0 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111

MA0738.2_shift12 (HIC2)
; oligos_7nt_mkv4_m5 versus MA0738.2 (HIC2); m=1/4; ncol2=6; w=0; offset=5; strand=D; shift=12; score=0.439613; ------------rTGCCM- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 2606.0 0.0 494.0 23.0 435.0 1466.0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 394.0 117.0 354.0 4891.0 4891.0 3425.0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 2285.0 0.0 4891.0 14.0 0.0 0.0 0 t 0 0 0 0 0 0 0 0 0 0 0 0 367.0 4891.0 151.0 0.0 59.0 0.0 0

MA0739.2_shift12 (Hic1)
; oligos_7nt_mkv4_m5 versus MA0739.2 (Hic1); m=2/4; ncol2=8; w=0; offset=5; strand=D; shift=12; score=0.438066; ------------rTGCCAa ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 6337.0 62.0 950.0 50.0 88.0 9008.0 6140.0 c 0 0 0 0 0 0 0 0 0 0 0 0 719.0 422.0 588.0 11007.0 11007.0 1999.0 1986.0 g 0 0 0 0 0 0 0 0 0 0 0 0 4670.0 73.0 11007.0 121.0 31.0 3.0 2267.0 t 0 0 0 0 0 0 0 0 0 0 0 0 666.0 11007.0 183.0 0.0 68.0 317.0 614.0

MA0106.3_shift9 (TP53)
; oligos_7nt_mkv4_m5 versus MA0106.3 (TP53); m=3/4; ncol2=18; w=0; offset=2; strand=D; shift=9; score=0.41856; ---------rACATGyCcg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 c 0 0 0 0 0 0 0 0 0 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 g 0 0 0 0 0 0 0 0 0 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 t 0 0 0 0 0 0 0 0 0 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0

MA0861.2_rc_shift0 (TP73_rc)
; oligos_7nt_mkv4_m5 versus MA0861.2_rc (TP73_rc); m=4/4; ncol2=16; w=-7; offset=-7; strand=R; shift=0; score=0.405925; rCrTGTyyrgACATGy--- ; cor=; Ncor= a 6995.0 39.0 8476.0 2302.0 0.0 442.0 1002.0 2457.0 4242.0 2749.0 11892.0 1.0 11480.0 198.0 0.0 208.0 0 0 0 c 181.0 13026.0 130.0 279.0 0.0 1414.0 7797.0 3558.0 2230.0 783.0 91.0 11787.0 806.0 557.0 0.0 3304.0 0 0 0 g 6944.0 170.0 5965.0 143.0 11703.0 145.0 441.0 2418.0 2940.0 8161.0 2591.0 28.0 293.0 124.0 10829.0 429.0 0 0 0 t 993.0 16.0 256.0 10125.0 0.0 9639.0 3988.0 3488.0 2166.0 1377.0 130.0 8.0 3837.0 8760.0 0.0 6206.0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv4_m4_shift1 (oligos_7nt_mkv4_m4)				; oligos_7nt_mkv4_m4; m=0 (reference); ncol1=11; shift=1; ncol=12; -grCAaGCCCrs ; Alignment reference a 0 92 199 5 420 302 5 7 6 4 148 59 c 0 91 100 447 33 35 11 443 450 461 102 137 g 0 211 127 17 17 23 451 10 16 5 144 222 t 0 83 51 8 7 117 10 17 5 7 83 59
MA0746.3_shift1 (SP3)				; oligos_7nt_mkv4_m4 versus MA0746.3 (SP3); m=1/18; ncol2=11; w=0; offset=0; strand=D; shift=1; score=0.744977; -rCCACGCCCmC ; cor=; Ncor= a 0 2146.0 664.0 160.0 5253.0 6.0 465.0 0.0 0.0 2.0 3430.0 556.0 c 0 531.0 6591.0 6591.0 1338.0 6591.0 0.0 6591.0 6591.0 6591.0 3160.0 5116.0 g 0 4445.0 226.0 54.0 2.0 0.0 6591.0 0.0 0.0 2.0 39.0 297.0 t 0 421.0 345.0 202.0 11.0 12.0 504.0 0.0 9.0 718.0 552.0 1475.0
MA0741.1_shift1 (KLF16)				; oligos_7nt_mkv4_m4 versus MA0741.1 (KLF16); m=2/18; ncol2=11; w=0; offset=0; strand=D; shift=1; score=0.728929; -gmCMCgCCCMC ; cor=; Ncor= a 0 666.0 901.0 62.0 1150.0 66.0 497.0 8.0 2.0 16.0 437.0 32.0 c 0 535.0 1612.0 1612.0 461.0 1612.0 173.0 1612.0 1612.0 1612.0 1175.0 1612.0 g 0 1612.0 77.0 6.0 32.0 17.0 1612.0 0.0 8.0 3.0 19.0 23.0 t 0 240.0 116.0 45.0 0.0 19.0 403.0 0.0 0.0 97.0 40.0 370.0
MA1599.2_shift0 (ZNF682)				; oligos_7nt_mkv4_m4 versus MA1599.2 (ZNF682); m=3/18; ncol2=11; w=-1; offset=-1; strand=D; shift=0; score=0.701491; GGCyAAGCCCC- ; cor=; Ncor= a 110.0 103.0 100.0 48.0 953.0 999.0 6.0 13.0 5.0 7.0 66.0 0 c 85.0 42.0 795.0 597.0 72.0 31.0 7.0 999.0 1033.0 1034.0 896.0 0 g 774.0 877.0 105.0 55.0 20.0 22.0 1038.0 13.0 9.0 10.0 32.0 0 t 89.0 36.0 58.0 358.0 13.0 6.0 7.0 33.0 11.0 7.0 64.0 0
MA1512.2_shift2 (KLF11)				; oligos_7nt_mkv4_m4 versus MA1512.2 (KLF11); m=4/18; ncol2=10; w=0; offset=1; strand=D; shift=2; score=0.681397; --cCACGCCCmC ; cor=; Ncor= a 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 5549.0 8662.0 1289.0 9142.0 52.0 9161.0 9166.0 8941.0 4226.0 8403.0 g 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 1192.0 506.0 27.0 38.0 349.0 23.0 7.0 885.0 761.0 1281.0
MA1564.2_shift2 (SP9)				; oligos_7nt_mkv4_m4 versus MA1564.2 (SP9); m=5/18; ncol2=10; w=0; offset=1; strand=D; shift=2; score=0.664644; --cCmCGCCCmc ; cor=; Ncor= a 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 2451.0 2451.0 1127.0 2451.0 200.0 2451.0 2451.0 2451.0 1259.0 1863.0 g 0 0 309.0 113.0 56.0 17.0 2451.0 0.0 0.0 24.0 38.0 191.0 t 0 0 518.0 284.0 96.0 9.0 173.0 14.0 30.0 412.0 353.0 588.0
MA1517.2_shift2 (KLF6)				; oligos_7nt_mkv4_m4 versus MA1517.2 (KLF6); m=6/18; ncol2=9; w=0; offset=1; strand=D; shift=2; score=0.624835; --cCACRCCCm- ; cor=; Ncor= a 0 0 569.0 432.0 2192.0 0.0 1024.0 0.0 25.0 71.0 955.0 0 c 0 0 2192.0 2192.0 284.0 2192.0 0.0 2192.0 2192.0 2192.0 665.0 0 g 0 0 332.0 298.0 60.0 0.0 2192.0 0.0 60.0 12.0 52.0 0 t 0 0 219.0 140.0 60.0 24.0 0.0 0.0 0.0 64.0 520.0 0
MA0747.2_shift2 (SP8)				; oligos_7nt_mkv4_m4 versus MA0747.2 (SP8); m=7/18; ncol2=11; w=0; offset=1; strand=D; shift=2; score=0.621249; --mCACgCCCmC ; cor=; Ncor= a 0 0 54.0 25.0 133.0 7.0 25.0 5.0 2.0 0.0 90.0 13.0 c 0 0 113.0 167.0 33.0 167.0 37.0 167.0 167.0 167.0 77.0 167.0 g 0 0 0.0 0.0 1.0 1.0 167.0 6.0 3.0 4.0 6.0 21.0 t 0 0 4.0 13.0 2.0 5.0 39.0 2.0 0.0 15.0 3.0 39.0
MA1516.2_shift0 (KLF3)				; oligos_7nt_mkv4_m4 versus MA1516.2 (KLF3); m=8/18; ncol2=10; w=-1; offset=-1; strand=D; shift=0; score=0.57155; 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 c 2655.0 615.0 43259.0 43259.0 707.0 43259.0 334.0 43259.0 43259.0 43259.0 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 t 6319.0 207.0 705.0 335.0 419.0 1409.0 1212.0 0.0 0.0 1218.0 0 0
MA1515.2_shift2 (KLF2)				; oligos_7nt_mkv4_m4 versus MA1515.2 (KLF2); m=9/18; ncol2=8; w=0; offset=1; strand=D; shift=2; score=0.528756; --CCmCrCCC-- ; cor=; Ncor= a 0 0 741.0 403.0 4622.0 0.0 1702.0 0.0 128.0 68.0 0 0 c 0 0 4622.0 4622.0 2265.0 4622.0 274.0 4622.0 4622.0 4622.0 0 0 g 0 0 495.0 186.0 1060.0 0.0 2920.0 49.0 195.0 105.0 0 0 t 0 0 346.0 312.0 214.0 78.0 167.0 22.0 9.0 444.0 0 0
MA1656.2_shift4 (ZNF449)				; oligos_7nt_mkv4_m4 versus MA1656.2 (ZNF449); m=10/18; ncol2=10; w=0; offset=3; strand=D; shift=4; score=0.502888; ----aAGCCCAA ; cor=; Ncor= a 0 0 0 0 4135.0 6239.0 108.0 139.0 64.0 68.0 6851.0 6620.0 c 0 0 0 0 1759.0 582.0 92.0 7088.0 7540.0 7479.0 300.0 96.0 g 0 0 0 0 1463.0 224.0 7368.0 322.0 28.0 54.0 182.0 829.0 t 0 0 0 0 303.0 615.0 92.0 111.0 28.0 59.0 327.0 115.0
MA0106.3_shift1 (TP53)				; oligos_7nt_mkv4_m4 versus MA0106.3 (TP53); m=11/18; ncol2=18; w=0; offset=0; strand=D; shift=1; score=0.492575; -rACATGyCcgG ; cor=; Ncor= a 0 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 3584.0 c 0 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 756.0 g 0 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 17846.0 t 0 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0 1546.0
MA0657.2_shift0 (KLF13)				; oligos_7nt_mkv4_m4 versus MA0657.2 (KLF13); m=12/18; ncol2=17; w=-1; offset=-1; strand=D; shift=0; score=0.488366; tRmCACGCCCCY ; cor=; Ncor= a 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 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 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 1766.0 59.0 102.0 61.0 0.0 3.0 9.0 7.0 0.0 16.0 10.0 1403.0
MA0597.3_rc_shift5 (THAP1_rc)				; oligos_7nt_mkv4_m4 versus MA0597.3_rc (THAP1_rc); m=13/18; ncol2=8; w=0; offset=4; strand=R; shift=5; score=0.448651; -----TGCCCTg ; cor=; Ncor= a 0 0 0 0 0 11.0 115.0 78.0 62.0 71.0 8.0 341.0 c 0 0 0 0 0 172.0 104.0 4942.0 4893.0 4958.0 220.0 933.0 g 0 0 0 0 0 95.0 4861.0 67.0 183.0 127.0 219.0 3351.0 t 0 0 0 0 0 4900.0 98.0 91.0 40.0 22.0 4731.0 553.0
MA0738.2_shift4 (HIC2)				; oligos_7nt_mkv4_m4 versus MA0738.2 (HIC2); m=14/18; ncol2=6; w=0; offset=3; strand=D; shift=4; score=0.42076; ----rTGCCM-- ; cor=; Ncor= a 0 0 0 0 2606.0 0.0 494.0 23.0 435.0 1466.0 0 0 c 0 0 0 0 394.0 117.0 354.0 4891.0 4891.0 3425.0 0 0 g 0 0 0 0 2285.0 0.0 4891.0 14.0 0.0 0.0 0 0 t 0 0 0 0 367.0 4891.0 151.0 0.0 59.0 0.0 0 0
MA1979.2_rc_shift5 (ZNF416_rc)				; oligos_7nt_mkv4_m4 versus MA1979.2_rc (ZNF416_rc); m=15/18; ncol2=10; w=0; offset=4; strand=R; shift=5; score=0.418309; -----tGCCCAG ; cor=; Ncor= a 0 0 0 0 0 66.0 18.0 3.0 3.0 2.0 336.0 3.0 c 0 0 0 0 0 29.0 3.0 341.0 335.0 335.0 1.0 7.0 g 0 0 0 0 0 38.0 320.0 1.0 5.0 7.0 6.0 334.0 t 0 0 0 0 0 212.0 4.0 0.0 2.0 1.0 2.0 1.0
MA0161.3_rc_shift0 (NFIC_rc)				; oligos_7nt_mkv4_m4 versus MA0161.3_rc (NFIC_rc); m=16/18; ncol2=7; w=-1; offset=-1; strand=R; shift=0; score=0.41021; TGCCAAG----- ; cor=; Ncor= a 574.0 530.0 290.0 81.0 10745.0 10781.0 324.0 0 0 0 0 0 c 478.0 88.0 10973.0 11087.0 177.0 369.0 329.0 0 0 0 0 0 g 397.0 10725.0 121.0 129.0 333.0 303.0 10542.0 0 0 0 0 0 t 10158.0 264.0 223.0 310.0 352.0 154.0 412.0 0 0 0 0 0
MA0733.2_shift4 (EGR4)				; oligos_7nt_mkv4_m4 versus MA0733.2 (EGR4); m=17/18; ncol2=11; w=0; offset=3; strand=D; shift=4; score=0.406464; ----mCGCCCAC ; cor=; Ncor= a 0 0 0 0 2745.0 101.0 556.0 11.0 120.0 0.0 4500.0 44.0 c 0 0 0 0 1924.0 4466.0 475.0 4447.0 4448.0 4403.0 1055.0 4402.0 g 0 0 0 0 151.0 150.0 7053.0 63.0 107.0 110.0 348.0 114.0 t 0 0 0 0 158.0 319.0 707.0 88.0 76.0 131.0 363.0 245.0
MA0732.2_shift4 (EGR3)				; oligos_7nt_mkv4_m4 versus MA0732.2 (EGR3); m=18/18; ncol2=11; w=0; offset=3; strand=D; shift=4; score=0.402184; ----mCGCCCMC ; cor=; Ncor= a 0 0 0 0 1031.0 2.0 66.0 0.0 0.0 0.0 1159.0 0.0 c 0 0 0 0 701.0 1855.0 32.0 1856.0 1858.0 1823.0 455.0 1875.0 g 0 0 0 0 10.0 0.0 2158.0 2.0 0.0 7.0 11.0 7.0 t 0 0 0 0 20.0 13.0 36.0 0.0 10.0 80.0 4.0 2.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv4_m2_shift4 (oligos_7nt_mkv4_m2)				; oligos_7nt_mkv4_m2; m=0 (reference); ncol1=12; shift=4; ncol=16; ----tgCCCAGACAtg ; Alignment reference a 0 0 0 0 115 78 22 24 13 580 21 494 21 602 145 125 c 0 0 0 0 108 128 556 594 620 9 21 32 586 17 125 80 g 0 0 0 0 99 362 23 6 1 19 595 106 30 7 127 366 t 0 0 0 0 327 81 48 25 15 41 12 17 12 23 252 78
MA1979.2_rc_shift4 (ZNF416_rc)				; oligos_7nt_mkv4_m2 versus MA1979.2_rc (ZNF416_rc); m=1/14; ncol2=10; w=0; offset=0; strand=R; shift=4; score=0.73695; ----tGCCCAGAtA-- ; cor=; Ncor= a 0 0 0 0 66.0 18.0 3.0 3.0 2.0 336.0 3.0 254.0 46.0 240.0 0 0 c 0 0 0 0 29.0 3.0 341.0 335.0 335.0 1.0 7.0 15.0 77.0 26.0 0 0 g 0 0 0 0 38.0 320.0 1.0 5.0 7.0 6.0 334.0 28.0 25.0 32.0 0 0 t 0 0 0 0 212.0 4.0 0.0 2.0 1.0 2.0 1.0 48.0 197.0 47.0 0 0
MA2121.1_shift5 (ZNF213)				; oligos_7nt_mkv4_m2 versus MA2121.1 (ZNF213); m=2/14; ncol2=12; w=0; offset=1; strand=D; shift=5; score=0.640537; -----gCCCAGGCwGs ; cor=; Ncor= a 0 0 0 0 0 119.0 26.0 18.0 15.0 577.0 10.0 12.0 16.0 229.0 42.0 61.0 c 0 0 0 0 0 89.0 581.0 603.0 630.0 34.0 13.0 25.0 642.0 97.0 76.0 319.0 g 0 0 0 0 0 403.0 52.0 34.0 34.0 54.0 661.0 639.0 22.0 124.0 519.0 260.0 t 0 0 0 0 0 76.0 28.0 32.0 8.0 22.0 3.0 11.0 7.0 237.0 50.0 47.0
MA2125.1_shift4 (Zfp809)				; oligos_7nt_mkv4_m2 versus MA2125.1 (Zfp809); m=3/14; ncol2=9; w=0; offset=0; strand=D; shift=4; score=0.571705; ----wTCCCAGCc--- ; cor=; Ncor= a 0 0 0 0 828.0 23.0 15.0 20.0 10.0 1529.0 32.0 287.0 217.0 0 0 0 c 0 0 0 0 66.0 41.0 1607.0 1610.0 1621.0 26.0 35.0 1218.0 1091.0 0 0 0 g 0 0 0 0 81.0 23.0 18.0 14.0 16.0 73.0 1572.0 99.0 115.0 0 0 0 t 0 0 0 0 690.0 1578.0 25.0 21.0 18.0 37.0 26.0 61.0 242.0 0 0 0
MA0092.2_rc_shift4 (Hand1::Tcf3_rc)				; oligos_7nt_mkv4_m2 versus MA0092.2_rc (Hand1::Tcf3_rc); m=4/14; ncol2=9; w=0; offset=0; strand=R; shift=4; score= 0.5495; ----awkCCAGAy--- ; cor=; Ncor= a 0 0 0 0 16.0 10.0 5.0 1.0 0.0 29.0 1.0 24.0 4.0 0 0 0 c 0 0 0 0 4.0 3.0 1.0 25.0 29.0 0.0 0.0 1.0 15.0 0 0 0 g 0 0 0 0 4.0 0.0 14.0 3.0 0.0 0.0 28.0 2.0 0.0 0 0 0 t 0 0 0 0 5.0 16.0 9.0 0.0 0.0 0.0 0.0 2.0 10.0 0 0 0
MA2123.1_shift6 (Hand1)				; oligos_7nt_mkv4_m2 versus MA2123.1 (Hand1); m=5/14; ncol2=9; w=0; offset=2; strand=D; shift=6; score=0.537978; ------tCCAGACCt- ; cor=; Ncor= a 0 0 0 0 0 0 177.0 84.0 8.0 1016.0 8.0 908.0 28.0 40.0 153.0 0 c 0 0 0 0 0 0 128.0 850.0 1036.0 16.0 24.0 33.0 955.0 962.0 235.0 0 g 0 0 0 0 0 0 148.0 101.0 12.0 10.0 1016.0 104.0 46.0 46.0 61.0 0 t 0 0 0 0 0 0 609.0 27.0 6.0 20.0 14.0 17.0 33.0 14.0 613.0 0
MA0155.1_rc_shift2 (INSM1_rc)				; oligos_7nt_mkv4_m2 versus MA0155.1_rc (INSM1_rc); m=6/14; ncol2=12; w=-2; offset=-2; strand=R; shift=2; score=0.523587; --ygmCCCCwkrCA-- ; cor=; Ncor= a 0 0 2.0 5.0 6.0 0.0 0.0 0.0 0.0 8.0 3.0 13.0 4.0 19.0 0 0 c 0 0 12.0 0.0 16.0 24.0 24.0 23.0 24.0 0.0 0.0 3.0 20.0 4.0 0 0 g 0 0 0.0 16.0 2.0 0.0 0.0 1.0 0.0 0.0 15.0 8.0 0.0 0.0 0 0 t 0 0 10.0 3.0 0.0 0.0 0.0 0.0 0.0 16.0 6.0 0.0 0.0 1.0 0 0
MA1153.2_rc_shift7 (Smad4_rc)				; oligos_7nt_mkv4_m2 versus MA1153.2_rc (Smad4_rc); m=7/14; ncol2=7; w=0; offset=3; strand=R; shift=7; score=0.515258; -------CyAGACr-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0.0 0.0 1000.0 0.0 1000.0 0.0 581.0 0 0 c 0 0 0 0 0 0 0 1000.0 404.0 0.0 0.0 0.0 1000.0 81.0 0 0 g 0 0 0 0 0 0 0 0.0 0.0 0.0 1000.0 0.0 0.0 250.0 0 0 t 0 0 0 0 0 0 0 0.0 596.0 0.0 0.0 0.0 0.0 88.0 0 0
MA0106.3_shift0 (TP53)				; oligos_7nt_mkv4_m2 versus MA0106.3 (TP53); m=8/14; ncol2=18; w=-4; offset=-4; strand=D; shift=0; score=0.510222; rACATGyCcgGrCATG ; cor=; Ncor= a 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 3584.0 7104.0 0.0 12925.0 1825.0 327.0 c 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 756.0 26.0 19350.0 250.0 118.0 33.0 g 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 17846.0 8821.0 4.0 157.0 89.0 20549.0 t 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0 1546.0 190.0 1.0 1155.0 17864.0 68.0
MA1964.2_shift7 (SMAD2)				; oligos_7nt_mkv4_m2 versus MA1964.2 (SMAD2); m=9/14; ncol2=6; w=0; offset=3; strand=D; shift=7; score=0.494778; -------CCAGAC--- ; cor=; Ncor= a 0 0 0 0 0 0 0 42.0 6.0 3447.0 7.0 3747.0 1.0 0 0 0 c 0 0 0 0 0 0 0 3610.0 3484.0 149.0 30.0 0.0 3757.0 0 0 0 g 0 0 0 0 0 0 0 86.0 171.0 154.0 3703.0 0.0 0.0 0 0 0 t 0 0 0 0 0 0 0 20.0 97.0 8.0 18.0 11.0 0.0 0 0 0
MA1731.2_rc_shift8 (ZNF768_rc)				; oligos_7nt_mkv4_m2 versus MA1731.2_rc (ZNF768_rc); m=10/14; ncol2=9; w=0; offset=4; strand=R; shift=8; score=0.46407; --------CAGAGAgG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1.0 987.0 1.0 945.0 20.0 917.0 123.0 141.0 c 0 0 0 0 0 0 0 0 973.0 11.0 11.0 43.0 29.0 11.0 179.0 62.0 g 0 0 0 0 0 0 0 0 25.0 1.0 987.0 6.0 950.0 39.0 655.0 768.0 t 0 0 0 0 0 0 0 0 1.0 1.0 1.0 6.0 1.0 34.0 43.0 29.0
MA0161.3_rc_shift4 (NFIC_rc)				; oligos_7nt_mkv4_m2 versus MA0161.3_rc (NFIC_rc); m=11/14; ncol2=7; w=0; offset=0; strand=R; shift=4; score=0.422108; ----TGCCAAG----- ; cor=; Ncor= a 0 0 0 0 574.0 530.0 290.0 81.0 10745.0 10781.0 324.0 0 0 0 0 0 c 0 0 0 0 478.0 88.0 10973.0 11087.0 177.0 369.0 329.0 0 0 0 0 0 g 0 0 0 0 397.0 10725.0 121.0 129.0 333.0 303.0 10542.0 0 0 0 0 0 t 0 0 0 0 10158.0 264.0 223.0 310.0 352.0 154.0 412.0 0 0 0 0 0
MA1986.2_shift3 (ZNF692)				; oligos_7nt_mkv4_m2 versus MA1986.2 (ZNF692); m=12/14; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.413506; ---gGGCCCAs----- ; cor=; Ncor= a 0 0 0 1403.0 0.0 31.0 27.0 41.0 3.0 10535.0 852.0 0 0 0 0 0 c 0 0 0 1314.0 90.0 4.0 10689.0 10446.0 10545.0 0.0 4998.0 0 0 0 0 0 g 0 0 0 6833.0 10642.0 10684.0 7.0 241.0 176.0 210.0 3703.0 0 0 0 0 0 t 0 0 0 1195.0 13.0 26.0 22.0 17.0 21.0 0.0 1192.0 0 0 0 0 0
MA2002.2_shift7 (Zfp335)				; oligos_7nt_mkv4_m2 versus MA2002.2 (Zfp335); m=13/14; ncol2=7; w=0; offset=3; strand=D; shift=7; score=0.409952; -------tCAGGCA-- ; cor=; Ncor= a 0 0 0 0 0 0 0 12.0 2.0 78.0 0.0 0.0 2.0 72.0 0 0 c 0 0 0 0 0 0 0 5.0 82.0 3.0 2.0 0.0 81.0 1.0 0 0 g 0 0 0 0 0 0 0 15.0 0.0 0.0 81.0 82.0 1.0 10.0 0 0 t 0 0 0 0 0 0 0 52.0 0.0 3.0 1.0 2.0 0.0 1.0 0 0
MA1116.2_rc_shift4 (RBPJ_rc)				; oligos_7nt_mkv4_m2 versus MA1116.2_rc (RBPJ_rc); m=14/14; ncol2=6; w=0; offset=0; strand=R; shift=4; score=0.405779; ----TTCCCA------ ; cor=; Ncor= a 0 0 0 0 4.0 29.0 78.0 60.0 1.0 2386.0 0 0 0 0 0 0 c 0 0 0 0 1.0 4.0 2309.0 2313.0 2341.0 2.0 0 0 0 0 0 0 g 0 0 0 0 15.0 0.0 8.0 20.0 25.0 12.0 0 0 0 0 0 0 t 0 0 0 0 2382.0 2369.0 7.0 9.0 35.0 2.0 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m1_shift0 (oligos_6nt_mkv3_m1)				; oligos_6nt_mkv3_m1; m=0 (reference); ncol1=24; shift=0; ncol=24; skrGrCATGyCCrGrCATGyCyms ; Alignment reference a 110 103 155 91 354 5 435 53 5 15 25 27 331 33 196 3 497 106 20 26 44 66 171 123 c 149 139 33 22 15 542 20 8 2 387 508 390 16 7 6 565 22 17 11 196 420 315 154 180 g 202 163 304 416 178 9 17 22 563 4 5 13 192 513 358 3 10 28 535 22 25 38 136 156 t 112 168 81 44 26 17 101 490 3 167 35 143 34 20 13 2 44 422 7 329 84 154 112 114
MA0106.3_shift3 (TP53)				; oligos_6nt_mkv3_m1 versus MA0106.3 (TP53); m=1/4; ncol2=18; w=0; offset=3; strand=D; shift=3; score=0.70851; ---rACATGyCcgGrCATGTy--- ; cor=; Ncor= a 0 0 0 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 3584.0 7104.0 0.0 12925.0 1825.0 327.0 879.0 1472.0 0 0 0 c 0 0 0 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 756.0 26.0 19350.0 250.0 118.0 33.0 3338.0 9183.0 0 0 0 g 0 0 0 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 17846.0 8821.0 4.0 157.0 89.0 20549.0 116.0 825.0 0 0 0 t 0 0 0 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0 1546.0 190.0 1.0 1155.0 17864.0 68.0 17859.0 9120.0 0 0 0
MA0861.2_rc_shift4 (TP73_rc)				; oligos_6nt_mkv3_m1 versus MA0861.2_rc (TP73_rc); m=2/4; ncol2=16; w=0; offset=4; strand=R; shift=4; score=0.568857; ----rCrTGTyyrgACATGy---- ; cor=; Ncor= a 0 0 0 0 6995.0 39.0 8476.0 2302.0 0.0 442.0 1002.0 2457.0 4242.0 2749.0 11892.0 1.0 11480.0 198.0 0.0 208.0 0 0 0 0 c 0 0 0 0 181.0 13026.0 130.0 279.0 0.0 1414.0 7797.0 3558.0 2230.0 783.0 91.0 11787.0 806.0 557.0 0.0 3304.0 0 0 0 0 g 0 0 0 0 6944.0 170.0 5965.0 143.0 11703.0 145.0 441.0 2418.0 2940.0 8161.0 2591.0 28.0 293.0 124.0 10829.0 429.0 0 0 0 0 t 0 0 0 0 993.0 16.0 256.0 10125.0 0.0 9639.0 3988.0 3488.0 2166.0 1377.0 130.0 8.0 3837.0 8760.0 0.0 6206.0 0 0 0 0
MA0525.2_rc_shift3 (TP63_rc)				; oligos_6nt_mkv3_m1 versus MA0525.2_rc (TP63_rc); m=3/4; ncol2=18; w=0; offset=3; strand=R; shift=3; score=0.561194; ---gACATGTymcrACATGTy--- ; cor=; Ncor= a 0 0 0 606.0 3126.0 0.0 2823.0 192.0 0.0 45.0 47.0 829.0 13.0 1961.0 3025.0 0.0 2353.0 4.0 0.0 21.0 115.0 0 0 0 c 0 0 0 198.0 1.0 3532.0 8.0 1.0 0.0 48.0 2132.0 1656.0 2070.0 26.0 0.0 4021.0 0.0 76.0 0.0 185.0 997.0 0 0 0 g 0 0 0 2099.0 202.0 0.0 617.0 0.0 2788.0 0.0 1.0 681.0 478.0 1025.0 85.0 0.0 33.0 0.0 2533.0 1.0 26.0 0 0 0 t 0 0 0 701.0 49.0 0.0 75.0 2151.0 0.0 2192.0 993.0 112.0 649.0 97.0 14.0 0.0 692.0 2246.0 0.0 2261.0 1586.0 0 0 0
MA1719.2_rc_shift10 (ZNF816_rc)				; oligos_6nt_mkv3_m1 versus MA1719.2_rc (ZNF816_rc); m=4/4; ncol2=15; w=0; offset=10; strand=R; shift=10; score=0.400896; ----------cCcwgCATGTCCCC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 118.0 82.0 193.0 265.0 252.0 39.0 810.0 35.0 6.0 3.0 6.0 5.0 4.0 12.0 c 0 0 0 0 0 0 0 0 0 0 683.0 732.0 508.0 174.0 53.0 949.0 111.0 89.0 13.0 10.0 1020.0 1035.0 1033.0 1006.0 g 0 0 0 0 0 0 0 0 0 0 126.0 90.0 106.0 210.0 612.0 27.0 85.0 143.0 1015.0 3.0 12.0 6.0 6.0 4.0 t 0 0 0 0 0 0 0 0 0 0 126.0 149.0 246.0 404.0 136.0 38.0 47.0 786.0 19.0 1037.0 15.0 7.0 10.0 31.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv4_m1_shift0 (oligos_7nt_mkv4_m1)				; oligos_7nt_mkv4_m1; m=0 (reference); ncol1=19; shift=0; ncol=19; skgGACATGCCCAGrCawG ; Alignment reference a 106 123 130 97 429 7 483 42 6 7 21 18 416 35 171 49 397 159 70 c 196 138 31 41 16 557 24 16 4 466 531 500 17 31 34 463 82 64 57 g 185 157 356 416 126 15 20 23 572 6 8 11 116 496 361 44 39 77 398 t 98 167 68 31 14 6 58 504 3 106 25 56 36 23 19 29 67 285 60
MA0106.3_shift3 (TP53)				; oligos_7nt_mkv4_m1 versus MA0106.3 (TP53); m=1/4; ncol2=18; w=0; offset=3; strand=D; shift=3; score=0.691784; ---rACATGyCcgGrCATG ; cor=; Ncor= a 0 0 0 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 3584.0 7104.0 0.0 12925.0 1825.0 327.0 c 0 0 0 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 756.0 26.0 19350.0 250.0 118.0 33.0 g 0 0 0 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 17846.0 8821.0 4.0 157.0 89.0 20549.0 t 0 0 0 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0 1546.0 190.0 1.0 1155.0 17864.0 68.0
MA0861.2_shift4 (TP73)				; oligos_7nt_mkv4_m1 versus MA0861.2 (TP73); m=2/4; ncol2=16; w=0; offset=4; strand=D; shift=4; score=0.578805; ----rCATGTcyrrACAyG ; cor=; Ncor= a 0 0 0 0 6206.0 0.0 8760.0 3837.0 8.0 130.0 1377.0 2166.0 3488.0 3988.0 9639.0 0.0 10125.0 256.0 16.0 c 0 0 0 0 429.0 10829.0 124.0 293.0 28.0 2591.0 8161.0 2940.0 2418.0 441.0 145.0 11703.0 143.0 5965.0 170.0 g 0 0 0 0 3304.0 0.0 557.0 806.0 11787.0 91.0 783.0 2230.0 3558.0 7797.0 1414.0 0.0 279.0 130.0 13026.0 t 0 0 0 0 208.0 0.0 198.0 11480.0 1.0 11892.0 2749.0 4242.0 2457.0 1002.0 442.0 0.0 2302.0 8476.0 39.0
MA2121.1_shift8 (ZNF213)				; oligos_7nt_mkv4_m1 versus MA2121.1 (ZNF213); m=3/4; ncol2=12; w=0; offset=8; strand=D; shift=8; score=0.455727; --------gCCCAGGCwGs ; cor=; Ncor= a 0 0 0 0 0 0 0 0 119.0 26.0 18.0 15.0 577.0 10.0 12.0 16.0 229.0 42.0 61.0 c 0 0 0 0 0 0 0 0 89.0 581.0 603.0 630.0 34.0 13.0 25.0 642.0 97.0 76.0 319.0 g 0 0 0 0 0 0 0 0 403.0 52.0 34.0 34.0 54.0 661.0 639.0 22.0 124.0 519.0 260.0 t 0 0 0 0 0 0 0 0 76.0 28.0 32.0 8.0 22.0 3.0 11.0 7.0 237.0 50.0 47.0
MA1979.2_rc_shift7 (ZNF416_rc)				; oligos_7nt_mkv4_m1 versus MA1979.2_rc (ZNF416_rc); m=4/4; ncol2=10; w=0; offset=7; strand=R; shift=7; score=0.448287; -------tGCCCAGAtA-- ; cor=; Ncor= a 0 0 0 0 0 0 0 66.0 18.0 3.0 3.0 2.0 336.0 3.0 254.0 46.0 240.0 0 0 c 0 0 0 0 0 0 0 29.0 3.0 341.0 335.0 335.0 1.0 7.0 15.0 77.0 26.0 0 0 g 0 0 0 0 0 0 0 38.0 320.0 1.0 5.0 7.0 6.0 334.0 28.0 25.0 32.0 0 0 t 0 0 0 0 0 0 0 212.0 4.0 0.0 2.0 1.0 2.0 1.0 48.0 197.0 47.0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m4_shift3 (oligos_6nt_mkv3_m4)				; oligos_6nt_mkv3_m4; m=0 (reference); ncol1=12; shift=3; ncol=15; ---waCAAAGAAAaa ; Alignment reference a 0 0 0 252 231 69 572 542 564 35 508 547 547 220 249 c 0 0 0 86 114 446 13 22 7 55 51 21 16 104 85 g 0 0 0 110 136 47 3 25 18 474 30 24 20 137 140 t 0 0 0 150 117 36 10 9 9 34 9 6 15 137 124
MA0041.3_shift1 (FOXD3)				; oligos_6nt_mkv3_m4 versus MA0041.3 (FOXD3); m=1/13; ncol2=14; w=-2; offset=-2; strand=D; shift=1; score=0.624851; -wawrhAAAYAAACa ; cor=; Ncor= a 0 86.0 120.0 91.0 56.0 99.0 171.0 171.0 171.0 0.0 171.0 171.0 171.0 13.0 125.0 c 0 22.0 17.0 45.0 17.0 109.0 37.0 8.0 1.0 43.0 4.0 11.0 17.0 171.0 20.0 g 0 13.0 52.0 45.0 115.0 8.0 1.0 0.0 7.0 0.0 2.0 8.0 20.0 13.0 30.0 t 0 85.0 22.0 81.0 10.0 171.0 2.0 7.0 2.0 128.0 7.0 11.0 35.0 30.0 47.0
MA0867.3_shift3 (SOX4)				; oligos_6nt_mkv3_m4 versus MA0867.3 (SOX4); m=2/13; ncol2=8; w=0; offset=0; strand=D; shift=3; score=0.541858; ---aACAAwGr---- ; cor=; Ncor= a 0 0 0 5582.0 5582.0 0.0 5582.0 5582.0 5582.0 1018.0 2093.0 0 0 0 0 c 0 0 0 951.0 0.0 5582.0 1.0 6.0 120.0 64.0 1422.0 0 0 0 0 g 0 0 0 2047.0 0.0 37.0 6.0 11.0 50.0 5582.0 3489.0 0 0 0 0 t 0 0 0 431.0 9.0 33.0 0.0 0.0 2719.0 83.0 174.0 0 0 0 0
MA1125.2_shift6 (ZNF384)				; oligos_6nt_mkv3_m4 versus MA1125.2 (ZNF384); m=3/13; ncol2=8; w=0; offset=3; strand=D; shift=6; score=0.537408; ------AAAAAAaa- ; cor=; Ncor= a 0 0 0 0 0 0 30354.0 30191.0 30072.0 30252.0 30202.0 30406.0 20322.0 18916.0 0 c 0 0 0 0 0 0 7.0 35.0 21.0 13.0 26.0 6.0 2908.0 3963.0 0 g 0 0 0 0 0 0 13.0 19.0 26.0 15.0 14.0 0.0 2767.0 2898.0 0 t 0 0 0 0 0 0 59.0 188.0 314.0 153.0 191.0 21.0 4436.0 4656.0 0
MA0769.3_rc_shift3 (TCF7_rc)				; oligos_6nt_mkv3_m4 versus MA0769.3_rc (TCF7_rc); m=4/13; ncol2=7; w=0; offset=0; strand=R; shift=3; score=0.51448; ---wTCAAAG----- ; cor=; Ncor= a 0 0 0 8498.0 239.0 478.0 14489.0 14178.0 14556.0 157.0 0 0 0 0 0 c 0 0 0 1220.0 115.0 13972.0 83.0 266.0 67.0 206.0 0 0 0 0 0 g 0 0 0 855.0 63.0 278.0 62.0 248.0 125.0 14379.0 0 0 0 0 0 t 0 0 0 4421.0 14577.0 266.0 360.0 302.0 246.0 252.0 0 0 0 0 0
MA0869.3_shift2 (Sox11)				; oligos_6nt_mkv3_m4 versus MA0869.3 (Sox11); m=5/13; ncol2=8; w=-1; offset=-1; strand=D; shift=2; score=0.495536; --GAACAAAG----- ; cor=; Ncor= a 0 0 1014.0 7912.0 9856.0 119.0 10020.0 9676.0 9276.0 506.0 0 0 0 0 0 c 0 0 764.0 766.0 100.0 9471.0 108.0 264.0 61.0 148.0 0 0 0 0 0 g 0 0 8063.0 1298.0 211.0 501.0 49.0 248.0 233.0 9486.0 0 0 0 0 0 t 0 0 407.0 272.0 81.0 157.0 71.0 60.0 678.0 108.0 0 0 0 0 0
MA0768.3_rc_shift3 (Lef1_rc)				; oligos_6nt_mkv3_m4 versus MA0768.3_rc (Lef1_rc); m=6/13; ncol2=8; w=0; offset=0; strand=R; shift=3; score=0.492282; ---ATCAAAGG---- ; cor=; Ncor= a 0 0 0 872.0 41.0 51.0 1030.0 976.0 1036.0 45.0 90.0 0 0 0 0 c 0 0 0 51.0 25.0 882.0 15.0 39.0 14.0 21.0 130.0 0 0 0 0 g 0 0 0 28.0 28.0 75.0 18.0 47.0 19.0 989.0 788.0 0 0 0 0 t 0 0 0 130.0 987.0 73.0 18.0 19.0 12.0 26.0 73.0 0 0 0 0
MA2098.1_shift7 (ZNF766)				; oligos_6nt_mkv3_m4 versus MA2098.1 (ZNF766); m=7/13; ncol2=9; w=0; offset=4; strand=D; shift=7; score=0.479571; -------AAkAAACC ; cor=; Ncor= a 0 0 0 0 0 0 0 6635.0 7378.0 51.0 7935.0 8002.0 7986.0 67.0 326.0 c 0 0 0 0 0 0 0 373.0 20.0 67.0 95.0 26.0 15.0 7904.0 7492.0 g 0 0 0 0 0 0 0 831.0 431.0 5092.0 20.0 21.0 47.0 35.0 56.0 t 0 0 0 0 0 0 0 230.0 240.0 2859.0 19.0 20.0 21.0 63.0 195.0
MA0442.3_shift4 (SOX10)				; oligos_6nt_mkv3_m4 versus MA0442.3 (SOX10); m=8/13; ncol2=6; w=0; offset=1; strand=D; shift=4; score=0.467955; ----ACAAAG----- ; cor=; Ncor= a 0 0 0 0 2023.0 3.0 2029.0 1968.0 1959.0 10.0 0 0 0 0 0 c 0 0 0 0 4.0 1989.0 7.0 28.0 23.0 13.0 0 0 0 0 0 g 0 0 0 0 3.0 11.0 7.0 20.0 12.0 2012.0 0 0 0 0 0 t 0 0 0 0 25.0 52.0 12.0 39.0 61.0 20.0 0 0 0 0 0
MA0523.2_shift1 (TCF7L2)				; oligos_6nt_mkv3_m4 versus MA0523.2 (TCF7L2); m=9/13; ncol2=9; w=-2; offset=-2; strand=D; shift=1; score=0.438951; -AswTCAAAG----- ; cor=; Ncor= a 0 3070.0 85.0 2795.0 138.0 155.0 4188.0 4103.0 4169.0 303.0 0 0 0 0 0 c 0 136.0 1947.0 26.0 0.0 3304.0 0.0 15.0 0.0 37.0 0 0 0 0 0 g 0 559.0 2008.0 0.0 0.0 729.0 0.0 70.0 19.0 3848.0 0 0 0 0 0 t 0 423.0 148.0 1367.0 4050.0 0.0 0.0 0.0 0.0 0.0 0 0 0 0 0
MA1991.2_rc_shift1 (Hnf1A_rc)				; oligos_6nt_mkv3_m4 versus MA1991.2_rc (Hnf1A_rc); m=10/13; ncol2=10; w=-2; offset=-2; strand=R; shift=1; score=0.438136; -asATCAAAGg---- ; cor=; Ncor= a 0 784.0 98.0 1092.0 73.0 68.0 1210.0 1122.0 1193.0 62.0 198.0 0 0 0 0 c 0 99.0 377.0 31.0 16.0 1033.0 12.0 60.0 7.0 39.0 204.0 0 0 0 0 g 0 210.0 689.0 21.0 35.0 118.0 11.0 51.0 30.0 1130.0 744.0 0 0 0 0 t 0 156.0 85.0 105.0 1125.0 30.0 16.0 16.0 19.0 18.0 103.0 0 0 0 0
MA1487.3_shift0 (FOXE1)				; oligos_6nt_mkv3_m4 versus MA1487.3 (FOXE1); m=11/13; ncol2=12; w=-3; offset=-3; strand=D; shift=0; score=0.42923; yTAARyAAACAa--- ; cor=; Ncor= a 86.0 581.0 3126.0 2547.0 2255.0 587.0 3126.0 3126.0 3126.0 0.0 3126.0 2026.0 0 0 0 c 1646.0 43.0 28.0 113.0 117.0 1062.0 362.0 90.0 0.0 3126.0 32.0 392.0 0 0 0 g 57.0 0.0 402.0 116.0 871.0 17.0 0.0 0.0 23.0 0.0 18.0 258.0 0 0 0 t 1479.0 2545.0 43.0 579.0 27.0 2064.0 20.0 53.0 9.0 85.0 110.0 450.0 0 0 0
MA0847.4_shift0 (FOXD2)				; oligos_6nt_mkv3_m4 versus MA0847.4 (FOXD2); m=12/13; ncol2=11; w=-3; offset=-3; strand=D; shift=0; score=0.410277; yTAAryAAACA---- ; cor=; Ncor= a 219.0 480.0 2484.0 2484.0 2484.0 84.0 2484.0 2484.0 2484.0 0.0 2484.0 0 0 0 0 c 906.0 19.0 16.0 285.0 23.0 1342.0 81.0 23.0 0.0 2484.0 24.0 0 0 0 0 g 131.0 0.0 137.0 292.0 1615.0 3.0 0.0 18.0 5.0 0.0 34.0 0 0 0 0 t 1578.0 2004.0 0.0 262.0 4.0 1141.0 79.0 1.0 2.0 768.0 232.0 0 0 0 0
MA0515.1_rc_shift1 (Sox6_rc)				; oligos_6nt_mkv3_m4 versus MA0515.1_rc (Sox6_rc); m=13/13; ncol2=10; w=-2; offset=-2; strand=R; shift=1; score=0.405238; -rrrACAAwGg---- ; cor=; Ncor= a 0 128.0 133.0 129.0 249.0 0.0 249.0 249.0 88.0 28.0 56.0 0 0 0 0 c 0 31.0 0.0 5.0 0.0 249.0 0.0 0.0 0.0 0.0 50.0 0 0 0 0 g 0 76.0 112.0 115.0 0.0 0.0 0.0 0.0 0.0 221.0 139.0 0 0 0 0 t 0 14.0 4.0 0.0 0.0 0.0 0.0 0.0 161.0 0.0 4.0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m5_shift4 (oligos_6nt_mkv3_m5)				; oligos_6nt_mkv3_m5; m=0 (reference); ncol1=12; shift=4; ncol=16; ----rwAAGGAAggrw ; Alignment reference a 0 0 0 0 191 148 482 495 9 36 502 497 91 100 167 168 c 0 0 0 0 83 82 8 11 11 8 9 12 27 54 107 99 g 0 0 0 0 144 129 24 14 499 477 10 9 346 305 133 128 t 0 0 0 0 111 170 15 9 10 8 8 11 65 70 122 134
MA0136.4_shift6 (Elf5)				; oligos_6nt_mkv3_m5 versus MA0136.4 (Elf5); m=1/17; ncol2=8; w=0; offset=2; strand=D; shift=6; score=0.614027; ------AAGGAAGT-- ; cor=; Ncor= a 0 0 0 0 0 0 29427.0 38778.0 512.0 587.0 40896.0 40552.0 2609.0 5180.0 0 0 c 0 0 0 0 0 0 6065.0 978.0 182.0 510.0 580.0 389.0 1234.0 3355.0 0 0 g 0 0 0 0 0 0 5204.0 2049.0 41025.0 40626.0 390.0 481.0 37803.0 4948.0 0 0 t 0 0 0 0 0 0 1450.0 341.0 427.0 423.0 280.0 724.0 500.0 28663.0 0 0
MA0474.4_shift5 (Erg)				; oligos_6nt_mkv3_m5 versus MA0474.4 (Erg); m=2/17; ncol2=10; w=0; offset=1; strand=D; shift=5; score=0.61168; -----aCAGGAAGTg- ; cor=; Ncor= a 0 0 0 0 0 19688.0 1837.0 26773.0 170.0 297.0 29248.0 27881.0 4894.0 2318.0 4846.0 0 c 0 0 0 0 0 2742.0 24759.0 2559.0 133.0 265.0 355.0 370.0 1173.0 3310.0 3938.0 0 g 0 0 0 0 0 4936.0 2732.0 463.0 29562.0 29221.0 274.0 277.0 23600.0 2870.0 18018.0 0 t 0 0 0 0 0 2695.0 733.0 266.0 196.0 278.0 184.0 1533.0 394.0 21563.0 3259.0 0
MA0062.4_rc_shift5 (GABPA_rc)				; oligos_6nt_mkv3_m5 versus MA0062.4_rc (GABPA_rc); m=3/17; ncol2=10; w=0; offset=1; strand=R; shift=5; score=0.601221; -----aCAGGAAGTg- ; cor=; Ncor= a 0 0 0 0 0 40409.0 5012.0 57654.0 859.0 1558.0 61754.0 59186.0 6717.0 4358.0 9453.0 0 c 0 0 0 0 0 7720.0 51920.0 4561.0 520.0 1150.0 1633.0 965.0 2169.0 4873.0 6989.0 0 g 0 0 0 0 0 12006.0 6328.0 1542.0 63107.0 61373.0 1230.0 1443.0 55664.0 3988.0 41398.0 0 t 0 0 0 0 0 5344.0 2219.0 1722.0 993.0 1398.0 862.0 3885.0 929.0 52260.0 7639.0 0
MA0640.3_rc_shift6 (ELF3_rc)				; oligos_6nt_mkv3_m5 versus MA0640.3_rc (ELF3_rc); m=4/17; ncol2=9; w=0; offset=2; strand=R; shift=6; score=0.584945; ------cAGGAAGTg- ; cor=; Ncor= a 0 0 0 0 0 0 8528.0 44422.0 475.0 793.0 46173.0 45195.0 4633.0 3204.0 9951.0 0 c 0 0 0 0 0 0 28319.0 1989.0 473.0 566.0 954.0 768.0 1365.0 2615.0 4122.0 0 g 0 0 0 0 0 0 9278.0 1315.0 47107.0 46481.0 943.0 1368.0 41950.0 2040.0 27973.0 0 t 0 0 0 0 0 0 2377.0 776.0 447.0 662.0 432.0 1171.0 554.0 40643.0 6456.0 0
MA0598.4_rc_shift6 (EHF_rc)				; oligos_6nt_mkv3_m5 versus MA0598.4_rc (EHF_rc); m=5/17; ncol2=9; w=0; offset=2; strand=R; shift=6; score=0.576289; ------cAGGAAGTg- ; cor=; Ncor= a 0 0 0 0 0 0 2629.0 12794.0 112.0 201.0 14865.0 14622.0 1706.0 723.0 2827.0 0 c 0 0 0 0 0 0 9061.0 1538.0 101.0 139.0 199.0 152.0 377.0 775.0 1540.0 0 g 0 0 0 0 0 0 2983.0 608.0 14997.0 14833.0 164.0 167.0 13116.0 456.0 8887.0 0 t 0 0 0 0 0 0 695.0 428.0 158.0 195.0 140.0 427.0 169.0 13414.0 2114.0 0
MA2332.1_shift5 (ZNF175)				; oligos_6nt_mkv3_m5 versus MA2332.1 (ZNF175); m=6/17; ncol2=9; w=0; offset=1; strand=D; shift=5; score=0.560477; -----aCAGGAAGT-- ; cor=; Ncor= a 0 0 0 0 0 923.0 114.0 1333.0 26.0 44.0 1399.0 1343.0 99.0 126.0 0 0 c 0 0 0 0 0 177.0 1138.0 66.0 26.0 12.0 32.0 32.0 44.0 144.0 0 0 g 0 0 0 0 0 207.0 142.0 42.0 1397.0 1373.0 21.0 28.0 1309.0 102.0 0 0 t 0 0 0 0 0 169.0 82.0 35.0 27.0 47.0 24.0 73.0 24.0 1104.0 0 0
MA0761.3_shift5 (ETV1)				; oligos_6nt_mkv3_m5 versus MA0761.3 (ETV1); m=7/17; ncol2=9; w=0; offset=1; strand=D; shift=5; score=0.553884; -----aCAGGAAGT-- ; cor=; Ncor= a 0 0 0 0 0 22801.0 1848.0 33305.0 231.0 378.0 36130.0 33368.0 4235.0 3343.0 0 0 c 0 0 0 0 0 4339.0 32139.0 3064.0 275.0 271.0 471.0 486.0 1307.0 3889.0 0 0 g 0 0 0 0 0 6015.0 2389.0 573.0 36483.0 36121.0 375.0 412.0 31256.0 3146.0 0 0 t 0 0 0 0 0 4184.0 963.0 397.0 350.0 569.0 363.0 3073.0 541.0 26961.0 0 0
MA1992.2_shift6 (Ikzf3)				; oligos_6nt_mkv3_m5 versus MA1992.2 (Ikzf3); m=8/17; ncol2=9; w=0; offset=2; strand=D; shift=6; score=0.551389; ------CAGGAAGTG- ; cor=; Ncor= a 0 0 0 0 0 0 51.0 1054.0 4.0 18.0 1130.0 1058.0 102.0 115.0 125.0 0 c 0 0 0 0 0 0 998.0 62.0 7.0 16.0 25.0 12.0 45.0 147.0 141.0 0 g 0 0 0 0 0 0 103.0 48.0 1166.0 1141.0 22.0 20.0 1011.0 111.0 808.0 0 t 0 0 0 0 0 0 31.0 19.0 6.0 8.0 6.0 93.0 25.0 810.0 109.0 0
MA0149.1_shift0 (EWSR1-FLI1)				; oligos_6nt_mkv3_m5 versus MA0149.1 (EWSR1-FLI1); m=9/17; ncol2=18; w=-4; offset=-4; strand=D; shift=0; score=0.543539; GGAAGGAAGGAAGGAA ; cor=; Ncor= a 0.0 2.0 104.0 104.0 1.0 2.0 103.0 102.0 0.0 0.0 99.0 105.0 0.0 0.0 100.0 102.0 c 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 2.0 4.0 0.0 0.0 2.0 3.0 0.0 g 105.0 103.0 1.0 1.0 104.0 102.0 2.0 3.0 104.0 103.0 2.0 0.0 105.0 103.0 0.0 2.0 t 0.0 0.0 0.0 0.0 0.0 1.0 0.0 0.0 1.0 0.0 0.0 0.0 0.0 0.0 2.0 1.0
MA0473.4_shift6 (ELF1)				; oligos_6nt_mkv3_m5 versus MA0473.4 (ELF1); m=10/17; ncol2=9; w=0; offset=2; strand=D; shift=6; score=0.541439; ------CAGGAAGTG- ; cor=; Ncor= a 0 0 0 0 0 0 3094.0 42164.0 320.0 649.0 45930.0 45243.0 4063.0 3009.0 5688.0 0 c 0 0 0 0 0 0 37923.0 4038.0 421.0 505.0 796.0 705.0 1570.0 1993.0 4236.0 0 g 0 0 0 0 0 0 4819.0 932.0 46642.0 45970.0 676.0 779.0 41738.0 2007.0 34757.0 0 t 0 0 0 0 0 0 1934.0 636.0 387.0 646.0 368.0 1043.0 399.0 40761.0 3089.0 0
MA1508.2_shift4 (IKZF1)				; oligos_6nt_mkv3_m5 versus MA1508.2 (IKZF1); m=11/17; ncol2=8; w=0; offset=0; strand=D; shift=4; score=0.506723; ----AACAGGAA---- ; cor=; Ncor= a 0 0 0 0 8122.0 9137.0 673.0 10194.0 125.0 418.0 10323.0 10254.0 0 0 0 0 c 0 0 0 0 1158.0 473.0 8678.0 212.0 106.0 178.0 247.0 114.0 0 0 0 0 g 0 0 0 0 1007.0 956.0 1272.0 252.0 10569.0 10185.0 297.0 261.0 0 0 0 0 t 0 0 0 0 631.0 352.0 295.0 260.0 118.0 137.0 51.0 289.0 0 0 0 0
MA1935.2_shift3 (ERF::FOXI1)				; oligos_6nt_mkv3_m5 versus MA1935.2 (ERF::FOXI1); m=12/17; ncol2=10; w=-1; offset=-1; strand=D; shift=3; score=0.495484; ---aaACmGGAAr--- ; cor=; Ncor= a 0 0 0 719.0 719.0 719.0 87.0 403.0 35.0 0.0 719.0 719.0 287.0 0 0 0 c 0 0 0 287.0 161.0 50.0 719.0 316.0 28.0 33.0 1.0 89.0 87.0 0 0 0 g 0 0 0 125.0 150.0 175.0 112.0 27.0 719.0 719.0 6.0 5.0 433.0 0 0 0 t 0 0 0 178.0 224.0 12.0 52.0 0.0 0.0 20.0 10.0 236.0 16.0 0 0 0
MA2326.1_shift7 (IKZF2)				; oligos_6nt_mkv3_m5 versus MA2326.1 (IKZF2); m=13/17; ncol2=6; w=0; offset=3; strand=D; shift=7; score=0.492277; -------AGGAAG--- ; cor=; Ncor= a 0 0 0 0 0 0 0 11101.0 2.0 5.0 11264.0 11159.0 21.0 0 0 0 c 0 0 0 0 0 0 0 208.0 127.0 7.0 25.0 191.0 57.0 0 0 0 g 0 0 0 0 0 0 0 79.0 11244.0 11270.0 17.0 26.0 11273.0 0 0 0 t 0 0 0 0 0 0 0 6.0 21.0 112.0 88.0 18.0 43.0 0 0 0
MA1944.2_shift7 (ETV5::DRGX)				; oligos_6nt_mkv3_m5 versus MA1944.2 (ETV5::DRGX); m=14/17; ncol2=12; w=0; offset=3; strand=D; shift=7; score=0.45162; -------mGGAAGyAA ; cor=; Ncor= a 0 0 0 0 0 0 0 157.0 4.0 0.0 440.0 329.0 51.0 31.0 440.0 440.0 c 0 0 0 0 0 0 0 283.0 3.0 11.0 10.0 29.0 51.0 178.0 18.0 51.0 g 0 0 0 0 0 0 0 12.0 440.0 440.0 0.0 15.0 440.0 35.0 141.0 79.0 t 0 0 0 0 0 0 0 16.0 2.0 0.0 1.0 111.0 0.0 262.0 3.0 56.0
MA1121.2_rc_shift8 (TEAD2_rc)				; oligos_6nt_mkv3_m5 versus MA1121.2_rc (TEAD2_rc); m=15/17; ncol2=7; w=0; offset=4; strand=R; shift=8; score=0.447427; --------GGAATGT- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 18.0 24.0 510.0 524.0 9.0 11.0 14.0 0 c 0 0 0 0 0 0 0 0 3.0 10.0 9.0 6.0 11.0 14.0 70.0 0 g 0 0 0 0 0 0 0 0 513.0 500.0 8.0 10.0 5.0 478.0 17.0 0 t 0 0 0 0 0 0 0 0 8.0 8.0 15.0 2.0 517.0 39.0 441.0 0
MA0101.1_rc_shift8 (REL_rc)				; oligos_6nt_mkv3_m5 versus MA0101.1_rc (REL_rc); m=16/17; ncol2=10; w=0; offset=4; strand=R; shift=8; score=0.427759; --------GGAAwkyC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0.0 2.0 15.0 16.0 10.0 3.0 2.0 1.0 c 0 0 0 0 0 0 0 0 0.0 0.0 0.0 0.0 1.0 3.0 9.0 15.0 g 0 0 0 0 0 0 0 0 16.0 15.0 0.0 0.0 1.0 5.0 1.0 0.0 t 0 0 0 0 0 0 0 0 1.0 0.0 2.0 1.0 5.0 6.0 5.0 1.0
MA1937.2_shift7 (ERF::HOXB13)				; oligos_6nt_mkv3_m5 versus MA1937.2 (ERF::HOXB13); m=17/17; ncol2=13; w=0; offset=3; strand=D; shift=7; score=0.411805; -------cGGAaryhr ; cor=; Ncor= a 0 0 0 0 0 0 0 545.0 19.0 28.0 2141.0 2141.0 845.0 69.0 619.0 1067.0 c 0 0 0 0 0 0 0 1597.0 4.0 0.0 49.0 284.0 193.0 795.0 634.0 94.0 g 0 0 0 0 0 0 0 249.0 2141.0 2141.0 28.0 84.0 1296.0 93.0 335.0 1074.0 t 0 0 0 0 0 0 0 35.0 7.0 36.0 41.0 725.0 37.0 1184.0 554.0 287.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m2_shift0 (positions_6nt_m2)				; positions_6nt_m2; m=0 (reference); ncol1=15; shift=0; ncol=15; crrACATGCCCagrc ; Alignment reference a 187 285 296 736 7 734 37 16 21 45 40 500 88 316 181 c 255 121 111 22 812 36 13 6 725 763 671 68 127 136 454 g 197 310 368 75 18 21 23 809 7 17 12 180 552 296 123 t 207 130 71 13 9 55 773 15 93 21 123 98 79 98 88
MA0106.3_shift2 (TP53)				; positions_6nt_m2 versus MA0106.3 (TP53); m=1/4; ncol2=18; w=0; offset=2; strand=D; shift=2; score=0.594259; --rACATGyCcgGrC ; cor=; Ncor= a 0 0 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 3584.0 7104.0 0.0 c 0 0 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 756.0 26.0 19350.0 g 0 0 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 17846.0 8821.0 4.0 t 0 0 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0 1546.0 190.0 1.0
MA1979.2_rc_shift6 (ZNF416_rc)				; positions_6nt_m2 versus MA1979.2_rc (ZNF416_rc); m=2/4; ncol2=10; w=0; offset=6; strand=R; shift=6; score=0.494261; ------tGCCCAGAt ; cor=; Ncor= a 0 0 0 0 0 0 66.0 18.0 3.0 3.0 2.0 336.0 3.0 254.0 46.0 c 0 0 0 0 0 0 29.0 3.0 341.0 335.0 335.0 1.0 7.0 15.0 77.0 g 0 0 0 0 0 0 38.0 320.0 1.0 5.0 7.0 6.0 334.0 28.0 25.0 t 0 0 0 0 0 0 212.0 4.0 0.0 2.0 1.0 2.0 1.0 48.0 197.0
MA0861.2_shift3 (TP73)				; positions_6nt_m2 versus MA0861.2 (TP73); m=3/4; ncol2=16; w=0; offset=3; strand=D; shift=3; score=0.472395; ---rCATGTcyrrAC ; cor=; Ncor= a 0 0 0 6206.0 0.0 8760.0 3837.0 8.0 130.0 1377.0 2166.0 3488.0 3988.0 9639.0 0.0 c 0 0 0 429.0 10829.0 124.0 293.0 28.0 2591.0 8161.0 2940.0 2418.0 441.0 145.0 11703.0 g 0 0 0 3304.0 0.0 557.0 806.0 11787.0 91.0 783.0 2230.0 3558.0 7797.0 1414.0 0.0 t 0 0 0 208.0 0.0 198.0 11480.0 1.0 11892.0 2749.0 4242.0 2457.0 1002.0 442.0 0.0
MA0597.3_rc_shift6 (THAP1_rc)				; positions_6nt_m2 versus MA0597.3_rc (THAP1_rc); m=4/4; ncol2=8; w=0; offset=6; strand=R; shift=6; score=0.437377; ------TGCCCTgc- ; cor=; Ncor= a 0 0 0 0 0 0 11.0 115.0 78.0 62.0 71.0 8.0 341.0 549.0 0 c 0 0 0 0 0 0 172.0 104.0 4942.0 4893.0 4958.0 220.0 933.0 3186.0 0 g 0 0 0 0 0 0 95.0 4861.0 67.0 183.0 127.0 219.0 3351.0 966.0 0 t 0 0 0 0 0 0 4900.0 98.0 91.0 40.0 22.0 4731.0 553.0 477.0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m2_shift0 (oligos_6nt_mkv3_m2)				; oligos_6nt_mkv3_m2; m=0 (reference); ncol1=12; shift=0; ncol=12; hrgACAAGTCys ; Alignment reference a 146 198 81 397 7 556 404 5 11 18 140 141 c 168 70 59 44 557 11 24 7 16 535 202 157 g 108 209 350 116 12 9 15 560 6 6 54 172 t 159 104 91 24 5 5 138 9 548 22 185 111
MA0844.2_shift2 (XBP1)				; oligos_6nt_mkv3_m2 versus MA0844.2 (XBP1); m=1/6; ncol2=11; w=0; offset=2; strand=D; shift=2; score=0.559066; --GmCACGTCAk ; cor=; Ncor= a 0 0 974.0 3699.0 167.0 7840.0 9.0 52.0 0.0 380.0 8004.0 230.0 c 0 0 367.0 3809.0 7169.0 17.0 7356.0 0.0 16.0 7264.0 48.0 2273.0 g 0 0 9168.0 59.0 222.0 276.0 2.0 11353.0 8.0 47.0 173.0 3157.0 t 0 0 2321.0 247.0 442.0 118.0 10.0 10.0 9107.0 35.0 92.0 6389.0
MA0676.1_shift3 (Nr2e1)				; oligos_6nt_mkv3_m2 versus MA0676.1 (Nr2e1); m=2/6; ncol2=9; w=0; offset=3; strand=D; shift=3; score=0.525572; ---aaAAGTCAA ; cor=; Ncor= a 0 0 0 1118.0 1118.0 1118.0 1118.0 40.0 0.0 11.0 1118.0 1118.0 c 0 0 0 244.0 89.0 1.0 0.0 0.0 58.0 1118.0 0.0 131.0 g 0 0 0 191.0 448.0 101.0 74.0 1118.0 0.0 12.0 0.0 117.0 t 0 0 0 401.0 369.0 19.0 5.0 8.0 1118.0 112.0 0.0 247.0
MA0861.2_shift3 (TP73)				; oligos_6nt_mkv3_m2 versus MA0861.2 (TP73); m=3/6; ncol2=16; w=0; offset=3; strand=D; shift=3; score=0.431617; ---rCATGTcyr ; cor=; Ncor= a 0 0 0 6206.0 0.0 8760.0 3837.0 8.0 130.0 1377.0 2166.0 3488.0 c 0 0 0 429.0 10829.0 124.0 293.0 28.0 2591.0 8161.0 2940.0 2418.0 g 0 0 0 3304.0 0.0 557.0 806.0 11787.0 91.0 783.0 2230.0 3558.0 t 0 0 0 208.0 0.0 198.0 11480.0 1.0 11892.0 2749.0 4242.0 2457.0
MA0525.2_rc_shift2 (TP63_rc)				; oligos_6nt_mkv3_m2 versus MA0525.2_rc (TP63_rc); m=4/6; ncol2=18; w=0; offset=2; strand=R; shift=2; score=0.416263; --gACATGTymc ; cor=; Ncor= a 0 0 606.0 3126.0 0.0 2823.0 192.0 0.0 45.0 47.0 829.0 13.0 c 0 0 198.0 1.0 3532.0 8.0 1.0 0.0 48.0 2132.0 1656.0 2070.0 g 0 0 2099.0 202.0 0.0 617.0 0.0 2788.0 0.0 1.0 681.0 478.0 t 0 0 701.0 49.0 0.0 75.0 2151.0 0.0 2192.0 993.0 112.0 649.0
MA0775.2_shift0 (MEIS3)				; oligos_6nt_mkv3_m2 versus MA0775.2 (MEIS3); m=5/6; ncol2=7; w=0; offset=0; strand=D; shift=0; score=0.413672; wTGACAg----- ; cor=; Ncor= a 1866.0 465.0 0.0 7165.0 53.0 7165.0 1690.0 0 0 0 0 0 c 60.0 383.0 6.0 20.0 7165.0 8.0 1889.0 0 0 0 0 0 g 1788.0 260.0 7165.0 455.0 8.0 468.0 7165.0 0 0 0 0 0 t 3451.0 7165.0 0.0 53.0 160.0 145.0 2094.0 0 0 0 0 0
MA0161.3_rc_shift1 (NFIC_rc)				; oligos_6nt_mkv3_m2 versus MA0161.3_rc (NFIC_rc); m=6/6; ncol2=7; w=0; offset=1; strand=R; shift=1; score=0.412971; -TGCCAAG---- ; cor=; Ncor= a 0 574.0 530.0 290.0 81.0 10745.0 10781.0 324.0 0 0 0 0 c 0 478.0 88.0 10973.0 11087.0 177.0 369.0 329.0 0 0 0 0 g 0 397.0 10725.0 121.0 129.0 333.0 303.0 10542.0 0 0 0 0 t 0 10158.0 264.0 223.0 310.0 352.0 154.0 412.0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_7nt_m2_shift5 (positions_7nt_m2)				; positions_7nt_m2; m=0 (reference); ncol1=16; shift=5; ncol=21; -----gyctGGGCATGTCyrg ; Alignment reference a 0 0 0 0 0 87 95 75 86 98 30 99 7 744 68 11 12 36 94 231 151 c 0 0 0 0 0 149 302 475 169 18 23 12 799 20 17 19 135 612 452 182 198 g 0 0 0 0 0 419 110 166 70 668 740 699 6 18 33 788 19 67 44 240 333 t 0 0 0 0 0 167 315 106 497 38 29 12 10 40 704 4 656 107 232 169 140
MA0106.3_rc_shift0 (TP53_rc)				; positions_7nt_m2 versus MA0106.3_rc (TP53_rc); m=1/4; ncol2=18; w=-5; offset=-5; strand=R; shift=0; score=0.550697; rACATGyCcgGrCATGTy--- ; cor=; Ncor= a 9120.0 17859.0 68.0 17864.0 1155.0 1.0 190.0 1546.0 2118.0 3774.0 2642.0 7106.0 0.0 18893.0 739.0 837.0 735.0 2268.0 0 0 0 c 825.0 116.0 20549.0 89.0 157.0 4.0 8821.0 17846.0 9954.0 2151.0 417.0 109.0 20393.0 137.0 653.0 13.0 2433.0 6563.0 0 0 0 g 9183.0 3338.0 33.0 118.0 250.0 19350.0 26.0 756.0 1474.0 11875.0 17286.0 12014.0 2.0 374.0 204.0 19689.0 116.0 1037.0 0 0 0 t 1472.0 879.0 327.0 1825.0 12925.0 0.0 7104.0 3584.0 3851.0 1145.0 1228.0 244.0 8.0 1710.0 11931.0 45.0 10514.0 7544.0 0 0 0
MA1979.2_shift4 (ZNF416)				; positions_7nt_m2 versus MA1979.2 (ZNF416); m=2/4; ncol2=10; w=-1; offset=-1; strand=D; shift=4; score=0.463425; ----TaTCTGGGCa------- ; cor=; Ncor= a 0 0 0 0 47.0 197.0 48.0 1.0 2.0 1.0 2.0 0.0 4.0 212.0 0 0 0 0 0 0 0 c 0 0 0 0 32.0 25.0 28.0 334.0 6.0 7.0 5.0 1.0 320.0 38.0 0 0 0 0 0 0 0 g 0 0 0 0 26.0 77.0 15.0 7.0 1.0 335.0 335.0 341.0 3.0 29.0 0 0 0 0 0 0 0 t 0 0 0 0 240.0 46.0 254.0 3.0 336.0 2.0 3.0 3.0 18.0 66.0 0 0 0 0 0 0 0
MA0861.2_rc_shift1 (TP73_rc)				; positions_7nt_m2 versus MA0861.2_rc (TP73_rc); m=3/4; ncol2=16; w=-4; offset=-4; strand=R; shift=1; score=0.447563; -rCrTGTyyrgACATGy---- ; cor=; Ncor= a 0 6995.0 39.0 8476.0 2302.0 0.0 442.0 1002.0 2457.0 4242.0 2749.0 11892.0 1.0 11480.0 198.0 0.0 208.0 0 0 0 0 c 0 181.0 13026.0 130.0 279.0 0.0 1414.0 7797.0 3558.0 2230.0 783.0 91.0 11787.0 806.0 557.0 0.0 3304.0 0 0 0 0 g 0 6944.0 170.0 5965.0 143.0 11703.0 145.0 441.0 2418.0 2940.0 8161.0 2591.0 28.0 293.0 124.0 10829.0 429.0 0 0 0 0 t 0 993.0 16.0 256.0 10125.0 0.0 9639.0 3988.0 3488.0 2166.0 1377.0 130.0 8.0 3837.0 8760.0 0.0 6206.0 0 0 0 0
MA0597.3_shift6 (THAP1)				; positions_7nt_m2 versus MA0597.3 (THAP1); m=4/4; ncol2=8; w=0; offset=1; strand=D; shift=6; score=0.405375; ------gcAGGGCA------- ; cor=; Ncor= a 0 0 0 0 0 0 477.0 553.0 4731.0 22.0 40.0 91.0 98.0 4900.0 0 0 0 0 0 0 0 c 0 0 0 0 0 0 966.0 3351.0 219.0 127.0 183.0 67.0 4861.0 95.0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 3186.0 933.0 220.0 4958.0 4893.0 4942.0 104.0 172.0 0 0 0 0 0 0 0 t 0 0 0 0 0 0 549.0 341.0 8.0 71.0 62.0 78.0 115.0 11.0 0 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv4_m3_shift8 (oligos_7nt_mkv4_m3)				; oligos_7nt_mkv4_m3; m=0 (reference); ncol1=12; shift=8; ncol=20; --------yrGACAAGTCyv ; Alignment reference a 0 0 0 0 0 0 0 0 97 172 26 353 7 433 316 4 8 10 97 119 c 0 0 0 0 0 0 0 0 148 38 19 14 429 6 22 1 40 415 182 126 g 0 0 0 0 0 0 0 0 75 177 389 79 11 9 8 442 12 7 27 132 t 0 0 0 0 0 0 0 0 131 64 17 5 4 3 105 4 391 19 145 74
MA0844.2_shift10 (XBP1)				; oligos_7nt_mkv4_m3 versus MA0844.2 (XBP1); m=1/5; ncol2=11; w=0; offset=2; strand=D; shift=10; score=0.547156; ----------GmCACGTCAk ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 974.0 3699.0 167.0 7840.0 9.0 52.0 0.0 380.0 8004.0 230.0 c 0 0 0 0 0 0 0 0 0 0 367.0 3809.0 7169.0 17.0 7356.0 0.0 16.0 7264.0 48.0 2273.0 g 0 0 0 0 0 0 0 0 0 0 9168.0 59.0 222.0 276.0 2.0 11353.0 8.0 47.0 173.0 3157.0 t 0 0 0 0 0 0 0 0 0 0 2321.0 247.0 442.0 118.0 10.0 10.0 9107.0 35.0 92.0 6389.0
MA0775.2_shift8 (MEIS3)				; oligos_7nt_mkv4_m3 versus MA0775.2 (MEIS3); m=2/5; ncol2=7; w=0; offset=0; strand=D; shift=8; score=0.431482; --------wTGACAg----- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1866.0 465.0 0.0 7165.0 53.0 7165.0 1690.0 0 0 0 0 0 c 0 0 0 0 0 0 0 0 60.0 383.0 6.0 20.0 7165.0 8.0 1889.0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 1788.0 260.0 7165.0 455.0 8.0 468.0 7165.0 0 0 0 0 0 t 0 0 0 0 0 0 0 0 3451.0 7165.0 0.0 53.0 160.0 145.0 2094.0 0 0 0 0 0
MA0861.2_shift11 (TP73)				; oligos_7nt_mkv4_m3 versus MA0861.2 (TP73); m=3/5; ncol2=16; w=0; offset=3; strand=D; shift=11; score=0.430271; -----------rCATGTcyr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 6206.0 0.0 8760.0 3837.0 8.0 130.0 1377.0 2166.0 3488.0 c 0 0 0 0 0 0 0 0 0 0 0 429.0 10829.0 124.0 293.0 28.0 2591.0 8161.0 2940.0 2418.0 g 0 0 0 0 0 0 0 0 0 0 0 3304.0 0.0 557.0 806.0 11787.0 91.0 783.0 2230.0 3558.0 t 0 0 0 0 0 0 0 0 0 0 0 208.0 0.0 198.0 11480.0 1.0 11892.0 2749.0 4242.0 2457.0
MA0525.2_rc_shift10 (TP63_rc)				; oligos_7nt_mkv4_m3 versus MA0525.2_rc (TP63_rc); m=4/5; ncol2=18; w=0; offset=2; strand=R; shift=10; score=0.414371; ----------gACATGTymc ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 606.0 3126.0 0.0 2823.0 192.0 0.0 45.0 47.0 829.0 13.0 c 0 0 0 0 0 0 0 0 0 0 198.0 1.0 3532.0 8.0 1.0 0.0 48.0 2132.0 1656.0 2070.0 g 0 0 0 0 0 0 0 0 0 0 2099.0 202.0 0.0 617.0 0.0 2788.0 0.0 1.0 681.0 478.0 t 0 0 0 0 0 0 0 0 0 0 701.0 49.0 0.0 75.0 2151.0 0.0 2192.0 993.0 112.0 649.0
MA0106.3_shift0 (TP53)				; oligos_7nt_mkv4_m3 versus MA0106.3 (TP53); m=5/5; ncol2=18; w=-8; offset=-8; strand=D; shift=0; score=0.40136; rACATGyCcgGrCATGTy-- ; cor=; Ncor= a 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 3584.0 7104.0 0.0 12925.0 1825.0 327.0 879.0 1472.0 0 0 c 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 756.0 26.0 19350.0 250.0 118.0 33.0 3338.0 9183.0 0 0 g 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 17846.0 8821.0 4.0 157.0 89.0 20549.0 116.0 825.0 0 0 t 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0 1546.0 190.0 1.0 1155.0 17864.0 68.0 17859.0 9120.0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m1_shift0 (positions_6nt_m1)				; positions_6nt_m1; m=0 (reference); ncol1=17; shift=0; ncol=17; ycyrGACATGCCCagrc ; Alignment reference a 126 136 150 231 81 622 4 698 32 7 19 18 42 444 101 310 160 c 323 337 218 43 48 21 769 19 14 6 658 726 608 67 153 111 417 g 91 181 144 430 634 139 17 14 19 778 10 15 21 193 475 297 135 t 255 141 283 91 32 13 5 64 730 4 108 36 124 91 66 77 83
MA0106.3_shift4 (TP53)				; positions_6nt_m1 versus MA0106.3 (TP53); m=1/3; ncol2=18; w=0; offset=4; strand=D; shift=4; score=0.529999; ----rACATGyCcgGrC ; cor=; Ncor= a 0 0 0 0 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 3584.0 7104.0 0.0 c 0 0 0 0 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 756.0 26.0 19350.0 g 0 0 0 0 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 17846.0 8821.0 4.0 t 0 0 0 0 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0 1546.0 190.0 1.0
MA0861.2_shift5 (TP73)				; positions_6nt_m1 versus MA0861.2 (TP73); m=2/3; ncol2=16; w=0; offset=5; strand=D; shift=5; score=0.436945; -----rCATGTcyrrAC ; cor=; Ncor= a 0 0 0 0 0 6206.0 0.0 8760.0 3837.0 8.0 130.0 1377.0 2166.0 3488.0 3988.0 9639.0 0.0 c 0 0 0 0 0 429.0 10829.0 124.0 293.0 28.0 2591.0 8161.0 2940.0 2418.0 441.0 145.0 11703.0 g 0 0 0 0 0 3304.0 0.0 557.0 806.0 11787.0 91.0 783.0 2230.0 3558.0 7797.0 1414.0 0.0 t 0 0 0 0 0 208.0 0.0 198.0 11480.0 1.0 11892.0 2749.0 4242.0 2457.0 1002.0 442.0 0.0
MA1979.2_rc_shift8 (ZNF416_rc)				; positions_6nt_m1 versus MA1979.2_rc (ZNF416_rc); m=3/3; ncol2=10; w=0; offset=8; strand=R; shift=8; score=0.432019; --------tGCCCAGAt ; cor=; Ncor= a 0 0 0 0 0 0 0 0 66.0 18.0 3.0 3.0 2.0 336.0 3.0 254.0 46.0 c 0 0 0 0 0 0 0 0 29.0 3.0 341.0 335.0 335.0 1.0 7.0 15.0 77.0 g 0 0 0 0 0 0 0 0 38.0 320.0 1.0 5.0 7.0 6.0 334.0 28.0 25.0 t 0 0 0 0 0 0 0 0 212.0 4.0 0.0 2.0 1.0 2.0 1.0 48.0 197.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_7nt_m1_shift0 (positions_7nt_m1)				; positions_7nt_m1; m=0 (reference); ncol1=17; shift=0; ncol=17; yccaGACATGCCCagrc ; Alignment reference a 111 127 107 449 74 578 8 611 38 9 17 43 27 447 97 304 157 c 310 303 386 41 70 12 686 35 11 5 592 620 584 53 143 99 365 g 80 151 112 142 537 115 13 14 15 695 5 18 13 133 401 231 117 t 213 133 109 82 33 9 7 54 650 5 100 33 90 81 73 80 75
MA0106.3_shift4 (TP53)				; positions_7nt_m1 versus MA0106.3 (TP53); m=1/3; ncol2=18; w=0; offset=4; strand=D; shift=4; score=0.522612; ----rACATGyCcgGrC ; cor=; Ncor= a 0 0 0 0 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 3584.0 7104.0 0.0 c 0 0 0 0 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 756.0 26.0 19350.0 g 0 0 0 0 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 17846.0 8821.0 4.0 t 0 0 0 0 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0 1546.0 190.0 1.0
MA1979.2_rc_shift8 (ZNF416_rc)				; positions_7nt_m1 versus MA1979.2_rc (ZNF416_rc); m=2/3; ncol2=10; w=0; offset=8; strand=R; shift=8; score=0.440041; --------tGCCCAGAt ; cor=; Ncor= a 0 0 0 0 0 0 0 0 66.0 18.0 3.0 3.0 2.0 336.0 3.0 254.0 46.0 c 0 0 0 0 0 0 0 0 29.0 3.0 341.0 335.0 335.0 1.0 7.0 15.0 77.0 g 0 0 0 0 0 0 0 0 38.0 320.0 1.0 5.0 7.0 6.0 334.0 28.0 25.0 t 0 0 0 0 0 0 0 0 212.0 4.0 0.0 2.0 1.0 2.0 1.0 48.0 197.0
MA0861.2_shift5 (TP73)				; positions_7nt_m1 versus MA0861.2 (TP73); m=3/3; ncol2=16; w=0; offset=5; strand=D; shift=5; score=0.432018; -----rCATGTcyrrAC ; cor=; Ncor= a 0 0 0 0 0 6206.0 0.0 8760.0 3837.0 8.0 130.0 1377.0 2166.0 3488.0 3988.0 9639.0 0.0 c 0 0 0 0 0 429.0 10829.0 124.0 293.0 28.0 2591.0 8161.0 2940.0 2418.0 441.0 145.0 11703.0 g 0 0 0 0 0 3304.0 0.0 557.0 806.0 11787.0 91.0 783.0 2230.0 3558.0 7797.0 1414.0 0.0 t 0 0 0 0 0 208.0 0.0 198.0 11480.0 1.0 11892.0 2749.0 4242.0 2457.0 1002.0 442.0 0.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m3_shift4 (positions_6nt_m3)				; positions_6nt_m3; m=0 (reference); ncol1=18; shift=4; ncol=22; ----gyccrGACATGCCCagrc ; Alignment reference a 0 0 0 0 92 120 129 132 443 72 682 10 746 51 10 15 44 44 481 120 344 186 c 0 0 0 0 187 394 435 399 54 56 19 837 36 17 8 728 769 662 82 175 117 430 g 0 0 0 0 472 91 160 149 270 714 157 14 19 23 847 10 23 27 196 504 312 159 t 0 0 0 0 119 265 146 190 103 28 12 9 69 779 5 117 34 137 111 71 97 95
MA0106.3_shift9 (TP53)				; positions_6nt_m3 versus MA0106.3 (TP53); m=1/3; ncol2=18; w=0; offset=5; strand=D; shift=9; score=0.501161; ---------rACATGyCcgGrC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 3584.0 7104.0 0.0 c 0 0 0 0 0 0 0 0 0 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 756.0 26.0 19350.0 g 0 0 0 0 0 0 0 0 0 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 17846.0 8821.0 4.0 t 0 0 0 0 0 0 0 0 0 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0 1546.0 190.0 1.0
MA0861.2_rc_shift0 (TP73_rc)				; positions_6nt_m3 versus MA0861.2_rc (TP73_rc); m=2/3; ncol2=16; w=-4; offset=-4; strand=R; shift=0; score=0.458156; rCrTGTyyrgACATGy------ ; cor=; Ncor= a 6995.0 39.0 8476.0 2302.0 0.0 442.0 1002.0 2457.0 4242.0 2749.0 11892.0 1.0 11480.0 198.0 0.0 208.0 0 0 0 0 0 0 c 181.0 13026.0 130.0 279.0 0.0 1414.0 7797.0 3558.0 2230.0 783.0 91.0 11787.0 806.0 557.0 0.0 3304.0 0 0 0 0 0 0 g 6944.0 170.0 5965.0 143.0 11703.0 145.0 441.0 2418.0 2940.0 8161.0 2591.0 28.0 293.0 124.0 10829.0 429.0 0 0 0 0 0 0 t 993.0 16.0 256.0 10125.0 0.0 9639.0 3988.0 3488.0 2166.0 1377.0 130.0 8.0 3837.0 8760.0 0.0 6206.0 0 0 0 0 0 0
MA1979.2_rc_shift13 (ZNF416_rc)				; positions_6nt_m3 versus MA1979.2_rc (ZNF416_rc); m=3/3; ncol2=10; w=0; offset=9; strand=R; shift=13; score=0.411503; -------------tGCCCAGAt ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 0 66.0 18.0 3.0 3.0 2.0 336.0 3.0 254.0 46.0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 29.0 3.0 341.0 335.0 335.0 1.0 7.0 15.0 77.0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 38.0 320.0 1.0 5.0 7.0 6.0 334.0 28.0 25.0 t 0 0 0 0 0 0 0 0 0 0 0 0 0 212.0 4.0 0.0 2.0 1.0 2.0 1.0 48.0 197.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m4_shift6 (positions_6nt_m4)				; positions_6nt_m4; m=0 (reference); ncol1=16; shift=6; ncol=22; ------ycygGACATGTCcrgr ; Alignment reference a 0 0 0 0 0 0 97 140 122 176 66 547 13 695 31 7 15 32 69 327 139 278 c 0 0 0 0 0 0 272 302 192 31 20 10 714 7 12 11 173 627 469 105 163 98 g 0 0 0 0 0 0 98 164 105 469 627 173 11 12 7 713 10 20 31 192 302 272 t 0 0 0 0 0 0 278 139 326 69 32 15 7 31 695 14 547 66 176 121 141 97
MA0106.3_shift0 (TP53)				; positions_6nt_m4 versus MA0106.3 (TP53); m=1/3; ncol2=18; w=-6; offset=-6; strand=D; shift=0; score=0.485533; rACATGyCcgGrCATGTy---- ; cor=; Ncor= a 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 3584.0 7104.0 0.0 12925.0 1825.0 327.0 879.0 1472.0 0 0 0 0 c 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 756.0 26.0 19350.0 250.0 118.0 33.0 3338.0 9183.0 0 0 0 0 g 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 17846.0 8821.0 4.0 157.0 89.0 20549.0 116.0 825.0 0 0 0 0 t 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0 1546.0 190.0 1.0 1155.0 17864.0 68.0 17859.0 9120.0 0 0 0 0
MA0861.2_rc_shift1 (TP73_rc)				; positions_6nt_m4 versus MA0861.2_rc (TP73_rc); m=2/3; ncol2=16; w=-5; offset=-5; strand=R; shift=1; score=0.47143; -rCrTGTyyrgACATGy----- ; cor=; Ncor= a 0 6995.0 39.0 8476.0 2302.0 0.0 442.0 1002.0 2457.0 4242.0 2749.0 11892.0 1.0 11480.0 198.0 0.0 208.0 0 0 0 0 0 c 0 181.0 13026.0 130.0 279.0 0.0 1414.0 7797.0 3558.0 2230.0 783.0 91.0 11787.0 806.0 557.0 0.0 3304.0 0 0 0 0 0 g 0 6944.0 170.0 5965.0 143.0 11703.0 145.0 441.0 2418.0 2940.0 8161.0 2591.0 28.0 293.0 124.0 10829.0 429.0 0 0 0 0 0 t 0 993.0 16.0 256.0 10125.0 0.0 9639.0 3988.0 3488.0 2166.0 1377.0 130.0 8.0 3837.0 8760.0 0.0 6206.0 0 0 0 0 0
MA0525.2_shift0 (TP63)				; positions_6nt_m4 versus MA0525.2 (TP63); m=3/3; ncol2=18; w=-6; offset=-6; strand=D; shift=0; score=0.454378; rACATGTygkrACATGTc---- ; cor=; Ncor= a 1586.0 2261.0 0.0 2246.0 692.0 0.0 14.0 97.0 649.0 112.0 993.0 2192.0 0.0 2151.0 75.0 0.0 49.0 701.0 0 0 0 0 c 26.0 1.0 2533.0 0.0 33.0 0.0 85.0 1025.0 478.0 681.0 1.0 0.0 2788.0 0.0 617.0 0.0 202.0 2099.0 0 0 0 0 g 997.0 185.0 0.0 76.0 0.0 4021.0 0.0 26.0 2070.0 1656.0 2132.0 48.0 0.0 1.0 8.0 3532.0 1.0 198.0 0 0 0 0 t 115.0 21.0 0.0 4.0 2353.0 0.0 3025.0 1961.0 13.0 829.0 47.0 45.0 0.0 192.0 2823.0 0.0 3126.0 606.0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m3_shift7 (oligos_6nt_mkv3_m3)				; oligos_6nt_mkv3_m3; m=0 (reference); ncol1=14; shift=7; ncol=21; -------cyrGACATGTCyrg ; Alignment reference a 0 0 0 0 0 0 0 144 170 237 64 626 9 750 38 5 14 26 105 243 175 c 0 0 0 0 0 0 0 323 259 42 25 8 791 8 19 10 167 700 431 143 172 g 0 0 0 0 0 0 0 173 143 431 700 167 10 19 8 790 8 25 42 260 323 t 0 0 0 0 0 0 0 175 243 105 26 14 5 38 750 10 626 64 237 169 145
MA0861.2_shift11 (TP73)				; oligos_6nt_mkv3_m3 versus MA0861.2 (TP73); m=1/3; ncol2=16; w=0; offset=4; strand=D; shift=11; score=0.474352; -----------rCATGTcyrr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 6206.0 0.0 8760.0 3837.0 8.0 130.0 1377.0 2166.0 3488.0 3988.0 c 0 0 0 0 0 0 0 0 0 0 0 429.0 10829.0 124.0 293.0 28.0 2591.0 8161.0 2940.0 2418.0 441.0 g 0 0 0 0 0 0 0 0 0 0 0 3304.0 0.0 557.0 806.0 11787.0 91.0 783.0 2230.0 3558.0 7797.0 t 0 0 0 0 0 0 0 0 0 0 0 208.0 0.0 198.0 11480.0 1.0 11892.0 2749.0 4242.0 2457.0 1002.0
MA0106.3_rc_shift10 (TP53_rc)				; oligos_6nt_mkv3_m3 versus MA0106.3_rc (TP53_rc); m=2/3; ncol2=18; w=0; offset=3; strand=R; shift=10; score=0.47031; ----------rACATGyCcgG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 9120.0 17859.0 68.0 17864.0 1155.0 1.0 190.0 1546.0 2118.0 3774.0 2642.0 c 0 0 0 0 0 0 0 0 0 0 825.0 116.0 20549.0 89.0 157.0 4.0 8821.0 17846.0 9954.0 2151.0 417.0 g 0 0 0 0 0 0 0 0 0 0 9183.0 3338.0 33.0 118.0 250.0 19350.0 26.0 756.0 1474.0 11875.0 17286.0 t 0 0 0 0 0 0 0 0 0 0 1472.0 879.0 327.0 1825.0 12925.0 0.0 7104.0 3584.0 3851.0 1145.0 1228.0
MA0525.2_shift0 (TP63)				; oligos_6nt_mkv3_m3 versus MA0525.2 (TP63); m=3/3; ncol2=18; w=-7; offset=-7; strand=D; shift=0; score=0.465853; rACATGTygkrACATGTc--- ; cor=; Ncor= a 1586.0 2261.0 0.0 2246.0 692.0 0.0 14.0 97.0 649.0 112.0 993.0 2192.0 0.0 2151.0 75.0 0.0 49.0 701.0 0 0 0 c 26.0 1.0 2533.0 0.0 33.0 0.0 85.0 1025.0 478.0 681.0 1.0 0.0 2788.0 0.0 617.0 0.0 202.0 2099.0 0 0 0 g 997.0 185.0 0.0 76.0 0.0 4021.0 0.0 26.0 2070.0 1656.0 2132.0 48.0 0.0 1.0 8.0 3532.0 1.0 198.0 0 0 0 t 115.0 21.0 0.0 4.0 2353.0 0.0 3025.0 1961.0 13.0 829.0 47.0 45.0 0.0 192.0 2823.0 0.0 3126.0 606.0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m5_shift7 (positions_6nt_m5)				; positions_6nt_m5; m=0 (reference); ncol1=15; shift=7; ncol=22; -------cyrGGCATGTCyagr ; Alignment reference a 0 0 0 0 0 0 0 91 115 289 25 110 3 676 29 6 15 22 54 305 134 257 c 0 0 0 0 0 0 0 329 261 37 10 9 720 18 14 8 129 613 441 126 154 76 g 0 0 0 0 0 0 0 172 87 340 685 598 8 17 14 714 13 36 35 172 316 309 t 0 0 0 0 0 0 0 142 271 68 14 17 3 23 677 6 577 63 204 131 130 92
MA0861.2_rc_shift11 (TP73_rc)				; positions_6nt_m5 versus MA0861.2_rc (TP73_rc); m=1/6; ncol2=16; w=0; offset=4; strand=R; shift=11; score=0.471855; -----------rCrTGTyyrgA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 6995.0 39.0 8476.0 2302.0 0.0 442.0 1002.0 2457.0 4242.0 2749.0 11892.0 c 0 0 0 0 0 0 0 0 0 0 0 181.0 13026.0 130.0 279.0 0.0 1414.0 7797.0 3558.0 2230.0 783.0 91.0 g 0 0 0 0 0 0 0 0 0 0 0 6944.0 170.0 5965.0 143.0 11703.0 145.0 441.0 2418.0 2940.0 8161.0 2591.0 t 0 0 0 0 0 0 0 0 0 0 0 993.0 16.0 256.0 10125.0 0.0 9639.0 3988.0 3488.0 2166.0 1377.0 130.0
MA0106.3_rc_shift0 (TP53_rc)				; positions_6nt_m5 versus MA0106.3_rc (TP53_rc); m=2/6; ncol2=18; w=-7; offset=-7; strand=R; shift=0; score=0.459769; rACATGyCcgGrCATGTy---- ; cor=; Ncor= a 9120.0 17859.0 68.0 17864.0 1155.0 1.0 190.0 1546.0 2118.0 3774.0 2642.0 7106.0 0.0 18893.0 739.0 837.0 735.0 2268.0 0 0 0 0 c 825.0 116.0 20549.0 89.0 157.0 4.0 8821.0 17846.0 9954.0 2151.0 417.0 109.0 20393.0 137.0 653.0 13.0 2433.0 6563.0 0 0 0 0 g 9183.0 3338.0 33.0 118.0 250.0 19350.0 26.0 756.0 1474.0 11875.0 17286.0 12014.0 2.0 374.0 204.0 19689.0 116.0 1037.0 0 0 0 0 t 1472.0 879.0 327.0 1825.0 12925.0 0.0 7104.0 3584.0 3851.0 1145.0 1228.0 244.0 8.0 1710.0 11931.0 45.0 10514.0 7544.0 0 0 0 0
MA0090.4_rc_shift8 (TEAD1_rc)				; positions_6nt_m5 versus MA0090.4_rc (TEAD1_rc); m=3/6; ncol2=9; w=0; offset=1; strand=R; shift=8; score=0.421307; --------CTGGAATGT----- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 7203.0 9428.0 1687.0 1332.0 63590.0 68517.0 700.0 1103.0 1941.0 0 0 0 0 0 c 0 0 0 0 0 0 0 0 47856.0 2051.0 374.0 765.0 1210.0 646.0 946.0 1923.0 9179.0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 6215.0 1729.0 67635.0 66953.0 622.0 700.0 646.0 61276.0 1248.0 0 0 0 0 0 t 0 0 0 0 0 0 0 0 9124.0 57190.0 702.0 1348.0 4976.0 535.0 68106.0 6096.0 58030.0 0 0 0 0 0
MA0739.2_rc_shift7 (Hic1_rc)				; positions_6nt_m5 versus MA0739.2_rc (Hic1_rc); m=4/6; ncol2=8; w=0; offset=0; strand=R; shift=7; score=0.414845; -------GtTGGCAy------- ; cor=; Ncor= a 0 0 0 0 0 0 0 1488.0 614.0 317.0 68.0 0.0 183.0 11007.0 666.0 0 0 0 0 0 0 0 c 0 0 0 0 0 0 0 1629.0 2267.0 3.0 31.0 121.0 11007.0 73.0 4670.0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 11007.0 1986.0 1999.0 11007.0 11007.0 588.0 422.0 719.0 0 0 0 0 0 0 0 t 0 0 0 0 0 0 0 1220.0 6140.0 9008.0 88.0 50.0 950.0 62.0 6337.0 0 0 0 0 0 0 0
MA0525.2_rc_shift10 (TP63_rc)				; positions_6nt_m5 versus MA0525.2_rc (TP63_rc); m=5/6; ncol2=18; w=0; offset=3; strand=R; shift=10; score=0.414267; ----------gACATGTymcrA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 606.0 3126.0 0.0 2823.0 192.0 0.0 45.0 47.0 829.0 13.0 1961.0 3025.0 c 0 0 0 0 0 0 0 0 0 0 198.0 1.0 3532.0 8.0 1.0 0.0 48.0 2132.0 1656.0 2070.0 26.0 0.0 g 0 0 0 0 0 0 0 0 0 0 2099.0 202.0 0.0 617.0 0.0 2788.0 0.0 1.0 681.0 478.0 1025.0 85.0 t 0 0 0 0 0 0 0 0 0 0 701.0 49.0 0.0 75.0 2151.0 0.0 2192.0 993.0 112.0 649.0 97.0 14.0
MA0808.1_rc_shift9 (TEAD3_rc)				; positions_6nt_m5 versus MA0808.1_rc (TEAD3_rc); m=6/6; ncol2=8; w=0; offset=2; strand=R; shift=9; score=0.402734; ---------wGGAATGy----- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 13663.0 4.0 0.0 16878.0 21444.0 0.0 0.0 1109.0 0 0 0 0 0 c 0 0 0 0 0 0 0 0 0 8654.0 0.0 0.0 969.0 0.0 0.0 441.0 8913.0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 1039.0 21444.0 21444.0 23.0 0.0 0.0 18920.0 66.0 0 0 0 0 0 t 0 0 0 0 0 0 0 0 0 21444.0 0.0 0.0 4566.0 0.0 21444.0 2524.0 12530.0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_7nt_m3_shift6 (positions_7nt_m3)				; positions_7nt_m3; m=0 (reference); ncol1=16; shift=6; ncol=22; ------yyCAGACATGTCTGrr ; Alignment reference a 0 0 0 0 0 0 35 58 37 231 15 234 7 289 15 2 6 11 22 38 82 124 c 0 0 0 0 0 0 120 124 221 11 7 5 306 8 4 1 71 283 52 20 52 37 g 0 0 0 0 0 0 37 52 20 52 283 71 1 4 8 306 5 7 11 221 124 120 t 0 0 0 0 0 0 124 82 38 22 11 6 2 15 289 7 234 15 231 37 58 35
MA0106.3_shift0 (TP53)				; positions_7nt_m3 versus MA0106.3 (TP53); m=1/4; ncol2=18; w=-6; offset=-6; strand=D; shift=0; score=0.470483; rACATGyCcgGrCATGTy---- ; cor=; Ncor= a 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 3584.0 7104.0 0.0 12925.0 1825.0 327.0 879.0 1472.0 0 0 0 0 c 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 756.0 26.0 19350.0 250.0 118.0 33.0 3338.0 9183.0 0 0 0 0 g 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 17846.0 8821.0 4.0 157.0 89.0 20549.0 116.0 825.0 0 0 0 0 t 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0 1546.0 190.0 1.0 1155.0 17864.0 68.0 17859.0 9120.0 0 0 0 0
MA0861.2_shift11 (TP73)				; positions_7nt_m3 versus MA0861.2 (TP73); m=2/4; ncol2=16; w=0; offset=5; strand=D; shift=11; score=0.464714; -----------rCATGTcyrrA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 6206.0 0.0 8760.0 3837.0 8.0 130.0 1377.0 2166.0 3488.0 3988.0 9639.0 c 0 0 0 0 0 0 0 0 0 0 0 429.0 10829.0 124.0 293.0 28.0 2591.0 8161.0 2940.0 2418.0 441.0 145.0 g 0 0 0 0 0 0 0 0 0 0 0 3304.0 0.0 557.0 806.0 11787.0 91.0 783.0 2230.0 3558.0 7797.0 1414.0 t 0 0 0 0 0 0 0 0 0 0 0 208.0 0.0 198.0 11480.0 1.0 11892.0 2749.0 4242.0 2457.0 1002.0 442.0
MA0525.2_shift0 (TP63)				; positions_7nt_m3 versus MA0525.2 (TP63); m=3/4; ncol2=18; w=-6; offset=-6; strand=D; shift=0; score=0.419713; rACATGTygkrACATGTc---- ; cor=; Ncor= a 1586.0 2261.0 0.0 2246.0 692.0 0.0 14.0 97.0 649.0 112.0 993.0 2192.0 0.0 2151.0 75.0 0.0 49.0 701.0 0 0 0 0 c 26.0 1.0 2533.0 0.0 33.0 0.0 85.0 1025.0 478.0 681.0 1.0 0.0 2788.0 0.0 617.0 0.0 202.0 2099.0 0 0 0 0 g 997.0 185.0 0.0 76.0 0.0 4021.0 0.0 26.0 2070.0 1656.0 2132.0 48.0 0.0 1.0 8.0 3532.0 1.0 198.0 0 0 0 0 t 115.0 21.0 0.0 4.0 2353.0 0.0 3025.0 1961.0 13.0 829.0 47.0 45.0 0.0 192.0 2823.0 0.0 3126.0 606.0 0 0 0 0
MA2123.1_shift6 (Hand1)				; positions_7nt_m3 versus MA2123.1 (Hand1); m=4/4; ncol2=9; w=0; offset=0; strand=D; shift=6; score=0.401487; ------tCCAGACCt------- ; cor=; Ncor= a 0 0 0 0 0 0 177.0 84.0 8.0 1016.0 8.0 908.0 28.0 40.0 153.0 0 0 0 0 0 0 0 c 0 0 0 0 0 0 128.0 850.0 1036.0 16.0 24.0 33.0 955.0 962.0 235.0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 148.0 101.0 12.0 10.0 1016.0 104.0 46.0 46.0 61.0 0 0 0 0 0 0 0 t 0 0 0 0 0 0 609.0 27.0 6.0 20.0 14.0 17.0 33.0 14.0 613.0 0 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_7nt_m5_shift4 (positions_7nt_m5)				; positions_7nt_m5; m=0 (reference); ncol1=18; shift=4; ncol=22; ----gyctGGGCATGCCCagrc ; Alignment reference a 0 0 0 0 62 46 57 49 61 23 106 4 449 20 2 6 30 16 303 44 179 83 c 0 0 0 0 94 212 308 114 14 15 22 489 22 12 8 370 436 412 38 94 66 265 g 0 0 0 0 264 66 94 38 412 435 369 8 12 22 489 22 15 14 114 308 212 93 t 0 0 0 0 83 179 44 302 16 30 6 2 20 449 4 105 22 61 48 57 46 62
MA0106.3_shift9 (TP53)				; positions_7nt_m5 versus MA0106.3 (TP53); m=1/3; ncol2=18; w=0; offset=5; strand=D; shift=9; score=0.469214; ---------rACATGyCcgGrC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 3584.0 7104.0 0.0 c 0 0 0 0 0 0 0 0 0 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 756.0 26.0 19350.0 g 0 0 0 0 0 0 0 0 0 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 17846.0 8821.0 4.0 t 0 0 0 0 0 0 0 0 0 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0 1546.0 190.0 1.0
MA1979.2_rc_shift13 (ZNF416_rc)				; positions_7nt_m5 versus MA1979.2_rc (ZNF416_rc); m=2/3; ncol2=10; w=0; offset=9; strand=R; shift=13; score=0.409658; -------------tGCCCAGAt ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 0 66.0 18.0 3.0 3.0 2.0 336.0 3.0 254.0 46.0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 29.0 3.0 341.0 335.0 335.0 1.0 7.0 15.0 77.0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 38.0 320.0 1.0 5.0 7.0 6.0 334.0 28.0 25.0 t 0 0 0 0 0 0 0 0 0 0 0 0 0 212.0 4.0 0.0 2.0 1.0 2.0 1.0 48.0 197.0
MA0861.2_rc_shift0 (TP73_rc)				; positions_7nt_m5 versus MA0861.2_rc (TP73_rc); m=3/3; ncol2=16; w=-4; offset=-4; strand=R; shift=0; score=0.403014; rCrTGTyyrgACATGy------ ; cor=; Ncor= a 6995.0 39.0 8476.0 2302.0 0.0 442.0 1002.0 2457.0 4242.0 2749.0 11892.0 1.0 11480.0 198.0 0.0 208.0 0 0 0 0 0 0 c 181.0 13026.0 130.0 279.0 0.0 1414.0 7797.0 3558.0 2230.0 783.0 91.0 11787.0 806.0 557.0 0.0 3304.0 0 0 0 0 0 0 g 6944.0 170.0 5965.0 143.0 11703.0 145.0 441.0 2418.0 2940.0 8161.0 2591.0 28.0 293.0 124.0 10829.0 429.0 0 0 0 0 0 0 t 993.0 16.0 256.0 10125.0 0.0 9639.0 3988.0 3488.0 2166.0 1377.0 130.0 8.0 3837.0 8760.0 0.0 6206.0 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_7nt_m4_shift7 (positions_7nt_m4)				; positions_7nt_m4; m=0 (reference); ncol1=15; shift=7; ncol=22; -------cyrGGCATGTCTggr ; Alignment reference a 0 0 0 0 0 0 0 87 99 288 33 94 7 571 24 9 8 17 45 86 141 191 c 0 0 0 0 0 0 0 265 237 22 10 7 587 13 14 6 79 507 112 64 84 55 g 0 0 0 0 0 0 0 146 82 255 553 507 12 7 14 593 7 37 30 372 280 296 t 0 0 0 0 0 0 0 118 198 51 20 8 10 25 564 8 522 55 429 94 111 74
MA0861.2_shift11 (TP73)				; positions_7nt_m4 versus MA0861.2 (TP73); m=1/6; ncol2=16; w=0; offset=4; strand=D; shift=11; score=0.463236; -----------rCATGTcyrrA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 6206.0 0.0 8760.0 3837.0 8.0 130.0 1377.0 2166.0 3488.0 3988.0 9639.0 c 0 0 0 0 0 0 0 0 0 0 0 429.0 10829.0 124.0 293.0 28.0 2591.0 8161.0 2940.0 2418.0 441.0 145.0 g 0 0 0 0 0 0 0 0 0 0 0 3304.0 0.0 557.0 806.0 11787.0 91.0 783.0 2230.0 3558.0 7797.0 1414.0 t 0 0 0 0 0 0 0 0 0 0 0 208.0 0.0 198.0 11480.0 1.0 11892.0 2749.0 4242.0 2457.0 1002.0 442.0
MA0106.3_rc_shift0 (TP53_rc)				; positions_7nt_m4 versus MA0106.3_rc (TP53_rc); m=2/6; ncol2=18; w=-7; offset=-7; strand=R; shift=0; score=0.457527; rACATGyCcgGrCATGTy---- ; cor=; Ncor= a 9120.0 17859.0 68.0 17864.0 1155.0 1.0 190.0 1546.0 2118.0 3774.0 2642.0 7106.0 0.0 18893.0 739.0 837.0 735.0 2268.0 0 0 0 0 c 825.0 116.0 20549.0 89.0 157.0 4.0 8821.0 17846.0 9954.0 2151.0 417.0 109.0 20393.0 137.0 653.0 13.0 2433.0 6563.0 0 0 0 0 g 9183.0 3338.0 33.0 118.0 250.0 19350.0 26.0 756.0 1474.0 11875.0 17286.0 12014.0 2.0 374.0 204.0 19689.0 116.0 1037.0 0 0 0 0 t 1472.0 879.0 327.0 1825.0 12925.0 0.0 7104.0 3584.0 3851.0 1145.0 1228.0 244.0 8.0 1710.0 11931.0 45.0 10514.0 7544.0 0 0 0 0
MA0090.4_rc_shift8 (TEAD1_rc)				; positions_7nt_m4 versus MA0090.4_rc (TEAD1_rc); m=3/6; ncol2=9; w=0; offset=1; strand=R; shift=8; score=0.426799; --------CTGGAATGT----- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 7203.0 9428.0 1687.0 1332.0 63590.0 68517.0 700.0 1103.0 1941.0 0 0 0 0 0 c 0 0 0 0 0 0 0 0 47856.0 2051.0 374.0 765.0 1210.0 646.0 946.0 1923.0 9179.0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 6215.0 1729.0 67635.0 66953.0 622.0 700.0 646.0 61276.0 1248.0 0 0 0 0 0 t 0 0 0 0 0 0 0 0 9124.0 57190.0 702.0 1348.0 4976.0 535.0 68106.0 6096.0 58030.0 0 0 0 0 0
MA0739.2_rc_shift7 (Hic1_rc)				; positions_7nt_m4 versus MA0739.2_rc (Hic1_rc); m=4/6; ncol2=8; w=0; offset=0; strand=R; shift=7; score=0.409433; -------GtTGGCAy------- ; cor=; Ncor= a 0 0 0 0 0 0 0 1488.0 614.0 317.0 68.0 0.0 183.0 11007.0 666.0 0 0 0 0 0 0 0 c 0 0 0 0 0 0 0 1629.0 2267.0 3.0 31.0 121.0 11007.0 73.0 4670.0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 11007.0 1986.0 1999.0 11007.0 11007.0 588.0 422.0 719.0 0 0 0 0 0 0 0 t 0 0 0 0 0 0 0 1220.0 6140.0 9008.0 88.0 50.0 950.0 62.0 6337.0 0 0 0 0 0 0 0
MA0808.1_rc_shift9 (TEAD3_rc)				; positions_7nt_m4 versus MA0808.1_rc (TEAD3_rc); m=5/6; ncol2=8; w=0; offset=2; strand=R; shift=9; score=0.403587; ---------wGGAATGy----- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 13663.0 4.0 0.0 16878.0 21444.0 0.0 0.0 1109.0 0 0 0 0 0 c 0 0 0 0 0 0 0 0 0 8654.0 0.0 0.0 969.0 0.0 0.0 441.0 8913.0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 1039.0 21444.0 21444.0 23.0 0.0 0.0 18920.0 66.0 0 0 0 0 0 t 0 0 0 0 0 0 0 0 0 21444.0 0.0 0.0 4566.0 0.0 21444.0 2524.0 12530.0 0 0 0 0 0
MA1153.2_shift14 (Smad4)				; positions_7nt_m4 versus MA1153.2 (Smad4); m=6/6; ncol2=7; w=0; offset=7; strand=D; shift=14; score=0.403531; --------------yGTCTrG- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 0 0 88.0 0.0 0.0 0.0 0.0 596.0 0.0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 250.0 0.0 0.0 1000.0 0.0 0.0 0.0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 81.0 1000.0 0.0 0.0 0.0 404.0 1000.0 0 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0 581.0 0.0 1000.0 0.0 1000.0 0.0 0.0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv4_m5_shift7 (oligos_7nt_mkv4_m5)				; oligos_7nt_mkv4_m5; m=0 (reference); ncol1=12; shift=7; ncol=19; -------srGACwTGCCyr ; Alignment reference a 0 0 0 0 0 0 0 117 200 23 523 5 200 15 5 5 15 89 208 c 0 0 0 0 0 0 0 189 43 11 12 577 26 10 11 528 549 272 84 g 0 0 0 0 0 0 0 178 229 555 45 14 16 12 573 14 14 34 194 t 0 0 0 0 0 0 0 113 125 8 17 1 355 560 8 50 19 202 111
MA0738.2_shift12 (HIC2)				; oligos_7nt_mkv4_m5 versus MA0738.2 (HIC2); m=1/4; ncol2=6; w=0; offset=5; strand=D; shift=12; score=0.439613; ------------rTGCCM- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 2606.0 0.0 494.0 23.0 435.0 1466.0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 394.0 117.0 354.0 4891.0 4891.0 3425.0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 2285.0 0.0 4891.0 14.0 0.0 0.0 0 t 0 0 0 0 0 0 0 0 0 0 0 0 367.0 4891.0 151.0 0.0 59.0 0.0 0
MA0739.2_shift12 (Hic1)				; oligos_7nt_mkv4_m5 versus MA0739.2 (Hic1); m=2/4; ncol2=8; w=0; offset=5; strand=D; shift=12; score=0.438066; ------------rTGCCAa ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 6337.0 62.0 950.0 50.0 88.0 9008.0 6140.0 c 0 0 0 0 0 0 0 0 0 0 0 0 719.0 422.0 588.0 11007.0 11007.0 1999.0 1986.0 g 0 0 0 0 0 0 0 0 0 0 0 0 4670.0 73.0 11007.0 121.0 31.0 3.0 2267.0 t 0 0 0 0 0 0 0 0 0 0 0 0 666.0 11007.0 183.0 0.0 68.0 317.0 614.0
MA0106.3_shift9 (TP53)				; oligos_7nt_mkv4_m5 versus MA0106.3 (TP53); m=3/4; ncol2=18; w=0; offset=2; strand=D; shift=9; score=0.41856; ---------rACATGyCcg ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 7544.0 10514.0 45.0 11931.0 1710.0 8.0 244.0 1228.0 1145.0 3851.0 c 0 0 0 0 0 0 0 0 0 1037.0 116.0 19689.0 204.0 374.0 2.0 12014.0 17286.0 11875.0 1474.0 g 0 0 0 0 0 0 0 0 0 6563.0 2433.0 13.0 653.0 137.0 20393.0 109.0 417.0 2151.0 9954.0 t 0 0 0 0 0 0 0 0 0 2268.0 735.0 837.0 739.0 18893.0 0.0 7106.0 2642.0 3774.0 2118.0
MA0861.2_rc_shift0 (TP73_rc)				; oligos_7nt_mkv4_m5 versus MA0861.2_rc (TP73_rc); m=4/4; ncol2=16; w=-7; offset=-7; strand=R; shift=0; score=0.405925; rCrTGTyyrgACATGy--- ; cor=; Ncor= a 6995.0 39.0 8476.0 2302.0 0.0 442.0 1002.0 2457.0 4242.0 2749.0 11892.0 1.0 11480.0 198.0 0.0 208.0 0 0 0 c 181.0 13026.0 130.0 279.0 0.0 1414.0 7797.0 3558.0 2230.0 783.0 91.0 11787.0 806.0 557.0 0.0 3304.0 0 0 0 g 6944.0 170.0 5965.0 143.0 11703.0 145.0 441.0 2418.0 2940.0 8161.0 2591.0 28.0 293.0 124.0 10829.0 429.0 0 0 0 t 993.0 16.0 256.0 10125.0 0.0 9639.0 3988.0 3488.0 2166.0 1377.0 130.0 8.0 3837.0 8760.0 0.0 6206.0 0 0 0