One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/03/30/peak-motifs.2026-03-30.203809_2026-03-30.203809_WvTw0s/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/2026/03/30/peak-motifs.2026-03-30.203809_2026-03-30.203809_WvTw0s/results/discovered_vs_db/peak-motifs_motifs_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.tab

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m1_shift4 ; 20 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m1_shift4 (oligos_6nt_mkv3_m1)
; oligos_6nt_mkv3_m1; m=0 (reference); ncol1=11; shift=4; ncol=15; ----ccgCCTCCCmm ; Alignment reference a 0 0 0 0 62 100 37 6 5 11 12 8 4 131 107 c 0 0 0 0 190 142 66 402 397 7 386 380 375 117 133 g 0 0 0 0 76 90 261 2 8 32 11 15 21 83 101 t 0 0 0 0 89 85 53 7 7 367 8 14 17 86 76

MA1653.2_shift5 (ZNF148)
; oligos_6nt_mkv3_m1 versus MA1653.2 (ZNF148); m=1/19; ncol2=10; w=0; offset=1; strand=D; shift=5; score=0.736117; -----CCCCTCCCcc ; cor=; Ncor= a 0 0 0 0 0 82.0 132.0 136.0 89.0 133.0 66.0 352.0 442.0 846.0 841.0 c 0 0 0 0 0 10799.0 10396.0 10526.0 10833.0 14.0 10954.0 9922.0 9283.0 7239.0 7114.0 g 0 0 0 0 0 205.0 471.0 401.0 211.0 1012.0 112.0 460.0 392.0 1924.0 2064.0 t 0 0 0 0 0 113.0 200.0 136.0 66.0 10040.0 67.0 465.0 1082.0 1190.0 1180.0

MA1961.2_rc_shift4 (PATZ1_rc)
; oligos_6nt_mkv3_m1 versus MA1961.2_rc (PATZ1_rc); m=2/19; ncol2=11; w=0; offset=0; strand=R; shift=4; score=0.735699; ----sCCCCkCCCCs ; cor=; Ncor= a 0 0 0 0 34.0 1.0 1.0 1.0 1.0 155.0 1.0 1.0 1.0 24.0 44.0 c 0 0 0 0 523.0 944.0 964.0 957.0 997.0 1.0 997.0 997.0 727.0 680.0 543.0 g 0 0 0 0 392.0 1.0 34.0 41.0 1.0 489.0 1.0 1.0 78.0 228.0 288.0 t 0 0 0 0 51.0 54.0 1.0 1.0 1.0 355.0 1.0 1.0 195.0 68.0 125.0

MA1630.3_rc_shift5 (ZNF281_rc)
; oligos_6nt_mkv3_m1 versus MA1630.3_rc (ZNF281_rc); m=3/19; ncol2=10; w=0; offset=1; strand=R; shift=5; score=0.670487; -----CCCCTCCCCC ; cor=; Ncor= a 0 0 0 0 0 7.0 18.0 1.0 105.0 96.0 1.0 1.0 1.0 1.0 1.0 c 0 0 0 0 0 920.0 940.0 998.0 772.0 1.0 998.0 998.0 963.0 998.0 998.0 g 0 0 0 0 0 27.0 1.0 1.0 1.0 183.0 1.0 1.0 1.0 1.0 1.0 t 0 0 0 0 0 47.0 41.0 1.0 122.0 720.0 1.0 1.0 35.0 1.0 1.0

MA0599.1_shift4 (KLF5)
; oligos_6nt_mkv3_m1 versus MA0599.1 (KLF5); m=4/19; ncol2=10; w=0; offset=0; strand=D; shift=4; score=0.656939; ----gCCMCrCCCh- ; cor=; Ncor= a 0 0 0 0 1429.0 0.0 0.0 3477.0 0.0 5051.0 0.0 0.0 0.0 3915.0 0 c 0 0 0 0 2023.0 11900.0 12008.0 9569.0 13611.0 0.0 13611.0 13611.0 13135.0 5595.0 0 g 0 0 0 0 7572.0 0.0 0.0 0.0 0.0 5182.0 0.0 0.0 0.0 0.0 0 t 0 0 0 0 2587.0 1711.0 1603.0 565.0 0.0 3378.0 0.0 0.0 476.0 4101.0 0

MA1596.1_shift0 (ZNF460)
; oligos_6nt_mkv3_m1 versus MA1596.1 (ZNF460); m=5/19; ncol2=16; w=-4; offset=-4; strand=D; shift=0; score=0.632285; rCCTCmGCCTCCCrr ; cor=; Ncor= a 412.0 49.0 19.0 27.0 17.0 851.0 61.0 6.0 1.0 13.0 3.0 5.0 12.0 516.0 987.0 c 131.0 1264.0 1460.0 218.0 1519.0 495.0 23.0 1588.0 1596.0 12.0 1584.0 1583.0 1533.0 110.0 175.0 g 1023.0 185.0 67.0 83.0 47.0 181.0 1493.0 7.0 9.0 17.0 15.0 15.0 27.0 930.0 421.0 t 46.0 114.0 66.0 1284.0 29.0 85.0 35.0 11.0 6.0 1570.0 10.0 9.0 40.0 56.0 29.0

MA0685.2_rc_shift5 (SP4_rc)
; oligos_6nt_mkv3_m1 versus MA0685.2_rc (SP4_rc); m=6/19; ncol2=9; w=0; offset=1; strand=R; shift=5; score=0.619674; -----CyCCKCCCc- ; cor=; Ncor= a 0 0 0 0 0 0.686813 50.1374 77.6099 0.686813 0.686813 0.686813 0.686813 0.686813 195.742 0 c 0 0 0 0 0 997.94 660.027 921.016 997.94 0.686813 997.94 997.94 997.94 654.533 0 g 0 0 0 0 0 0.686813 0.686813 0.686813 0.686813 723.214 0.686813 0.686813 0.686813 0.686813 0 t 0 0 0 0 0 0.686813 289.148 0.686813 0.686813 275.412 0.686813 0.686813 0.686813 149.038 0

MA0079.5_rc_shift5 (SP1_rc)
; oligos_6nt_mkv3_m1 versus MA0079.5_rc (SP1_rc); m=7/19; ncol2=9; w=0; offset=1; strand=R; shift=5; score=0.611345; -----CyCCKCCCC- ; cor=; Ncor= a 0 0 0 0 0 1.05485 34.8101 1.05485 1.05485 1.05485 1.05485 1.05485 1.05485 47.4684 0 c 0 0 0 0 0 836.498 659.283 912.447 996.835 1.05485 996.835 996.835 996.835 950.422 0 g 0 0 0 0 0 1.05485 51.6878 85.443 1.05485 731.013 1.05485 1.05485 1.05485 1.05485 0 t 0 0 0 0 0 161.392 254.219 1.05485 1.05485 266.878 1.05485 1.05485 1.05485 1.05485 0

MA1522.2_shift5 (MAZ)
; oligos_6nt_mkv3_m1 versus MA1522.2 (MAZ); m=8/19; ncol2=8; w=0; offset=1; strand=D; shift=5; score=0.593646; -----CCCCTCCc-- ; cor=; Ncor= a 0 0 0 0 0 17.0 49.0 36.0 39.0 6.0 90.0 23.0 1109.0 0 0 c 0 0 0 0 0 14945.0 14630.0 14731.0 14676.0 0.0 14961.0 14944.0 9372.0 0 0 g 0 0 0 0 0 75.0 384.0 290.0 347.0 130.0 8.0 96.0 1768.0 0 0 t 0 0 0 0 0 26.0 0.0 6.0 1.0 14927.0 4.0 0.0 2814.0 0 0

MA2099.1_shift4 (ZNF770)
; oligos_6nt_mkv3_m1 versus MA2099.1 (ZNF770); m=9/19; ncol2=8; w=0; offset=0; strand=D; shift=4; score=0.591863; ----CrGCCTCm--- ; cor=; Ncor= a 0 0 0 0 292.0 3968.0 179.0 101.0 37.0 87.0 35.0 9257.0 0 0 0 c 0 0 0 0 12613.0 857.0 79.0 13393.0 14096.0 140.0 14154.0 3865.0 0 0 0 g 0 0 0 0 374.0 9119.0 13947.0 681.0 133.0 215.0 86.0 485.0 0 0 0 t 0 0 0 0 1052.0 387.0 126.0 156.0 65.0 13889.0 56.0 724.0 0 0 0

MA0516.3_rc_shift5 (SP2_rc)
; oligos_6nt_mkv3_m1 versus MA0516.3_rc (SP2_rc); m=10/19; ncol2=9; w=0; offset=1; strand=R; shift=5; score=0.57828; -----cCCCGCCCC- ; cor=; Ncor= a 0 0 0 0 0 18.3284 0.733138 24.1935 0.733138 0.733138 0.733138 0.733138 0.733138 79.912 0 c 0 0 0 0 0 610.704 877.566 974.34 997.801 0.733138 997.801 997.801 830.645 766.129 0 g 0 0 0 0 0 164.956 0.733138 0.733138 0.733138 886.364 0.733138 0.733138 0.733138 0.733138 0 t 0 0 0 0 0 206.012 120.968 0.733138 0.733138 112.17 0.733138 0.733138 167.889 153.226 0

MA1587.1_shift1 (ZNF135)
; oligos_6nt_mkv3_m1 versus MA1587.1 (ZNF135); m=11/19; ncol2=14; w=-3; offset=-3; strand=D; shift=1; score=0.563103; -cCTCGACCTCCyrr ; cor=; Ncor= a 0 49.0 16.0 4.0 7.0 60.0 886.0 17.0 1.0 1.0 3.0 36.0 55.0 303.0 449.0 c 0 595.0 858.0 37.0 772.0 25.0 3.0 896.0 939.0 6.0 936.0 800.0 399.0 66.0 35.0 g 0 122.0 22.0 15.0 10.0 862.0 52.0 26.0 2.0 2.0 6.0 7.0 48.0 523.0 421.0 t 0 182.0 52.0 892.0 159.0 1.0 7.0 9.0 6.0 939.0 3.0 105.0 446.0 56.0 43.0

MA0528.3_rc_shift6 (ZNF263_rc)
; oligos_6nt_mkv3_m1 versus MA0528.3_rc (ZNF263_rc); m=12/19; ncol2=7; w=0; offset=2; strand=R; shift=6; score=0.557658; ------TCCTCCC-- ; cor=; Ncor= a 0 0 0 0 0 0 638.0 717.0 1672.0 620.0 986.0 1192.0 1270.0 0 0 c 0 0 0 0 0 0 1448.0 52741.0 52875.0 163.0 53435.0 52818.0 51804.0 0 0 g 0 0 0 0 0 0 1758.0 2190.0 966.0 1660.0 972.0 1544.0 1659.0 0 0 t 0 0 0 0 0 0 52499.0 695.0 830.0 53900.0 950.0 789.0 1610.0 0 0

MA1965.2_shift7 (SP5)
; oligos_6nt_mkv3_m1 versus MA1965.2 (SP5); m=13/19; ncol2=6; w=0; offset=3; strand=D; shift=7; score=0.544746; -------CCTCCC-- ; cor=; Ncor= a 0 0 0 0 0 0 0 6.0 7.0 0.0 47.0 11.0 0.0 0 0 c 0 0 0 0 0 0 0 20683.0 20286.0 0.0 20649.0 20451.0 20604.0 0 0 g 0 0 0 0 0 0 0 3.0 403.0 231.0 0.0 234.0 92.0 0 0 t 0 0 0 0 0 0 0 4.0 0.0 20465.0 0.0 0.0 0.0 0 0

MA1627.2_shift7 (Wt1)
; oligos_6nt_mkv3_m1 versus MA1627.2 (Wt1); m=14/19; ncol2=10; w=0; offset=3; strand=D; shift=7; score=0.536609; -------cCTCCCCC ; cor=; Ncor= a 0 0 0 0 0 0 0 839.0 48.0 120.0 21.0 40.0 43.0 850.0 31.0 c 0 0 0 0 0 0 0 2948.0 4546.0 69.0 4602.0 4354.0 4252.0 3636.0 4573.0 g 0 0 0 0 0 0 0 404.0 58.0 319.0 42.0 75.0 120.0 101.0 46.0 t 0 0 0 0 0 0 0 500.0 39.0 4183.0 26.0 222.0 276.0 104.0 41.0

MA1959.2_rc_shift5 (KLF7_rc)
; oligos_6nt_mkv3_m1 versus MA1959.2_rc (KLF7_rc); m=15/19; ncol2=8; w=0; offset=1; strand=R; shift=5; score=0.513193; -----CcMCGCCC-- ; cor=; Ncor= a 0 0 0 0 0 1.0 167.0 254.0 1.0 167.0 1.0 1.0 1.0 0 0 c 0 0 0 0 0 997.0 642.0 720.0 997.0 1.0 997.0 997.0 997.0 0 0 g 0 0 0 0 0 1.0 42.0 25.0 1.0 788.0 1.0 1.0 1.0 0 0 t 0 0 0 0 0 1.0 150.0 1.0 1.0 45.0 1.0 1.0 1.0 0 0

MA0493.3_rc_shift5 (KLF1_rc)
; oligos_6nt_mkv3_m1 versus MA0493.3_rc (KLF1_rc); m=16/19; ncol2=8; w=0; offset=1; strand=R; shift=5; score=0.509338; -----CCmCrCCC-- ; cor=; Ncor= a 0 0 0 0 0 1.0 21.0 324.0 1.0 346.0 1.0 1.0 1.0 0 0 c 0 0 0 0 0 998.0 896.0 675.0 998.0 1.0 998.0 998.0 998.0 0 0 g 0 0 0 0 0 1.0 1.0 1.0 1.0 529.0 1.0 1.0 1.0 0 0 t 0 0 0 0 0 1.0 82.0 1.0 1.0 125.0 1.0 1.0 1.0 0 0

MA1723.2_rc_shift1 (PRDM9_rc)
; oligos_6nt_mkv3_m1 versus MA1723.2_rc (PRDM9_rc); m=17/19; ncol2=20; w=-3; offset=-3; strand=R; shift=1; score=0.45282; -yTkyykCCyCCcTk ; cor=; Ncor= a 0 29.0 46.0 204.0 186.0 151.0 151.0 2.0 2.0 116.0 37.0 11.0 107.0 11.0 107.0 c 0 572.0 169.0 107.0 441.0 274.0 204.0 976.0 993.0 344.0 932.0 853.0 529.0 204.0 213.0 g 0 81.0 2.0 423.0 2.0 178.0 292.0 2.0 2.0 90.0 2.0 11.0 204.0 11.0 379.0 t 0 318.0 783.0 265.0 371.0 397.0 353.0 20.0 2.0 450.0 29.0 125.0 160.0 774.0 300.0

MA1710.2_rc_shift1 (ZNF257_rc)
; oligos_6nt_mkv3_m1 versus MA1710.2_rc (ZNF257_rc); m=18/19; ncol2=10; w=-3; offset=-3; strand=R; shift=1; score=0.44487; -cyCTygCCTC---- ; cor=; Ncor= a 0 162.0 1.0 1.0 1.0 1.0 124.0 1.0 1.0 74.0 1.0 0 0 0 0 c 0 625.0 480.0 997.0 166.0 396.0 1.0 997.0 997.0 1.0 997.0 0 0 0 0 g 0 101.0 85.0 1.0 1.0 55.0 637.0 1.0 1.0 1.0 1.0 0 0 0 0 t 0 112.0 434.0 1.0 832.0 549.0 239.0 1.0 1.0 924.0 1.0 0 0 0 0

MA1578.2_shift7 (VEZF1)
; oligos_6nt_mkv3_m1 versus MA1578.2 (VEZF1); m=19/19; ncol2=6; w=0; offset=3; strand=D; shift=7; score=0.41731; -------CCCCCC-- ; cor=; Ncor= a 0 0 0 0 0 0 0 71.0 1.0 4.0 2.0 6.0 10.0 0 0 c 0 0 0 0 0 0 0 790.0 997.0 995.0 997.0 989.0 977.0 0 0 g 0 0 0 0 0 0 0 137.0 0.0 0.0 0.0 0.0 3.0 0 0 t 0 0 0 0 0 0 0 0.0 0.0 0.0 0.0 4.0 8.0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m2_shift6 ; 16 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m2_shift6 (oligos_6nt_mkv3_m2)
; oligos_6nt_mkv3_m2; m=0 (reference); ncol1=11; shift=6; ncol=17; ------amwCCCAGChm ; Alignment reference a 0 0 0 0 0 0 135 92 158 7 12 3 314 4 11 116 95 c 0 0 0 0 0 0 71 97 46 342 325 339 22 5 329 94 121 g 0 0 0 0 0 0 88 82 54 5 10 7 15 346 5 53 69 t 0 0 0 0 0 0 65 88 101 5 12 10 8 4 14 96 74

MA2125.1_shift7 (Zfp809)
; oligos_6nt_mkv3_m2 versus MA2125.1 (Zfp809); m=1/15; ncol2=9; w=0; offset=1; strand=D; shift=7; score=0.714751; -------wTCCCAGCc- ; cor=; Ncor= a 0 0 0 0 0 0 0 828.0 23.0 15.0 20.0 10.0 1529.0 32.0 287.0 217.0 0 c 0 0 0 0 0 0 0 66.0 41.0 1607.0 1610.0 1621.0 26.0 35.0 1218.0 1091.0 0 g 0 0 0 0 0 0 0 81.0 23.0 18.0 14.0 16.0 73.0 1572.0 99.0 115.0 0 t 0 0 0 0 0 0 0 690.0 1578.0 25.0 21.0 18.0 37.0 26.0 61.0 242.0 0

MA2341.1_shift9 (FEZF2)
; oligos_6nt_mkv3_m2 versus MA2341.1 (FEZF2); m=2/15; ncol2=8; w=0; offset=3; strand=D; shift=9; score=0.606541; ---------CCCAGCCT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 17.0 5.0 4.0 231.0 6.0 8.0 7.0 14.0 c 0 0 0 0 0 0 0 0 0 202.0 206.0 258.0 15.0 8.0 224.0 247.0 10.0 g 0 0 0 0 0 0 0 0 0 10.0 9.0 0.0 14.0 251.0 28.0 2.0 8.0 t 0 0 0 0 0 0 0 0 0 36.0 45.0 3.0 5.0 0.0 5.0 9.0 233.0

MA1629.2_shift9 (Zic2)
; oligos_6nt_mkv3_m2 versus MA1629.2 (Zic2); m=3/15; ncol2=9; w=0; offset=3; strand=D; shift=9; score=0.493329; ---------CaCAGCAG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1161.0 6888.0 135.0 11074.0 140.0 80.0 10625.0 192.0 c 0 0 0 0 0 0 0 0 0 9933.0 1765.0 11476.0 391.0 228.0 11272.0 118.0 133.0 g 0 0 0 0 0 0 0 0 0 585.0 829.0 188.0 186.0 11484.0 269.0 735.0 11184.0 t 0 0 0 0 0 0 0 0 0 240.0 2437.0 120.0 268.0 67.0 298.0 441.0 410.0

MA1116.2_rc_shift7 (RBPJ_rc)
; oligos_6nt_mkv3_m2 versus MA1116.2_rc (RBPJ_rc); m=4/15; ncol2=6; w=0; offset=1; strand=R; shift=7; score=0.440268; -------TTCCCA---- ; cor=; Ncor= a 0 0 0 0 0 0 0 4.0 29.0 78.0 60.0 1.0 2386.0 0 0 0 0 c 0 0 0 0 0 0 0 1.0 4.0 2309.0 2313.0 2341.0 2.0 0 0 0 0 g 0 0 0 0 0 0 0 15.0 0.0 8.0 20.0 25.0 12.0 0 0 0 0 t 0 0 0 0 0 0 0 2382.0 2369.0 7.0 9.0 35.0 2.0 0 0 0 0

MA1997.2_shift11 (Olig2)
; oligos_6nt_mkv3_m2 versus MA1997.2 (Olig2); m=5/15; ncol2=6; w=0; offset=5; strand=D; shift=11; score=0.436568; -----------CAGCTG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 10.0 59733.0 14.0 41.0 0.0 50.0 c 0 0 0 0 0 0 0 0 0 0 0 60968.0 668.0 18.0 61069.0 741.0 114.0 g 0 0 0 0 0 0 0 0 0 0 0 114.0 741.0 61069.0 18.0 668.0 60968.0 t 0 0 0 0 0 0 0 0 0 0 0 50.0 0.0 41.0 14.0 59733.0 10.0

MA0633.3_rc_shift11 (Twist2_rc)
; oligos_6nt_mkv3_m2 versus MA0633.3_rc (Twist2_rc); m=6/15; ncol2=6; w=0; offset=5; strand=R; shift=11; score=0.436209; -----------CAGCTG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 15.0 48918.0 9.0 21.0 0.0 60.0 c 0 0 0 0 0 0 0 0 0 0 0 49473.0 342.0 16.0 49583.0 369.0 81.0 g 0 0 0 0 0 0 0 0 0 0 0 81.0 369.0 49583.0 16.0 345.0 49473.0 t 0 0 0 0 0 0 0 0 0 0 0 60.0 0.0 21.0 9.0 48915.0 15.0

MA1993.2_shift11 (Neurod2)
; oligos_6nt_mkv3_m2 versus MA1993.2 (Neurod2); m=7/15; ncol2=6; w=0; offset=5; strand=D; shift=11; score=0.436145; -----------CAGCTG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 14.0 53280.0 8.0 17.0 0.0 39.0 c 0 0 0 0 0 0 0 0 0 0 0 53913.0 310.0 15.0 53984.0 434.0 58.0 g 0 0 0 0 0 0 0 0 0 0 0 58.0 434.0 53984.0 15.0 310.0 53913.0 t 0 0 0 0 0 0 0 0 0 0 0 39.0 0.0 17.0 8.0 53280.0 14.0

MA1635.2_shift11 (BHLHE22)
; oligos_6nt_mkv3_m2 versus MA1635.2 (BHLHE22); m=8/15; ncol2=6; w=0; offset=5; strand=D; shift=11; score=0.435372; -----------CAGCTG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0.0 18267.0 1.0 14.0 0.0 14.0 c 0 0 0 0 0 0 0 0 0 0 0 18331.0 37.0 53.0 18288.0 52.0 15.0 g 0 0 0 0 0 0 0 0 0 0 0 11.0 52.0 18288.0 53.0 37.0 18327.0 t 0 0 0 0 0 0 0 0 0 0 0 14.0 0.0 14.0 1.0 18267.0 0.0

MA2330.1_shift9 (ZBTB24)
; oligos_6nt_mkv3_m2 versus MA2330.1 (ZBTB24); m=9/15; ncol2=10; w=0; offset=3; strand=D; shift=9; score=0.431829; ---------cCCAGGAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 65.0 58.0 28.0 667.0 25.0 49.0 629.0 41.0 c 0 0 0 0 0 0 0 0 0 534.0 662.0 750.0 53.0 35.0 67.0 70.0 705.0 g 0 0 0 0 0 0 0 0 0 127.0 47.0 24.0 62.0 738.0 677.0 57.0 49.0 t 0 0 0 0 0 0 0 0 0 102.0 61.0 26.0 46.0 30.0 35.0 72.0 33.0

MA0521.3_shift11 (Tcf12)
; oligos_6nt_mkv3_m2 versus MA0521.3 (Tcf12); m=10/15; ncol2=6; w=0; offset=5; strand=D; shift=11; score=0.431104; -----------CAGCTG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 367.0 72283.0 836.0 1565.0 341.0 549.0 c 0 0 0 0 0 0 0 0 0 0 0 72674.0 739.0 1814.0 69780.0 632.0 402.0 g 0 0 0 0 0 0 0 0 0 0 0 404.0 632.0 69780.0 1814.0 738.0 72670.0 t 0 0 0 0 0 0 0 0 0 0 0 550.0 341.0 1565.0 836.0 72284.0 374.0

MA0056.3_shift5 (MZF1)
; oligos_6nt_mkv3_m2 versus MA0056.3 (MZF1); m=11/15; ncol2=8; w=-1; offset=-1; strand=D; shift=5; score=0.418211; -----AATCCCCA---- ; cor=; Ncor= a 0 0 0 0 0 5855.0 7149.0 106.0 100.0 135.0 111.0 117.0 6036.0 0 0 0 0 c 0 0 0 0 0 1016.0 426.0 56.0 7949.0 7939.0 7919.0 7673.0 611.0 0 0 0 0 g 0 0 0 0 0 999.0 385.0 98.0 100.0 54.0 58.0 83.0 484.0 0 0 0 0 t 0 0 0 0 0 372.0 282.0 7982.0 93.0 114.0 154.0 369.0 1111.0 0 0 0 0

MA0697.3_shift11 (Zic3)
; oligos_6nt_mkv3_m2 versus MA0697.3 (Zic3); m=12/15; ncol2=7; w=0; offset=5; strand=D; shift=11; score=0.412908; -----------CAGCAG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 345.0 23947.0 331.0 354.0 22980.0 393.0 c 0 0 0 0 0 0 0 0 0 0 0 25035.0 872.0 670.0 24272.0 568.0 500.0 g 0 0 0 0 0 0 0 0 0 0 0 460.0 759.0 24907.0 756.0 1768.0 24314.0 t 0 0 0 0 0 0 0 0 0 0 0 334.0 596.0 266.0 792.0 858.0 967.0

MA1628.2_shift11 (Zic1::Zic2)
; oligos_6nt_mkv3_m2 versus MA1628.2 (Zic1::Zic2); m=13/15; ncol2=7; w=0; offset=5; strand=D; shift=11; score=0.412843; -----------CAGCAG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 29.0 9238.0 96.0 75.0 8950.0 11.0 c 0 0 0 0 0 0 0 0 0 0 0 9594.0 384.0 195.0 9293.0 311.0 512.0 g 0 0 0 0 0 0 0 0 0 0 0 106.0 266.0 9527.0 96.0 627.0 9279.0 t 0 0 0 0 0 0 0 0 0 0 0 163.0 4.0 74.0 428.0 4.0 90.0

MA0734.4_shift4 (Gli2)
; oligos_6nt_mkv3_m2 versus MA0734.4 (Gli2); m=14/15; ncol2=9; w=-2; offset=-2; strand=D; shift=4; score=0.409914; ----GACCACCCA---- ; cor=; Ncor= a 0 0 0 0 60.0 1920.0 44.0 8.0 2216.0 9.0 313.0 59.0 2101.0 0 0 0 0 c 0 0 0 0 96.0 227.0 2404.0 2464.0 40.0 2451.0 2145.0 2288.0 85.0 0 0 0 0 g 0 0 0 0 2251.0 337.0 27.0 13.0 82.0 12.0 20.0 77.0 193.0 0 0 0 0 t 0 0 0 0 85.0 8.0 17.0 7.0 154.0 20.0 14.0 68.0 113.0 0 0 0 0

MA1573.2_shift0 (Thap11)
; oligos_6nt_mkv3_m2 versus MA1573.2 (Thap11); m=15/15; ncol2=14; w=-6; offset=-6; strand=D; shift=0; score=0.402665; ACTACAabTCCCAg--- ; cor=; Ncor= a 588.0 20.0 5.0 627.0 4.0 609.0 414.0 70.0 18.0 5.0 8.0 9.0 475.0 74.0 0 0 0 c 38.0 603.0 39.0 17.0 639.0 13.0 46.0 209.0 20.0 631.0 642.0 622.0 16.0 68.0 0 0 0 g 20.0 18.0 6.0 10.0 9.0 29.0 56.0 165.0 19.0 2.0 5.0 10.0 147.0 421.0 0 0 0 t 14.0 19.0 610.0 6.0 8.0 9.0 144.0 216.0 603.0 22.0 5.0 19.0 22.0 97.0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m5_shift2 ; 16 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m5_shift2 (oligos_7nt_mkv4_m5)
; oligos_7nt_mkv4_m5; m=0 (reference); ncol1=11; shift=2; ncol=13; --mwAAGTGCTrr ; Alignment reference a 0 0 60 81 182 186 8 6 10 13 14 61 62 c 0 0 56 36 6 8 4 4 3 191 2 28 37 g 0 0 44 27 6 6 197 1 187 2 2 79 62 t 0 0 52 68 18 12 3 201 12 6 194 44 51

MA0122.4_rc_shift2 (Nkx3-2_rc)
; oligos_7nt_mkv4_m5 versus MA0122.4_rc (Nkx3-2_rc); m=1/15; ncol2=10; w=0; offset=0; strand=R; shift=2; score=0.703344; --tTAAGTGktt- ; cor=; Ncor= a 0 0 2241.0 325.0 9919.0 10109.0 94.0 212.0 218.0 1033.0 2359.0 2088.0 0 c 0 0 1368.0 68.0 68.0 29.0 10.0 19.0 23.0 1504.0 1154.0 1466.0 0 g 0 0 991.0 147.0 138.0 32.0 9965.0 82.0 9900.0 5079.0 1109.0 952.0 0 t 0 0 5620.0 9680.0 95.0 50.0 151.0 9907.0 79.0 2604.0 5598.0 5714.0 0

MA0495.4_rc_shift3 (MAFF_rc)
; oligos_7nt_mkv4_m5 versus MA0495.4_rc (MAFF_rc); m=2/15; ncol2=11; w=0; offset=1; strand=R; shift=3; score=0.628007; ---aAAaTGCTGA ; cor=; Ncor= a 0 0 0 24063.0 28039.0 26745.0 21305.0 1690.0 694.0 2785.0 660.0 668.0 36393.0 c 0 0 0 2339.0 1498.0 1833.0 4442.0 1041.0 418.0 33923.0 444.0 330.0 409.0 g 0 0 0 4819.0 2423.0 2009.0 4360.0 559.0 36228.0 400.0 152.0 35020.0 369.0 t 0 0 0 6525.0 5786.0 7159.0 7639.0 34456.0 406.0 638.0 36490.0 1728.0 575.0

MA0672.2_rc_shift2 (NKX2-3_rc)
; oligos_7nt_mkv4_m5 versus MA0672.2_rc (NKX2-3_rc); m=3/15; ncol2=8; w=0; offset=0; strand=R; shift=2; score= 0.6116; --tyAAGTGs--- ; cor=; Ncor= a 0 0 2437.0 343.0 9278.0 9278.0 0.0 250.0 132.0 140.0 0 0 0 c 0 0 1831.0 5037.0 0.0 18.0 0.0 16.0 0.0 4499.0 0 0 0 g 0 0 917.0 1451.0 939.0 0.0 9278.0 98.0 9278.0 9278.0 0 0 0 t 0 0 9278.0 4241.0 0.0 0.0 8.0 9278.0 38.0 2025.0 0 0 0

MA2336.1_rc_shift5 (ZSCAN21_rc)
; oligos_7nt_mkv4_m5 versus MA2336.1_rc (ZSCAN21_rc); m=4/15; ncol2=7; w=0; offset=3; strand=R; shift=5; score=0.599243; -----AGTGCTT- ; cor=; Ncor= a 0 0 0 0 0 885.0 11.0 11.0 154.0 41.0 10.0 65.0 0 c 0 0 0 0 0 16.0 30.0 22.0 32.0 853.0 25.0 55.0 0 g 0 0 0 0 0 9.0 881.0 21.0 744.0 25.0 16.0 124.0 0 t 0 0 0 0 0 37.0 25.0 893.0 17.0 28.0 896.0 703.0 0

MA0117.3_shift3 (Mafb)
; oligos_7nt_mkv4_m5 versus MA0117.3 (Mafb); m=5/15; ncol2=11; w=0; offset=1; strand=D; shift=3; score=0.597188; ---awwwTGCTGA ; cor=; Ncor= a 0 0 0 1237.0 1263.0 1080.0 744.0 264.0 2.0 295.0 31.0 45.0 2182.0 c 0 0 0 174.0 121.0 216.0 398.0 618.0 14.0 2182.0 36.0 13.0 13.0 g 0 0 0 326.0 159.0 182.0 429.0 31.0 2182.0 5.0 2.0 2182.0 17.0 t 0 0 0 446.0 639.0 704.0 611.0 2182.0 5.0 7.0 2182.0 170.0 13.0

MA0673.2_rc_shift2 (NKX2-8_rc)
; oligos_7nt_mkv4_m5 versus MA0673.2_rc (NKX2-8_rc); m=6/15; ncol2=8; w=0; offset=0; strand=R; shift=2; score=0.595066; --TsRAGTGs--- ; cor=; Ncor= a 0 0 2158.0 271.0 8562.0 8562.0 110.0 516.0 2155.0 249.0 0 0 0 c 0 0 696.0 4286.0 0.0 0.0 0.0 0.0 0.0 2843.0 0 0 0 g 0 0 908.0 2267.0 3197.0 91.0 8562.0 595.0 8562.0 3529.0 0 0 0 t 0 0 8562.0 1738.0 23.0 0.0 14.0 8562.0 70.0 1942.0 0 0 0

MA0842.3_shift3 (NRL)
; oligos_7nt_mkv4_m5 versus MA0842.3 (NRL); m=7/15; ncol2=12; w=0; offset=1; strand=D; shift=3; score=0.573288; ---awwrTGCTGA ; cor=; Ncor= a 0 0 0 21189.0 17467.0 14033.0 6835.0 581.0 1.0 1008.0 0.0 73.0 27228.0 c 0 0 0 838.0 319.0 1314.0 5669.0 2768.0 0.0 27228.0 8.0 0.0 0.0 g 0 0 0 3685.0 635.0 822.0 7983.0 68.0 27228.0 22.0 0.0 27228.0 4.0 t 0 0 0 6039.0 9761.0 13194.0 6741.0 27228.0 0.0 14.0 27228.0 1036.0 0.0

MA2003.2_rc_shift2 (NKX2-4_rc)
; oligos_7nt_mkv4_m5 versus MA2003.2_rc (NKX2-4_rc); m=8/15; ncol2=8; w=0; offset=0; strand=R; shift=2; score=0.553145; --TsAAGTGg--- ; cor=; Ncor= a 0 0 153.0 58.0 1185.0 1185.0 0.0 207.0 129.0 61.0 0 0 0 c 0 0 57.0 640.0 13.0 1.0 0.0 17.0 7.0 485.0 0 0 0 g 0 0 56.0 545.0 409.0 25.0 1185.0 127.0 1185.0 1185.0 0 0 0 t 0 0 1185.0 243.0 52.0 0.0 0.0 1185.0 14.0 385.0 0 0 0

MA0124.3_rc_shift3 (Nkx3-1_rc)
; oligos_7nt_mkv4_m5 versus MA0124.3_rc (Nkx3-1_rc); m=9/15; ncol2=7; w=0; offset=1; strand=R; shift=3; score=0.528172; ---TAAGTGg--- ; cor=; Ncor= a 0 0 0 523.0 5335.0 5335.0 9.0 88.0 336.0 275.0 0 0 0 c 0 0 0 173.0 0.0 0.0 9.0 10.0 10.0 1776.0 0 0 0 g 0 0 0 273.0 254.0 1.0 5335.0 28.0 5335.0 5335.0 0 0 0 t 0 0 0 5335.0 0.0 0.0 59.0 5335.0 0.0 981.0 0 0 0

MA1994.2_rc_shift2 (Nkx2-1_rc)
; oligos_7nt_mkv4_m5 versus MA1994.2_rc (Nkx2-1_rc); m=10/15; ncol2=7; w=0; offset=0; strand=R; shift=2; score=0.52705; --TCAAGTG---- ; cor=; Ncor= a 0 0 541.0 518.0 15157.0 15106.0 316.0 343.0 886.0 0 0 0 0 c 0 0 213.0 14172.0 315.0 605.0 118.0 146.0 181.0 0 0 0 0 g 0 0 243.0 657.0 518.0 162.0 15640.0 275.0 14886.0 0 0 0 0 t 0 0 15245.0 895.0 252.0 369.0 168.0 15478.0 289.0 0 0 0 0

MA0914.2_rc_shift3 (ISL2_rc)
; oligos_7nt_mkv4_m5 versus MA0914.2_rc (ISL2_rc); m=11/15; ncol2=6; w=0; offset=1; strand=R; shift=3; score=0.494436; ---TAAkTG---- ; cor=; Ncor= a 0 0 0 1354.0 5631.0 5631.0 398.0 248.0 1019.0 0 0 0 0 c 0 0 0 59.0 13.0 169.0 171.0 134.0 126.0 0 0 0 0 g 0 0 0 206.0 718.0 130.0 5631.0 162.0 5631.0 0 0 0 0 t 0 0 0 5631.0 278.0 218.0 3161.0 5631.0 160.0 0 0 0 0

MA0063.3_rc_shift2 (NKX2-5_rc)
; oligos_7nt_mkv4_m5 versus MA0063.3_rc (NKX2-5_rc); m=12/15; ncol2=7; w=0; offset=0; strand=R; shift=2; score=0.44759; --TTGAGTG---- ; cor=; Ncor= a 0 0 250.0 288.0 841.0 5166.0 153.0 74.0 322.0 0 0 0 0 c 0 0 98.0 217.0 62.0 61.0 49.0 76.0 24.0 0 0 0 0 g 0 0 165.0 120.0 4319.0 82.0 5098.0 48.0 5002.0 0 0 0 0 t 0 0 4931.0 4819.0 222.0 135.0 144.0 5246.0 96.0 0 0 0 0

MA1106.2_shift4 (HIF1A)
; oligos_7nt_mkv4_m5 versus MA1106.2 (HIF1A); m=13/15; ncol2=6; w=0; offset=2; strand=D; shift=4; score=0.415926; ----ACGTGC--- ; cor=; Ncor= a 0 0 0 0 976.0 0.0 1.0 2.0 84.0 88.0 0 0 0 c 0 0 0 0 0.0 979.0 0.0 33.0 41.0 837.0 0 0 0 g 0 0 0 0 2.0 0.0 979.0 11.0 844.0 20.0 0 0 0 t 0 0 0 0 2.0 1.0 0.0 934.0 11.0 35.0 0 0 0

MA2329.1_rc_shift0 (ZBTB11_rc)
; oligos_7nt_mkv4_m5 versus MA2329.1_rc (ZBTB11_rc); m=14/15; ncol2=9; w=-2; offset=-2; strand=R; shift=0; score=0.402726; CCGGAAGTG---- ; cor=; Ncor= a 91.0 319.0 27.0 9.0 2293.0 2176.0 106.0 78.0 153.0 0 0 0 0 c 2030.0 1977.0 25.0 15.0 31.0 101.0 84.0 262.0 188.0 0 0 0 0 g 230.0 74.0 2328.0 2342.0 33.0 39.0 2192.0 120.0 1926.0 0 0 0 0 t 44.0 25.0 15.0 29.0 38.0 79.0 13.0 1935.0 128.0 0 0 0 0

MA0473.4_shift0 (ELF1)
; oligos_7nt_mkv4_m5 versus MA0473.4 (ELF1); m=15/15; ncol2=9; w=-2; offset=-2; strand=D; shift=0; score=0.401912; CAGGAAGTG---- ; cor=; Ncor= a 3094.0 42164.0 320.0 649.0 45930.0 45243.0 4063.0 3009.0 5688.0 0 0 0 0 c 37923.0 4038.0 421.0 505.0 796.0 705.0 1570.0 1993.0 4236.0 0 0 0 0 g 4819.0 932.0 46642.0 45970.0 676.0 779.0 41738.0 2007.0 34757.0 0 0 0 0 t 1934.0 636.0 387.0 646.0 368.0 1043.0 399.0 40761.0 3089.0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m3_shift0 ; 29 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m3_shift0 (oligos_6nt_mkv3_m3)
; oligos_6nt_mkv3_m3; m=0 (reference); ncol1=15; shift=0; ncol=15; ssCgCCCCGCCCsss ; Alignment reference a 33 30 17 22 8 15 11 8 12 7 13 13 23 35 33 c 124 125 206 45 229 211 218 231 35 242 235 233 84 124 112 g 87 96 46 197 37 47 49 36 228 33 34 30 151 90 96 t 47 40 22 27 17 18 13 16 16 9 9 15 33 42 50

MA1961.2_rc_shift3 (PATZ1_rc)
; oligos_6nt_mkv3_m3 versus MA1961.2_rc (PATZ1_rc); m=1/28; ncol2=11; w=0; offset=3; strand=R; shift=3; score=0.658772; ---sCCCCkCCCCs- ; cor=; Ncor= a 0 0 0 34.0 1.0 1.0 1.0 1.0 155.0 1.0 1.0 1.0 24.0 44.0 0 c 0 0 0 523.0 944.0 964.0 957.0 997.0 1.0 997.0 997.0 727.0 680.0 543.0 0 g 0 0 0 392.0 1.0 34.0 41.0 1.0 489.0 1.0 1.0 78.0 228.0 288.0 0 t 0 0 0 51.0 54.0 1.0 1.0 1.0 355.0 1.0 1.0 195.0 68.0 125.0 0

MA2328.1_shift0 (ZBED4)
; oligos_6nt_mkv3_m3 versus MA2328.1 (ZBED4); m=2/28; ncol2=10; w=0; offset=0; strand=D; shift=0; score=0.632655; CcCGCyCCGC----- ; cor=; Ncor= a 41.0 26.0 29.0 17.0 6.0 11.0 14.0 12.0 22.0 19.0 0 0 0 0 0 c 479.0 419.0 549.0 14.0 621.0 391.0 598.0 604.0 19.0 589.0 0 0 0 0 0 g 80.0 65.0 62.0 608.0 26.0 28.0 34.0 23.0 580.0 35.0 0 0 0 0 0 t 60.0 150.0 20.0 21.0 7.0 230.0 14.0 21.0 39.0 17.0 0 0 0 0 0

MA0746.3_shift3 (SP3)
; oligos_6nt_mkv3_m3 versus MA0746.3 (SP3); m=3/28; ncol2=11; w=0; offset=3; strand=D; shift=3; score=0.597554; ---rCCACGCCCmC- ; cor=; Ncor= a 0 0 0 2146.0 664.0 160.0 5253.0 6.0 465.0 0.0 0.0 2.0 3430.0 556.0 0 c 0 0 0 531.0 6591.0 6591.0 1338.0 6591.0 0.0 6591.0 6591.0 6591.0 3160.0 5116.0 0 g 0 0 0 4445.0 226.0 54.0 2.0 0.0 6591.0 0.0 0.0 2.0 39.0 297.0 0 t 0 0 0 421.0 345.0 202.0 11.0 12.0 504.0 0.0 9.0 718.0 552.0 1475.0 0

MA0599.1_shift3 (KLF5)
; oligos_6nt_mkv3_m3 versus MA0599.1 (KLF5); m=4/28; ncol2=10; w=0; offset=3; strand=D; shift=3; score=0.584472; ---gCCMCrCCCh-- ; cor=; Ncor= a 0 0 0 1429.0 0.0 0.0 3477.0 0.0 5051.0 0.0 0.0 0.0 3915.0 0 0 c 0 0 0 2023.0 11900.0 12008.0 9569.0 13611.0 0.0 13611.0 13611.0 13135.0 5595.0 0 0 g 0 0 0 7572.0 0.0 0.0 0.0 0.0 5182.0 0.0 0.0 0.0 0.0 0 0 t 0 0 0 2587.0 1711.0 1603.0 565.0 0.0 3378.0 0.0 0.0 476.0 4101.0 0 0

MA0741.1_shift3 (KLF16)
; oligos_6nt_mkv3_m3 versus MA0741.1 (KLF16); m=5/28; ncol2=11; w=0; offset=3; strand=D; shift=3; score=0.579178; ---gmCMCgCCCMC- ; cor=; Ncor= a 0 0 0 666.0 901.0 62.0 1150.0 66.0 497.0 8.0 2.0 16.0 437.0 32.0 0 c 0 0 0 535.0 1612.0 1612.0 461.0 1612.0 173.0 1612.0 1612.0 1612.0 1175.0 1612.0 0 g 0 0 0 1612.0 77.0 6.0 32.0 17.0 1612.0 0.0 8.0 3.0 19.0 23.0 0 t 0 0 0 240.0 116.0 45.0 0.0 19.0 403.0 0.0 0.0 97.0 40.0 370.0 0

MA0742.2_rc_shift4 (KLF12_rc)
; oligos_6nt_mkv3_m3 versus MA0742.2_rc (KLF12_rc); m=6/28; ncol2=9; w=0; offset=4; strand=R; shift=4; score=0.559934; ----CCCCGCCCC-- ; cor=; Ncor= a 0 0 0 0 29.2208 0.649351 190.26 0.649351 0.649351 0.649351 0.649351 0.649351 187.662 0 0 c 0 0 0 0 969.481 930.519 725.325 998.052 0.649351 998.052 998.052 912.338 709.74 0 0 g 0 0 0 0 0.649351 0.649351 78.5714 0.649351 951.299 0.649351 0.649351 0.649351 0.649351 0 0 t 0 0 0 0 0.649351 68.1818 5.84416 0.649351 47.4026 0.649351 0.649351 86.3636 101.948 0 0

MA1564.2_shift4 (SP9)
; oligos_6nt_mkv3_m3 versus MA1564.2 (SP9); m=7/28; ncol2=10; w=0; offset=4; strand=D; shift=4; score=0.552271; ----cCmCGCCCmc- ; cor=; Ncor= a 0 0 0 0 566.0 321.0 2451.0 2.0 211.0 22.0 0.0 39.0 1192.0 188.0 0 c 0 0 0 0 2451.0 2451.0 1127.0 2451.0 200.0 2451.0 2451.0 2451.0 1259.0 1863.0 0 g 0 0 0 0 309.0 113.0 56.0 17.0 2451.0 0.0 0.0 24.0 38.0 191.0 0 t 0 0 0 0 518.0 284.0 96.0 9.0 173.0 14.0 30.0 412.0 353.0 588.0 0

MA0685.2_rc_shift4 (SP4_rc)
; oligos_6nt_mkv3_m3 versus MA0685.2_rc (SP4_rc); m=8/28; ncol2=9; w=0; offset=4; strand=R; shift=4; score=0.550988; ----CyCCKCCCc-- ; cor=; Ncor= a 0 0 0 0 0.686813 50.1374 77.6099 0.686813 0.686813 0.686813 0.686813 0.686813 195.742 0 0 c 0 0 0 0 997.94 660.027 921.016 997.94 0.686813 997.94 997.94 997.94 654.533 0 0 g 0 0 0 0 0.686813 0.686813 0.686813 0.686813 723.214 0.686813 0.686813 0.686813 0.686813 0 0 t 0 0 0 0 0.686813 289.148 0.686813 0.686813 275.412 0.686813 0.686813 0.686813 149.038 0 0

MA0747.2_shift4 (SP8)
; oligos_6nt_mkv3_m3 versus MA0747.2 (SP8); m=9/28; ncol2=11; w=0; offset=4; strand=D; shift=4; score=0.549572; ----mCACgCCCmCy ; cor=; Ncor= a 0 0 0 0 54.0 25.0 133.0 7.0 25.0 5.0 2.0 0.0 90.0 13.0 31.0 c 0 0 0 0 113.0 167.0 33.0 167.0 37.0 167.0 167.0 167.0 77.0 167.0 52.0 g 0 0 0 0 0.0 0.0 1.0 1.0 167.0 6.0 3.0 4.0 6.0 21.0 1.0 t 0 0 0 0 4.0 13.0 2.0 5.0 39.0 2.0 0.0 15.0 3.0 39.0 82.0

MA1511.2_rc_shift4 (KLF10_rc)
; oligos_6nt_mkv3_m3 versus MA1511.2_rc (KLF10_rc); m=10/28; ncol2=9; w=0; offset=4; strand=R; shift=4; score=0.549562; ----CCMCGCCCC-- ; cor=; Ncor= a 0 0 0 0 49.3528 26.699 253.236 0.809061 152.913 0.809061 0.809061 0.809061 104.369 0 0 c 0 0 0 0 884.304 906.958 693.366 997.573 0.809061 997.573 997.573 997.573 819.579 0 0 g 0 0 0 0 0.809061 0.809061 52.589 0.809061 803.398 0.809061 0.809061 0.809061 0.809061 0 0 t 0 0 0 0 65.534 65.534 0.809061 0.809061 42.8803 0.809061 0.809061 0.809061 75.2427 0 0

MA0740.2_rc_shift4 (KLF14_rc)
; oligos_6nt_mkv3_m3 versus MA0740.2_rc (KLF14_rc); m=11/28; ncol2=9; w=0; offset=4; strand=R; shift=4; score=0.548378; ----CCMCGCCCm-- ; cor=; Ncor= a 0 0 0 0 0.635877 0.635877 280.83 0.635877 90.067 0.635877 0.635877 0.635877 348.681 0 0 c 0 0 0 0 738.662 891.023 717.898 998.092 0.635877 998.092 998.092 998.092 619.525 0 0 g 0 0 0 0 62.0884 0.635877 0.635877 0.635877 814.392 0.635877 0.635877 0.635877 0.635877 0 0 t 0 0 0 0 198.614 107.705 0.635877 0.635877 94.9046 0.635877 0.635877 0.635877 31.158 0 0

MA0516.3_rc_shift4 (SP2_rc)
; oligos_6nt_mkv3_m3 versus MA0516.3_rc (SP2_rc); m=12/28; ncol2=9; w=0; offset=4; strand=R; shift=4; score=0.548197; ----cCCCGCCCC-- ; cor=; Ncor= a 0 0 0 0 18.3284 0.733138 24.1935 0.733138 0.733138 0.733138 0.733138 0.733138 79.912 0 0 c 0 0 0 0 610.704 877.566 974.34 997.801 0.733138 997.801 997.801 830.645 766.129 0 0 g 0 0 0 0 164.956 0.733138 0.733138 0.733138 886.364 0.733138 0.733138 0.733138 0.733138 0 0 t 0 0 0 0 206.012 120.968 0.733138 0.733138 112.17 0.733138 0.733138 167.889 153.226 0 0

MA1653.2_shift4 (ZNF148)
; oligos_6nt_mkv3_m3 versus MA1653.2 (ZNF148); m=13/28; ncol2=10; w=0; offset=4; strand=D; shift=4; score=0.543971; ----CCCCTCCCcc- ; cor=; Ncor= a 0 0 0 0 82.0 132.0 136.0 89.0 133.0 66.0 352.0 442.0 846.0 841.0 0 c 0 0 0 0 10799.0 10396.0 10526.0 10833.0 14.0 10954.0 9922.0 9283.0 7239.0 7114.0 0 g 0 0 0 0 205.0 471.0 401.0 211.0 1012.0 112.0 460.0 392.0 1924.0 2064.0 0 t 0 0 0 0 113.0 200.0 136.0 66.0 10040.0 67.0 465.0 1082.0 1190.0 1180.0 0

MA0079.5_rc_shift4 (SP1_rc)
; oligos_6nt_mkv3_m3 versus MA0079.5_rc (SP1_rc); m=14/28; ncol2=9; w=0; offset=4; strand=R; shift=4; score=0.538157; ----CyCCKCCCC-- ; cor=; Ncor= a 0 0 0 0 1.05485 34.8101 1.05485 1.05485 1.05485 1.05485 1.05485 1.05485 47.4684 0 0 c 0 0 0 0 836.498 659.283 912.447 996.835 1.05485 996.835 996.835 996.835 950.422 0 0 g 0 0 0 0 1.05485 51.6878 85.443 1.05485 731.013 1.05485 1.05485 1.05485 1.05485 0 0 t 0 0 0 0 161.392 254.219 1.05485 1.05485 266.878 1.05485 1.05485 1.05485 1.05485 0 0

MA1630.3_rc_shift4 (ZNF281_rc)
; oligos_6nt_mkv3_m3 versus MA1630.3_rc (ZNF281_rc); m=15/28; ncol2=10; w=0; offset=4; strand=R; shift=4; score=0.525646; ----CCCCTCCCCC- ; cor=; Ncor= a 0 0 0 0 7.0 18.0 1.0 105.0 96.0 1.0 1.0 1.0 1.0 1.0 0 c 0 0 0 0 920.0 940.0 998.0 772.0 1.0 998.0 998.0 963.0 998.0 998.0 0 g 0 0 0 0 27.0 1.0 1.0 1.0 183.0 1.0 1.0 1.0 1.0 1.0 0 t 0 0 0 0 47.0 41.0 1.0 122.0 720.0 1.0 1.0 35.0 1.0 1.0 0

MA1513.2_shift4 (KLF15)
; oligos_6nt_mkv3_m3 versus MA1513.2 (KLF15); m=16/28; ncol2=8; w=0; offset=4; strand=D; shift=4; score=0.519215; ----cCCCGCCC--- ; cor=; Ncor= a 0 0 0 0 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 0 0 0 c 0 0 0 0 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 0 0 0 g 0 0 0 0 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 0 0 0 t 0 0 0 0 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0 0 0 0

MA1959.2_rc_shift4 (KLF7_rc)
; oligos_6nt_mkv3_m3 versus MA1959.2_rc (KLF7_rc); m=17/28; ncol2=8; w=0; offset=4; strand=R; shift=4; score=0.515481; ----CcMCGCCC--- ; cor=; Ncor= a 0 0 0 0 1.0 167.0 254.0 1.0 167.0 1.0 1.0 1.0 0 0 0 c 0 0 0 0 997.0 642.0 720.0 997.0 1.0 997.0 997.0 997.0 0 0 0 g 0 0 0 0 1.0 42.0 25.0 1.0 788.0 1.0 1.0 1.0 0 0 0 t 0 0 0 0 1.0 150.0 1.0 1.0 45.0 1.0 1.0 1.0 0 0 0

MA1516.2_shift2 (KLF3)
; oligos_6nt_mkv3_m3 versus MA1516.2 (KLF3); m=18/28; ncol2=10; w=0; offset=2; strand=D; shift=2; score=0.512163; --grCCrCGCCC--- ; cor=; Ncor= a 0 0 7717.0 24771.0 1442.0 298.0 26757.0 2261.0 4245.0 202.0 83.0 77.0 0 0 0 c 0 0 2655.0 615.0 43259.0 43259.0 707.0 43259.0 334.0 43259.0 43259.0 43259.0 0 0 0 g 0 0 26568.0 18489.0 1954.0 248.0 16503.0 21.0 43259.0 31.0 29.0 48.0 0 0 0 t 0 0 6319.0 207.0 705.0 335.0 419.0 1409.0 1212.0 0.0 0.0 1218.0 0 0 0

MA1512.2_shift4 (KLF11)
; oligos_6nt_mkv3_m3 versus MA1512.2 (KLF11); m=19/28; ncol2=10; w=0; offset=4; strand=D; shift=4; score=0.507124; ----cCACGCCCmC- ; cor=; Ncor= a 0 0 0 0 2022.0 650.0 8655.0 0.0 2426.0 11.0 1.0 0.0 4689.0 581.0 0 c 0 0 0 0 5549.0 8662.0 1289.0 9142.0 52.0 9161.0 9166.0 8941.0 4226.0 8403.0 0 g 0 0 0 0 401.0 156.0 115.0 0.0 8291.0 18.0 20.0 4.0 69.0 358.0 0 t 0 0 0 0 1192.0 506.0 27.0 38.0 349.0 23.0 7.0 885.0 761.0 1281.0 0

MA0753.3_shift4 (ZNF740)
; oligos_6nt_mkv3_m3 versus MA0753.3 (ZNF740); m=20/28; ncol2=10; w=0; offset=4; strand=D; shift=4; score=0.505947; ----CCCCCCCCAc- ; cor=; Ncor= a 0 0 0 0 60.0 110.0 18.0 22.0 23.0 10.0 2.0 115.0 1055.0 207.0 0 c 0 0 0 0 1055.0 1055.0 1055.0 1055.0 1055.0 1055.0 1055.0 1055.0 239.0 1055.0 0 g 0 0 0 0 37.0 14.0 4.0 7.0 3.0 7.0 3.0 6.0 68.0 54.0 0 t 0 0 0 0 49.0 1.0 16.0 15.0 11.0 6.0 3.0 4.0 134.0 246.0 0

MA0493.3_rc_shift4 (KLF1_rc)
; oligos_6nt_mkv3_m3 versus MA0493.3_rc (KLF1_rc); m=21/28; ncol2=8; w=0; offset=4; strand=R; shift=4; score=0.502357; ----CCmCrCCC--- ; cor=; Ncor= a 0 0 0 0 1.0 21.0 324.0 1.0 346.0 1.0 1.0 1.0 0 0 0 c 0 0 0 0 998.0 896.0 675.0 998.0 1.0 998.0 998.0 998.0 0 0 0 g 0 0 0 0 1.0 1.0 1.0 1.0 529.0 1.0 1.0 1.0 0 0 0 t 0 0 0 0 1.0 82.0 1.0 1.0 125.0 1.0 1.0 1.0 0 0 0

MA1515.2_shift4 (KLF2)
; oligos_6nt_mkv3_m3 versus MA1515.2 (KLF2); m=22/28; ncol2=8; w=0; offset=4; strand=D; shift=4; score=0.47261; ----CCmCrCCC--- ; cor=; Ncor= a 0 0 0 0 741.0 403.0 4622.0 0.0 1702.0 0.0 128.0 68.0 0 0 0 c 0 0 0 0 4622.0 4622.0 2265.0 4622.0 274.0 4622.0 4622.0 4622.0 0 0 0 g 0 0 0 0 495.0 186.0 1060.0 0.0 2920.0 49.0 195.0 105.0 0 0 0 t 0 0 0 0 346.0 312.0 214.0 78.0 167.0 22.0 9.0 444.0 0 0 0

MA1517.2_shift4 (KLF6)
; oligos_6nt_mkv3_m3 versus MA1517.2 (KLF6); m=23/28; ncol2=9; w=0; offset=4; strand=D; shift=4; score=0.459465; ----cCACRCCCm-- ; cor=; Ncor= a 0 0 0 0 569.0 432.0 2192.0 0.0 1024.0 0.0 25.0 71.0 955.0 0 0 c 0 0 0 0 2192.0 2192.0 284.0 2192.0 0.0 2192.0 2192.0 2192.0 665.0 0 0 g 0 0 0 0 332.0 298.0 60.0 0.0 2192.0 0.0 60.0 12.0 52.0 0 0 t 0 0 0 0 219.0 140.0 60.0 24.0 0.0 0.0 0.0 64.0 520.0 0 0

MA0039.5_shift4 (KLF4)
; oligos_6nt_mkv3_m3 versus MA0039.5 (KLF4); m=24/28; ncol2=8; w=0; offset=4; strand=D; shift=4; score=0.450733; ----CCCCACCC--- ; cor=; Ncor= a 0 0 0 0 2465.0 2105.0 7021.0 1173.0 45602.0 852.0 1617.0 1202.0 0 0 0 c 0 0 0 0 49209.0 47865.0 45405.0 52875.0 161.0 52366.0 51112.0 51045.0 0 0 0 g 0 0 0 0 1583.0 1214.0 1422.0 793.0 6598.0 1470.0 1870.0 1005.0 0 0 0 t 0 0 0 0 2560.0 4633.0 1969.0 976.0 3456.0 1129.0 1218.0 2565.0 0 0 0

MA0162.5_shift6 (EGR1)
; oligos_6nt_mkv3_m3 versus MA0162.5 (EGR1); m=25/28; ncol2=10; w=0; offset=6; strand=D; shift=6; score=0.428341; ------mCGCCCACg ; cor=; Ncor= a 0 0 0 0 0 0 14508.0 642.0 5110.0 227.0 1440.0 314.0 22297.0 153.0 4696.0 c 0 0 0 0 0 0 10303.0 28403.0 1131.0 29338.0 27321.0 28958.0 5420.0 29507.0 2806.0 g 0 0 0 0 0 0 3854.0 756.0 22237.0 665.0 1455.0 698.0 2122.0 699.0 20544.0 t 0 0 0 0 0 0 1933.0 797.0 2120.0 368.0 382.0 628.0 759.0 239.0 2552.0

MA1522.2_shift4 (MAZ)
; oligos_6nt_mkv3_m3 versus MA1522.2 (MAZ); m=26/28; ncol2=8; w=0; offset=4; strand=D; shift=4; score=0.425584; ----CCCCTCCc--- ; cor=; Ncor= a 0 0 0 0 17.0 49.0 36.0 39.0 6.0 90.0 23.0 1109.0 0 0 0 c 0 0 0 0 14945.0 14630.0 14731.0 14676.0 0.0 14961.0 14944.0 9372.0 0 0 0 g 0 0 0 0 75.0 384.0 290.0 347.0 130.0 8.0 96.0 1768.0 0 0 0 t 0 0 0 0 26.0 0.0 6.0 1.0 14927.0 4.0 0.0 2814.0 0 0 0

MA0733.2_shift6 (EGR4)
; oligos_6nt_mkv3_m3 versus MA0733.2 (EGR4); m=27/28; ncol2=11; w=0; offset=6; strand=D; shift=6; score=0.409817; ------mCGCCCACG ; cor=; Ncor= a 0 0 0 0 0 0 2745.0 101.0 556.0 11.0 120.0 0.0 4500.0 44.0 233.0 c 0 0 0 0 0 0 1924.0 4466.0 475.0 4447.0 4448.0 4403.0 1055.0 4402.0 1793.0 g 0 0 0 0 0 0 151.0 150.0 7053.0 63.0 107.0 110.0 348.0 114.0 6862.0 t 0 0 0 0 0 0 158.0 319.0 707.0 88.0 76.0 131.0 363.0 245.0 253.0

MA0732.2_shift6 (EGR3)
; oligos_6nt_mkv3_m3 versus MA0732.2 (EGR3); m=28/28; ncol2=11; w=0; offset=6; strand=D; shift=6; score=0.401317; ------mCGCCCMCG ; cor=; Ncor= a 0 0 0 0 0 0 1031.0 2.0 66.0 0.0 0.0 0.0 1159.0 0.0 39.0 c 0 0 0 0 0 0 701.0 1855.0 32.0 1856.0 1858.0 1823.0 455.0 1875.0 28.0 g 0 0 0 0 0 0 10.0 0.0 2158.0 2.0 0.0 7.0 11.0 7.0 2152.0 t 0 0 0 0 0 0 20.0 13.0 36.0 0.0 10.0 80.0 4.0 2.0 26.0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m4_shift1 ; 11 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m4_shift1 (oligos_6nt_mkv3_m4)
; oligos_6nt_mkv3_m4; m=0 (reference); ncol1=11; shift=1; ncol=12; -ssGCGCCGCss ; Alignment reference a 0 41 47 7 8 8 8 9 13 13 35 35 c 0 132 113 34 279 46 250 253 21 255 141 114 g 0 93 100 254 18 243 42 39 261 31 102 109 t 0 42 48 13 3 11 8 7 13 9 30 50

MA2328.1_shift0 (ZBED4)
; oligos_6nt_mkv3_m4 versus MA2328.1 (ZBED4); m=1/10; ncol2=10; w=-1; offset=-1; strand=D; shift=0; score=0.628028; CcCGCyCCGC-- ; cor=; Ncor= a 41.0 26.0 29.0 17.0 6.0 11.0 14.0 12.0 22.0 19.0 0 0 c 479.0 419.0 549.0 14.0 621.0 391.0 598.0 604.0 19.0 589.0 0 0 g 80.0 65.0 62.0 608.0 26.0 28.0 34.0 23.0 580.0 35.0 0 0 t 60.0 150.0 20.0 21.0 7.0 230.0 14.0 21.0 39.0 17.0 0 0

MA1713.2_shift3 (ZNF610)
; oligos_6nt_mkv3_m4 versus MA1713.2 (ZNF610); m=2/10; ncol2=10; w=0; offset=2; strand=D; shift=3; score=0.552671; ---scGCCGCTC ; cor=; Ncor= a 0 0 0 176.0 354.0 68.0 37.0 18.0 18.0 4.0 18.0 6.0 c 0 0 0 1222.0 1347.0 121.0 2245.0 2312.0 45.0 2357.0 34.0 2315.0 g 0 0 0 738.0 392.0 2118.0 84.0 41.0 2312.0 21.0 45.0 62.0 t 0 0 0 250.0 293.0 79.0 20.0 15.0 11.0 4.0 2289.0 3.0

MA1959.2_rc_shift4 (KLF7_rc)
; oligos_6nt_mkv3_m4 versus MA1959.2_rc (KLF7_rc); m=3/10; ncol2=8; w=0; offset=3; strand=R; shift=4; score=0.549378; ----CcMCGCCC ; cor=; Ncor= a 0 0 0 0 1.0 167.0 254.0 1.0 167.0 1.0 1.0 1.0 c 0 0 0 0 997.0 642.0 720.0 997.0 1.0 997.0 997.0 997.0 g 0 0 0 0 1.0 42.0 25.0 1.0 788.0 1.0 1.0 1.0 t 0 0 0 0 1.0 150.0 1.0 1.0 45.0 1.0 1.0 1.0

MA1513.2_shift4 (KLF15)
; oligos_6nt_mkv3_m4 versus MA1513.2 (KLF15); m=4/10; ncol2=8; w=0; offset=3; strand=D; shift=4; score=0.52124; ----cCCCGCCC ; cor=; Ncor= a 0 0 0 0 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 c 0 0 0 0 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 g 0 0 0 0 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 t 0 0 0 0 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0

MA1727.2_rc_shift1 (ZNF417_rc)
; oligos_6nt_mkv3_m4 versus MA1727.2_rc (ZNF417_rc); m=5/10; ncol2=7; w=0; offset=0; strand=R; shift=1; score=0.51636; -TGGCGCC---- ; cor=; Ncor= a 0 1.0 13.0 7.0 1.0 55.0 1.0 1.0 0 0 0 0 c 0 1.0 1.0 1.0 996.0 1.0 996.0 996.0 0 0 0 0 g 0 13.0 954.0 990.0 1.0 936.0 1.0 1.0 0 0 0 0 t 0 984.0 31.0 1.0 1.0 7.0 1.0 1.0 0 0 0 0

MA0685.2_rc_shift4 (SP4_rc)
; oligos_6nt_mkv3_m4 versus MA0685.2_rc (SP4_rc); m=6/10; ncol2=9; w=0; offset=3; strand=R; shift=4; score=0.502543; ----CyCCKCCC ; cor=; Ncor= a 0 0 0 0 0.686813 50.1374 77.6099 0.686813 0.686813 0.686813 0.686813 0.686813 c 0 0 0 0 997.94 660.027 921.016 997.94 0.686813 997.94 997.94 997.94 g 0 0 0 0 0.686813 0.686813 0.686813 0.686813 723.214 0.686813 0.686813 0.686813 t 0 0 0 0 0.686813 289.148 0.686813 0.686813 275.412 0.686813 0.686813 0.686813

MA0079.5_rc_shift4 (SP1_rc)
; oligos_6nt_mkv3_m4 versus MA0079.5_rc (SP1_rc); m=7/10; ncol2=9; w=0; offset=3; strand=R; shift=4; score=0.500756; ----CyCCKCCC ; cor=; Ncor= a 0 0 0 0 1.05485 34.8101 1.05485 1.05485 1.05485 1.05485 1.05485 1.05485 c 0 0 0 0 836.498 659.283 912.447 996.835 1.05485 996.835 996.835 996.835 g 0 0 0 0 1.05485 51.6878 85.443 1.05485 731.013 1.05485 1.05485 1.05485 t 0 0 0 0 161.392 254.219 1.05485 1.05485 266.878 1.05485 1.05485 1.05485

MA0742.2_rc_shift4 (KLF12_rc)
; oligos_6nt_mkv3_m4 versus MA0742.2_rc (KLF12_rc); m=8/10; ncol2=9; w=0; offset=3; strand=R; shift=4; score=0.499257; ----CCCCGCCC ; cor=; Ncor= a 0 0 0 0 29.2208 0.649351 190.26 0.649351 0.649351 0.649351 0.649351 0.649351 c 0 0 0 0 969.481 930.519 725.325 998.052 0.649351 998.052 998.052 912.338 g 0 0 0 0 0.649351 0.649351 78.5714 0.649351 951.299 0.649351 0.649351 0.649351 t 0 0 0 0 0.649351 68.1818 5.84416 0.649351 47.4026 0.649351 0.649351 86.3636

MA0516.3_rc_shift4 (SP2_rc)
; oligos_6nt_mkv3_m4 versus MA0516.3_rc (SP2_rc); m=9/10; ncol2=9; w=0; offset=3; strand=R; shift=4; score=0.485368; ----cCCCGCCC ; cor=; Ncor= a 0 0 0 0 18.3284 0.733138 24.1935 0.733138 0.733138 0.733138 0.733138 0.733138 c 0 0 0 0 610.704 877.566 974.34 997.801 0.733138 997.801 997.801 830.645 g 0 0 0 0 164.956 0.733138 0.733138 0.733138 886.364 0.733138 0.733138 0.733138 t 0 0 0 0 206.012 120.968 0.733138 0.733138 112.17 0.733138 0.733138 167.889

MA1511.2_rc_shift4 (KLF10_rc)
; oligos_6nt_mkv3_m4 versus MA1511.2_rc (KLF10_rc); m=10/10; ncol2=9; w=0; offset=3; strand=R; shift=4; score=0.477347; ----CCMCGCCC ; cor=; Ncor= a 0 0 0 0 49.3528 26.699 253.236 0.809061 152.913 0.809061 0.809061 0.809061 c 0 0 0 0 884.304 906.958 693.366 997.573 0.809061 997.573 997.573 997.573 g 0 0 0 0 0.809061 0.809061 52.589 0.809061 803.398 0.809061 0.809061 0.809061 t 0 0 0 0 65.534 65.534 0.809061 0.809061 42.8803 0.809061 0.809061 0.809061

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m4_shift3 ; 8 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m4_shift3 (oligos_7nt_mkv4_m4)
; oligos_7nt_mkv4_m4; m=0 (reference); ncol1=11; shift=3; ncol=14; ---dtAAAGGCAyr ; Alignment reference a 0 0 0 52 44 181 150 181 3 16 4 187 39 66 c 0 0 0 30 30 3 25 3 3 2 179 0 50 33 g 0 0 0 49 30 1 4 2 179 162 3 3 38 49 t 0 0 0 63 90 9 15 8 9 14 8 4 67 46

MA0676.1_shift4 (Nr2e1)
; oligos_7nt_mkv4_m4 versus MA0676.1 (Nr2e1); m=1/7; ncol2=9; w=0; offset=1; strand=D; shift=4; score=0.599264; ----aaAAGTCAA- ; cor=; Ncor= a 0 0 0 0 1118.0 1118.0 1118.0 1118.0 40.0 0.0 11.0 1118.0 1118.0 0 c 0 0 0 0 244.0 89.0 1.0 0.0 0.0 58.0 1118.0 0.0 131.0 0 g 0 0 0 0 191.0 448.0 101.0 74.0 1118.0 0.0 12.0 0.0 117.0 0 t 0 0 0 0 401.0 369.0 19.0 5.0 8.0 1118.0 112.0 0.0 247.0 0

MA0768.3_rc_shift2 (Lef1_rc)
; oligos_7nt_mkv4_m4 versus MA0768.3_rc (Lef1_rc); m=2/7; ncol2=8; w=-1; offset=-1; strand=R; shift=2; score=0.48662; --ATCAAAGG---- ; cor=; Ncor= a 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 51.0 25.0 882.0 15.0 39.0 14.0 21.0 130.0 0 0 0 0 g 0 0 28.0 28.0 75.0 18.0 47.0 19.0 989.0 788.0 0 0 0 0 t 0 0 130.0 987.0 73.0 18.0 19.0 12.0 26.0 73.0 0 0 0 0

MA2002.2_shift5 (Zfp335)
; oligos_7nt_mkv4_m4 versus MA2002.2 (Zfp335); m=3/7; ncol2=7; w=0; offset=2; strand=D; shift=5; score=0.451937; -----tCAGGCA-- ; cor=; Ncor= a 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 5.0 82.0 3.0 2.0 0.0 81.0 1.0 0 0 g 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 52.0 0.0 3.0 1.0 2.0 0.0 1.0 0 0

MA1730.2_rc_shift7 (ZNF708_rc)
; oligos_7nt_mkv4_m4 versus MA1730.2_rc (ZNF708_rc); m=4/7; ncol2=9; w=0; offset=4; strand=R; shift=7; score=0.427426; -------AGGyACA ; cor=; Ncor= a 0 0 0 0 0 0 0 800.0 5.0 24.0 6.0 791.0 2.0 780.0 c 0 0 0 0 0 0 0 13.0 12.0 49.0 436.0 19.0 827.0 8.0 g 0 0 0 0 0 0 0 31.0 828.0 771.0 4.0 28.0 7.0 54.0 t 0 0 0 0 0 0 0 5.0 4.0 5.0 403.0 11.0 13.0 7.0

MA0442.3_shift3 (SOX10)
; oligos_7nt_mkv4_m4 versus MA0442.3 (SOX10); m=5/7; ncol2=6; w=0; offset=0; strand=D; shift=3; score=0.421309; ---ACAAAG----- ; cor=; Ncor= a 0 0 0 2023.0 3.0 2029.0 1968.0 1959.0 10.0 0 0 0 0 0 c 0 0 0 4.0 1989.0 7.0 28.0 23.0 13.0 0 0 0 0 0 g 0 0 0 3.0 11.0 7.0 20.0 12.0 2012.0 0 0 0 0 0 t 0 0 0 25.0 52.0 12.0 39.0 61.0 20.0 0 0 0 0 0

MA1991.2_rc_shift0 (Hnf1A_rc)
; oligos_7nt_mkv4_m4 versus MA1991.2_rc (Hnf1A_rc); m=6/7; ncol2=10; w=-3; offset=-3; strand=R; shift=0; score=0.407055; asATCAAAGg---- ; cor=; Ncor= a 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 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 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 156.0 85.0 105.0 1125.0 30.0 16.0 16.0 19.0 18.0 103.0 0 0 0 0

MA0738.2_rc_shift7 (HIC2_rc)
; oligos_7nt_mkv4_m4 versus MA0738.2_rc (HIC2_rc); m=7/7; ncol2=6; w=0; offset=4; strand=R; shift=7; score=0.404179; -------KGGCAy- ; cor=; Ncor= a 0 0 0 0 0 0 0 0.0 59.0 0.0 151.0 4891.0 367.0 0 c 0 0 0 0 0 0 0 0.0 0.0 14.0 4891.0 0.0 2285.0 0 g 0 0 0 0 0 0 0 3425.0 4891.0 4891.0 354.0 117.0 394.0 0 t 0 0 0 0 0 0 0 1466.0 435.0 23.0 494.0 0.0 2606.0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m2_shift2 ; 17 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m2_shift2 (oligos_7nt_mkv4_m2)
; oligos_7nt_mkv4_m2; m=0 (reference); ncol1=13; shift=2; ncol=15; --ctrGGATTACAgg ; Alignment reference a 0 0 28 30 47 6 5 157 2 5 157 3 158 37 33 c 0 0 91 16 9 3 6 2 14 4 8 153 5 13 23 g 0 0 21 32 94 154 156 5 4 8 3 8 3 85 87 t 0 0 33 95 23 10 6 9 153 156 5 9 7 38 30

MA1720.2_shift4 (ZNF85)
; oligos_7nt_mkv4_m2 versus MA1720.2 (ZNF85); m=1/16; ncol2=12; w=0; offset=2; strand=D; shift=4; score=0.586768; ----rAGATTaCwkC ; cor=; Ncor= a 0 0 0 0 155.0 488.0 4.0 573.0 5.0 7.0 395.0 2.0 323.0 28.0 12.0 c 0 0 0 0 66.0 4.0 5.0 2.0 2.0 5.0 136.0 578.0 15.0 21.0 544.0 g 0 0 0 0 328.0 71.0 571.0 5.0 12.0 3.0 42.0 3.0 27.0 308.0 14.0 t 0 0 0 0 35.0 21.0 4.0 4.0 565.0 569.0 11.0 1.0 219.0 227.0 14.0

MA0883.2_shift1 (Dmbx1)
; oligos_7nt_mkv4_m2 versus MA0883.2 (Dmbx1); m=2/16; ncol2=10; w=-1; offset=-1; strand=D; shift=1; score=0.573603; -rwmmGGATTA---- ; cor=; Ncor= a 0 49.0 49.0 25.0 28.0 6.0 0.0 94.0 0.0 1.0 97.0 0 0 0 0 c 0 8.0 8.0 36.0 50.0 1.0 1.0 6.0 0.0 1.0 0.0 0 0 0 0 g 0 31.0 13.0 18.0 20.0 93.0 99.0 0.0 0.0 0.0 0.0 0 0 0 0 t 0 12.0 30.0 21.0 3.0 0.0 0.0 0.0 99.0 98.0 3.0 0 0 0 0

MA0019.2_rc_shift4 (Ddit3::Cebpa_rc)
; oligos_7nt_mkv4_m2 versus MA0019.2_rc (Ddit3::Cebpa_rc); m=3/16; ncol2=10; w=0; offset=2; strand=R; shift=4; score=0.569678; ----ggkATTGCAy- ; cor=; Ncor= a 0 0 0 0 7.0 3.0 3.0 33.0 0.0 0.0 2.0 1.0 38.0 3.0 0 c 0 0 0 0 6.0 9.0 5.0 0.0 1.0 0.0 0.0 38.0 0.0 15.0 0 g 0 0 0 0 26.0 23.0 17.0 6.0 2.0 1.0 33.0 0.0 1.0 3.0 0 t 0 0 0 0 0.0 4.0 14.0 0.0 36.0 38.0 4.0 0.0 0.0 18.0 0

MA1547.2_rc_shift4 (PITX2_rc)
; oligos_7nt_mkv4_m2 versus MA1547.2_rc (PITX2_rc); m=4/16; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.539173; ----rGGATTAr--- ; cor=; Ncor= a 0 0 0 0 2222.0 189.0 0.0 8019.0 0.0 0.0 8019.0 3859.0 0 0 0 c 0 0 0 0 786.0 0.0 0.0 668.0 0.0 0.0 0.0 454.0 0 0 0 g 0 0 0 0 4129.0 8019.0 8019.0 0.0 0.0 0.0 51.0 2782.0 0 0 0 t 0 0 0 0 881.0 0.0 0.0 0.0 8019.0 8019.0 0.0 924.0 0 0 0

MA0712.3_shift4 (OTX2)
; oligos_7nt_mkv4_m2 versus MA0712.3 (OTX2); m=5/16; ncol2=7; w=0; offset=2; strand=D; shift=4; score=0.536674; ----rGGATTA---- ; cor=; Ncor= a 0 0 0 0 37155.0 5435.0 2918.0 116411.0 765.0 1913.0 114798.0 0 0 0 0 c 0 0 0 0 5322.0 827.0 1620.0 2220.0 598.0 1771.0 636.0 0 0 0 0 g 0 0 0 0 55814.0 111741.0 113842.0 706.0 787.0 1407.0 1302.0 0 0 0 0 t 0 0 0 0 22388.0 2676.0 2299.0 1342.0 118529.0 115588.0 3943.0 0 0 0 0

MA0056.3_rc_shift2 (MZF1_rc)
; oligos_7nt_mkv4_m2 versus MA0056.3_rc (MZF1_rc); m=6/16; ncol2=8; w=0; offset=0; strand=R; shift=2; score=0.484168; --TGGGGATT----- ; cor=; Ncor= a 0 0 1111.0 369.0 154.0 114.0 93.0 7982.0 282.0 372.0 0 0 0 0 0 c 0 0 484.0 83.0 58.0 54.0 100.0 98.0 385.0 999.0 0 0 0 0 0 g 0 0 611.0 7673.0 7919.0 7939.0 7949.0 56.0 426.0 1016.0 0 0 0 0 0 t 0 0 6036.0 117.0 111.0 135.0 100.0 106.0 7149.0 5855.0 0 0 0 0 0

MA0467.3_shift5 (Crx)
; oligos_7nt_mkv4_m2 versus MA0467.3 (Crx); m=7/16; ncol2=6; w=0; offset=3; strand=D; shift=5; score=0.461031; -----GGATTA---- ; cor=; Ncor= a 0 0 0 0 0 19.0 26.0 4227.0 11.0 50.0 4241.0 0 0 0 0 c 0 0 0 0 0 155.0 36.0 17.0 32.0 25.0 25.0 0 0 0 0 g 0 0 0 0 0 4129.0 4200.0 42.0 9.0 20.0 23.0 0 0 0 0 t 0 0 0 0 0 30.0 71.0 47.0 4281.0 4238.0 44.0 0 0 0 0

MA0682.3_rc_shift5 (PITX1_rc)
; oligos_7nt_mkv4_m2 versus MA0682.3_rc (PITX1_rc); m=8/16; ncol2=6; w=0; offset=3; strand=R; shift=5; score=0.459932; -----GGATTA---- ; cor=; Ncor= a 0 0 0 0 0 547.0 141.0 10531.0 0.0 0.0 10531.0 0 0 0 0 c 0 0 0 0 0 134.0 0.0 1039.0 0.0 0.0 0.0 0 0 0 0 g 0 0 0 0 0 10531.0 10531.0 0.0 0.0 0.0 0.0 0 0 0 0 t 0 0 0 0 0 68.0 143.0 0.0 10531.0 10531.0 0.0 0 0 0 0

MA0714.2_rc_shift5 (PITX3_rc)
; oligos_7nt_mkv4_m2 versus MA0714.2_rc (PITX3_rc); m=9/16; ncol2=6; w=0; offset=3; strand=R; shift=5; score=0.456757; -----GGATTA---- ; cor=; Ncor= a 0 0 0 0 0 968.0 236.0 6253.0 0.0 158.0 6253.0 0 0 0 0 c 0 0 0 0 0 239.0 166.0 1101.0 15.0 260.0 9.0 0 0 0 0 g 0 0 0 0 0 6253.0 6253.0 138.0 0.0 32.0 51.0 0 0 0 0 t 0 0 0 0 0 227.0 318.0 262.0 6253.0 6253.0 493.0 0 0 0 0

MA0648.2_rc_shift5 (GSC_rc)
; oligos_7nt_mkv4_m2 versus MA0648.2_rc (GSC_rc); m=10/16; ncol2=6; w=0; offset=3; strand=R; shift=5; score=0.454715; -----GGATTA---- ; cor=; Ncor= a 0 0 0 0 0 1099.0 787.0 6081.0 0.0 89.0 6081.0 0 0 0 0 c 0 0 0 0 0 828.0 452.0 144.0 0.0 176.0 0.0 0 0 0 0 g 0 0 0 0 0 6081.0 6081.0 25.0 0.0 71.0 54.0 0 0 0 0 t 0 0 0 0 0 315.0 416.0 0.0 6081.0 6081.0 0.0 0 0 0 0

MA0891.2_rc_shift5 (GSC2_rc)
; oligos_7nt_mkv4_m2 versus MA0891.2_rc (GSC2_rc); m=11/16; ncol2=6; w=0; offset=3; strand=R; shift=5; score=0.452797; -----gGATTA---- ; cor=; Ncor= a 0 0 0 0 0 439.0 204.0 2016.0 132.0 201.0 2016.0 0 0 0 0 c 0 0 0 0 0 422.0 179.0 145.0 0.0 56.0 0.0 0 0 0 0 g 0 0 0 0 0 2016.0 2016.0 41.0 11.0 87.0 0.0 0 0 0 0 t 0 0 0 0 0 182.0 255.0 0.0 2016.0 2016.0 116.0 0 0 0 0

MA0711.2_rc_shift5 (OTX1_rc)
; oligos_7nt_mkv4_m2 versus MA0711.2_rc (OTX1_rc); m=12/16; ncol2=6; w=0; offset=3; strand=R; shift=5; score=0.450712; -----gGATTA---- ; cor=; Ncor= a 0 0 0 0 0 3363.0 378.0 23441.0 0.0 544.0 23441.0 0 0 0 0 c 0 0 0 0 0 8662.0 659.0 3160.0 0.0 254.0 0.0 0 0 0 0 g 0 0 0 0 0 23441.0 23441.0 0.0 0.0 0.0 90.0 0 0 0 0 t 0 0 0 0 0 789.0 647.0 243.0 23441.0 23441.0 745.0 0 0 0 0

MA0629.2_rc_shift7 (Rhox11_rc)
; oligos_7nt_mkv4_m2 versus MA0629.2_rc (Rhox11_rc); m=13/16; ncol2=9; w=0; offset=5; strand=R; shift=7; score=0.42122; -------wTwACAGC ; cor=; Ncor= a 0 0 0 0 0 0 0 36.0 15.0 43.0 99.0 2.0 99.0 0.0 1.0 c 0 0 0 0 0 0 0 1.0 3.0 0.0 0.0 94.0 1.0 15.0 95.0 g 0 0 0 0 0 0 0 10.0 4.0 0.0 1.0 0.0 0.0 76.0 1.0 t 0 0 0 0 0 0 0 52.0 78.0 56.0 1.0 4.0 1.0 9.0 3.0

MA0719.2_rc_shift5 (RHOXF1_rc)
; oligos_7nt_mkv4_m2 versus MA0719.2_rc (RHOXF1_rc); m=14/16; ncol2=6; w=0; offset=3; strand=R; shift=5; score=0.414916; -----GGmTyA---- ; cor=; Ncor= a 0 0 0 0 0 2275.0 0.0 7376.0 0.0 1367.0 10916.0 0 0 0 0 c 0 0 0 0 0 0.0 0.0 3540.0 0.0 5373.0 478.0 0 0 0 0 g 0 0 0 0 0 10916.0 10916.0 0.0 0.0 0.0 0.0 0 0 0 0 t 0 0 0 0 0 0.0 0.0 0.0 10916.0 5543.0 2837.0 0 0 0 0

MA2125.1_rc_shift0 (Zfp809_rc)
; oligos_7nt_mkv4_m2 versus MA2125.1_rc (Zfp809_rc); m=15/16; ncol2=9; w=-2; offset=-2; strand=R; shift=0; score=0.405976; gGCTGGGAw------ ; cor=; Ncor= a 242.0 61.0 26.0 37.0 18.0 21.0 25.0 1578.0 690.0 0 0 0 0 0 0 c 115.0 99.0 1572.0 73.0 16.0 14.0 18.0 23.0 81.0 0 0 0 0 0 0 g 1091.0 1218.0 35.0 26.0 1621.0 1610.0 1607.0 41.0 66.0 0 0 0 0 0 0 t 217.0 287.0 32.0 1529.0 10.0 20.0 15.0 23.0 828.0 0 0 0 0 0 0

MA0025.3_rc_shift7 (NFIL3_rc)
; oligos_7nt_mkv4_m2 versus MA0025.3_rc (NFIL3_rc); m=16/16; ncol2=9; w=0; offset=5; strand=R; shift=7; score=0.400807; -------aTTrCATA ; cor=; Ncor= a 0 0 0 0 0 0 0 13143.0 474.0 434.0 9180.0 610.0 20334.0 433.0 20606.0 c 0 0 0 0 0 0 0 2701.0 360.0 171.0 454.0 20459.0 492.0 990.0 1714.0 g 0 0 0 0 0 0 0 4959.0 251.0 543.0 12004.0 467.0 1511.0 220.0 208.0 t 0 0 0 0 0 0 0 2193.0 21911.0 21848.0 1358.0 1460.0 659.0 21353.0 468.0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m3_shift1 ; 8 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m3_shift1 (oligos_7nt_mkv4_m3)
; oligos_7nt_mkv4_m3; m=0 (reference); ncol1=11; shift=1; ncol=12; -ssCGCkCGCss ; Alignment reference a 0 22 16 9 5 7 10 2 10 7 26 22 c 0 65 56 146 8 156 21 155 6 153 60 68 g 0 54 74 16 159 6 68 12 149 10 62 57 t 0 36 31 6 5 8 78 8 12 7 29 30

MA0632.3_shift2 (TCFL5)
; oligos_7nt_mkv4_m3 versus MA0632.3 (TCFL5); m=1/7; ncol2=8; w=0; offset=1; strand=D; shift=2; score=0.571416; --kCrCGCGC-- ; cor=; Ncor= a 0 0 2810.0 0.0 72543.0 0.0 1566.0 1765.0 3520.0 1593.0 0 0 c 0 0 10582.0 72543.0 0.0 72543.0 0.0 57092.0 657.0 72543.0 0 0 g 0 0 22297.0 0.0 29710.0 0.0 72543.0 0.0 72543.0 4594.0 0 0 t 0 0 36854.0 0.0 9359.0 1643.0 0.0 15451.0 0.0 635.0 0 0

MA1513.2_shift0 (KLF15)
; oligos_7nt_mkv4_m3 versus MA1513.2 (KLF15); m=2/7; ncol2=8; w=-1; offset=-1; strand=D; shift=0; score=0.435986; cCCCGCCC---- ; cor=; Ncor= a 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 0 0 0 0 c 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 0 0 0 0 g 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 0 0 0 0 t 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0 0 0 0 0

MA1959.2_rc_shift0 (KLF7_rc)
; oligos_7nt_mkv4_m3 versus MA1959.2_rc (KLF7_rc); m=3/7; ncol2=8; w=-1; offset=-1; strand=R; shift=0; score=0.433988; CcMCGCCC---- ; cor=; Ncor= a 1.0 167.0 254.0 1.0 167.0 1.0 1.0 1.0 0 0 0 0 c 997.0 642.0 720.0 997.0 1.0 997.0 997.0 997.0 0 0 0 0 g 1.0 42.0 25.0 1.0 788.0 1.0 1.0 1.0 0 0 0 0 t 1.0 150.0 1.0 1.0 45.0 1.0 1.0 1.0 0 0 0 0

MA2126.1_rc_shift0 (Zfp961_rc)
; oligos_7nt_mkv4_m3 versus MA2126.1_rc (Zfp961_rc); m=4/7; ncol2=8; w=-1; offset=-1; strand=R; shift=0; score=0.42668; TGGCGCCC---- ; cor=; Ncor= a 61.0 26.0 16.0 15.0 182.0 116.0 71.0 8.0 0 0 0 0 c 69.0 30.0 23.0 1372.0 9.0 1278.0 1312.0 1372.0 0 0 0 0 g 74.0 1353.0 1367.0 8.0 1219.0 13.0 22.0 20.0 0 0 0 0 t 1214.0 9.0 12.0 23.0 8.0 11.0 13.0 18.0 0 0 0 0

MA1650.2_shift0 (ZBTB14)
; oligos_7nt_mkv4_m3 versus MA1650.2 (ZBTB14); m=5/7; ncol2=8; w=-1; offset=-1; strand=D; shift=0; score=0.41354; CCGCGCAC---- ; cor=; Ncor= a 335.0 41.0 93.0 68.0 132.0 56.0 4500.0 99.0 0 0 0 0 c 3525.0 4292.0 294.0 4078.0 305.0 4178.0 37.0 3674.0 0 0 0 0 g 614.0 155.0 4098.0 319.0 4043.0 261.0 10.0 651.0 0 0 0 0 t 73.0 59.0 62.0 82.0 67.0 52.0 0.0 123.0 0 0 0 0

MA1099.3_rc_shift5 (HES1_rc)
; oligos_7nt_mkv4_m3 versus MA1099.3_rc (HES1_rc); m=6/7; ncol2=8; w=0; offset=4; strand=R; shift=5; score=0.409227; -----CACGyGc ; cor=; Ncor= a 0 0 0 0 0 53.0 18526.0 0.0 791.0 232.0 18.0 8007.0 c 0 0 0 0 0 18526.0 0.0 18526.0 0.0 9081.0 0.0 18526.0 g 0 0 0 0 0 0.0 4057.0 0.0 18526.0 0.0 18526.0 2072.0 t 0 0 0 0 0 1.0 253.0 21.0 0.0 9446.0 464.0 5858.0

MA2328.1_shift5 (ZBED4)
; oligos_7nt_mkv4_m3 versus MA2328.1 (ZBED4); m=7/7; ncol2=10; w=0; offset=4; strand=D; shift=5; score=0.405485; -----CcCGCyC ; cor=; Ncor= a 0 0 0 0 0 41.0 26.0 29.0 17.0 6.0 11.0 14.0 c 0 0 0 0 0 479.0 419.0 549.0 14.0 621.0 391.0 598.0 g 0 0 0 0 0 80.0 65.0 62.0 608.0 26.0 28.0 34.0 t 0 0 0 0 0 60.0 150.0 20.0 21.0 7.0 230.0 14.0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m1_shift1 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m1_shift1 (oligos_7nt_mkv4_m1)
; oligos_7nt_mkv4_m1; m=0 (reference); ncol1=11; shift=1; ncol=12; -mgCCACTGCmc ; Alignment reference a 0 109 73 14 5 257 5 18 11 13 105 71 c 0 77 75 252 282 10 282 19 15 266 81 95 g 0 68 103 8 4 20 8 8 266 7 44 72 t 0 48 51 28 11 15 7 257 10 16 72 64

MA0130.1_shift1 (ZNF354C)
; oligos_7nt_mkv4_m1 versus MA0130.1 (ZNF354C); m=1/3; ncol2=6; w=0; offset=0; strand=D; shift=1; score=0.502344; -mTCCAC----- ; cor=; Ncor= a 0 7.0 3.0 0.0 0.0 16.0 0.0 0 0 0 0 0 c 0 6.0 2.0 16.0 16.0 0.0 15.0 0 0 0 0 0 g 0 3.0 0.0 0.0 0.0 0.0 1.0 0 0 0 0 0 t 0 0.0 11.0 0.0 0.0 0.0 0.0 0 0 0 0 0

MA0002.3_rc_shift0 (Runx1_rc)
; oligos_7nt_mkv4_m1 versus MA0002.3_rc (Runx1_rc); m=2/3; ncol2=9; w=-1; offset=-1; strand=R; shift=0; score=0.467345; waaCCACAr--- ; cor=; Ncor= a 1053.0 1325.0 1339.0 93.0 13.0 1716.0 53.0 1936.0 656.0 0 0 0 c 289.0 81.0 251.0 1848.0 1987.0 70.0 1872.0 7.0 149.0 0 0 0 g 158.0 463.0 400.0 42.0 0.0 127.0 75.0 0.0 1072.0 0 0 0 t 500.0 131.0 10.0 17.0 0.0 87.0 0.0 57.0 123.0 0 0 0

MA0100.4_shift3 (MYB)
; oligos_7nt_mkv4_m1 versus MA0100.4 (MYB); m=3/3; ncol2=6; w=0; offset=2; strand=D; shift=3; score=0.412412; ---CAACTG--- ; cor=; Ncor= a 0 0 0 0.0 1478.0 1519.0 0.0 1.0 8.0 0 0 0 c 0 0 0 1513.0 3.0 2.0 1527.0 60.0 3.0 0 0 0 g 0 0 0 5.0 39.0 0.0 0.0 68.0 1516.0 0 0 0 t 0 0 0 9.0 7.0 6.0 0.0 1398.0 0.0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m5_shift1 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m5_shift1 (oligos_6nt_mkv3_m5)
; oligos_6nt_mkv3_m5; m=0 (reference); ncol1=10; shift=1; ncol=11; -svCGaGCGss ; Alignment reference a 0 55 62 14 11 160 7 9 11 52 54 c 0 66 69 208 13 26 5 216 11 78 73 g 0 81 70 8 219 45 233 13 216 72 77 t 0 45 46 17 4 16 2 9 9 45 43

MA1959.2_shift4 (KLF7)
; oligos_6nt_mkv3_m5 versus MA1959.2 (KLF7); m=1/6; ncol2=8; w=0; offset=3; strand=D; shift=4; score=0.48369; ----GGGCGKg ; cor=; Ncor= a 0 0 0 0 1.0 1.0 1.0 45.0 1.0 1.0 150.0 c 0 0 0 0 1.0 1.0 1.0 788.0 1.0 25.0 42.0 g 0 0 0 0 997.0 997.0 997.0 1.0 997.0 720.0 642.0 t 0 0 0 0 1.0 1.0 1.0 167.0 1.0 254.0 167.0

MA1713.2_rc_shift3 (ZNF610_rc)
; oligos_6nt_mkv3_m5 versus MA1713.2_rc (ZNF610_rc); m=2/6; ncol2=10; w=0; offset=2; strand=R; shift=3; score=0.482325; ---GGAGCGGC ; cor=; Ncor= a 0 0 0 101.0 3.0 2289.0 4.0 11.0 15.0 20.0 79.0 c 0 0 0 186.0 62.0 45.0 21.0 2312.0 41.0 84.0 2118.0 g 0 0 0 1976.0 2315.0 34.0 2357.0 45.0 2312.0 2245.0 121.0 t 0 0 0 123.0 6.0 18.0 4.0 18.0 18.0 37.0 68.0

MA1513.2_rc_shift4 (KLF15_rc)
; oligos_6nt_mkv3_m5 versus MA1513.2_rc (KLF15_rc); m=3/6; ncol2=8; w=0; offset=3; strand=R; shift=4; score=0.468533; ----GGGCGGG ; cor=; Ncor= a 0 0 0 0 3.0 1.0 11.0 0.0 0.0 3.0 9.0 c 0 0 0 0 100.0 359.0 2.0 11369.0 1.0 333.0 86.0 g 0 0 0 0 11254.0 10954.0 11345.0 0.0 11368.0 10940.0 11234.0 t 0 0 0 0 12.0 55.0 11.0 0.0 0.0 93.0 40.0

MA0632.3_shift0 (TCFL5)
; oligos_6nt_mkv3_m5 versus MA0632.3 (TCFL5); m=4/6; ncol2=8; w=-1; offset=-1; strand=D; shift=0; score=0.463928; kCrCGCGC--- ; cor=; Ncor= a 2810.0 0.0 72543.0 0.0 1566.0 1765.0 3520.0 1593.0 0 0 0 c 10582.0 72543.0 0.0 72543.0 0.0 57092.0 657.0 72543.0 0 0 0 g 22297.0 0.0 29710.0 0.0 72543.0 0.0 72543.0 4594.0 0 0 0 t 36854.0 0.0 9359.0 1643.0 0.0 15451.0 0.0 635.0 0 0 0

MA2126.1_shift4 (Zfp961)
; oligos_6nt_mkv3_m5 versus MA2126.1 (Zfp961); m=5/6; ncol2=8; w=0; offset=3; strand=D; shift=4; score=0.45427; ----GGGCGCC ; cor=; Ncor= a 0 0 0 0 18.0 13.0 11.0 8.0 23.0 12.0 9.0 c 0 0 0 0 20.0 22.0 13.0 1219.0 8.0 1367.0 1353.0 g 0 0 0 0 1372.0 1312.0 1278.0 9.0 1372.0 23.0 30.0 t 0 0 0 0 8.0 71.0 116.0 182.0 15.0 16.0 26.0

MA1515.2_rc_shift4 (KLF2_rc)
; oligos_6nt_mkv3_m5 versus MA1515.2_rc (KLF2_rc); m=6/6; ncol2=8; w=0; offset=3; strand=R; shift=4; score=0.449516; ----GGGyGkG ; cor=; Ncor= a 0 0 0 0 444.0 9.0 22.0 167.0 78.0 214.0 312.0 c 0 0 0 0 105.0 195.0 49.0 2920.0 0.0 1060.0 186.0 g 0 0 0 0 4622.0 4622.0 4622.0 274.0 4622.0 2265.0 4622.0 t 0 0 0 0 68.0 128.0 0.0 1702.0 0.0 4622.0 403.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m1_shift4 (oligos_6nt_mkv3_m1)				; oligos_6nt_mkv3_m1; m=0 (reference); ncol1=11; shift=4; ncol=15; ----ccgCCTCCCmm ; Alignment reference a 0 0 0 0 62 100 37 6 5 11 12 8 4 131 107 c 0 0 0 0 190 142 66 402 397 7 386 380 375 117 133 g 0 0 0 0 76 90 261 2 8 32 11 15 21 83 101 t 0 0 0 0 89 85 53 7 7 367 8 14 17 86 76
MA1653.2_shift5 (ZNF148)				; oligos_6nt_mkv3_m1 versus MA1653.2 (ZNF148); m=1/19; ncol2=10; w=0; offset=1; strand=D; shift=5; score=0.736117; -----CCCCTCCCcc ; cor=; Ncor= a 0 0 0 0 0 82.0 132.0 136.0 89.0 133.0 66.0 352.0 442.0 846.0 841.0 c 0 0 0 0 0 10799.0 10396.0 10526.0 10833.0 14.0 10954.0 9922.0 9283.0 7239.0 7114.0 g 0 0 0 0 0 205.0 471.0 401.0 211.0 1012.0 112.0 460.0 392.0 1924.0 2064.0 t 0 0 0 0 0 113.0 200.0 136.0 66.0 10040.0 67.0 465.0 1082.0 1190.0 1180.0
MA1961.2_rc_shift4 (PATZ1_rc)				; oligos_6nt_mkv3_m1 versus MA1961.2_rc (PATZ1_rc); m=2/19; ncol2=11; w=0; offset=0; strand=R; shift=4; score=0.735699; ----sCCCCkCCCCs ; cor=; Ncor= a 0 0 0 0 34.0 1.0 1.0 1.0 1.0 155.0 1.0 1.0 1.0 24.0 44.0 c 0 0 0 0 523.0 944.0 964.0 957.0 997.0 1.0 997.0 997.0 727.0 680.0 543.0 g 0 0 0 0 392.0 1.0 34.0 41.0 1.0 489.0 1.0 1.0 78.0 228.0 288.0 t 0 0 0 0 51.0 54.0 1.0 1.0 1.0 355.0 1.0 1.0 195.0 68.0 125.0
MA1630.3_rc_shift5 (ZNF281_rc)				; oligos_6nt_mkv3_m1 versus MA1630.3_rc (ZNF281_rc); m=3/19; ncol2=10; w=0; offset=1; strand=R; shift=5; score=0.670487; -----CCCCTCCCCC ; cor=; Ncor= a 0 0 0 0 0 7.0 18.0 1.0 105.0 96.0 1.0 1.0 1.0 1.0 1.0 c 0 0 0 0 0 920.0 940.0 998.0 772.0 1.0 998.0 998.0 963.0 998.0 998.0 g 0 0 0 0 0 27.0 1.0 1.0 1.0 183.0 1.0 1.0 1.0 1.0 1.0 t 0 0 0 0 0 47.0 41.0 1.0 122.0 720.0 1.0 1.0 35.0 1.0 1.0
MA0599.1_shift4 (KLF5)				; oligos_6nt_mkv3_m1 versus MA0599.1 (KLF5); m=4/19; ncol2=10; w=0; offset=0; strand=D; shift=4; score=0.656939; ----gCCMCrCCCh- ; cor=; Ncor= a 0 0 0 0 1429.0 0.0 0.0 3477.0 0.0 5051.0 0.0 0.0 0.0 3915.0 0 c 0 0 0 0 2023.0 11900.0 12008.0 9569.0 13611.0 0.0 13611.0 13611.0 13135.0 5595.0 0 g 0 0 0 0 7572.0 0.0 0.0 0.0 0.0 5182.0 0.0 0.0 0.0 0.0 0 t 0 0 0 0 2587.0 1711.0 1603.0 565.0 0.0 3378.0 0.0 0.0 476.0 4101.0 0
MA1596.1_shift0 (ZNF460)				; oligos_6nt_mkv3_m1 versus MA1596.1 (ZNF460); m=5/19; ncol2=16; w=-4; offset=-4; strand=D; shift=0; score=0.632285; rCCTCmGCCTCCCrr ; cor=; Ncor= a 412.0 49.0 19.0 27.0 17.0 851.0 61.0 6.0 1.0 13.0 3.0 5.0 12.0 516.0 987.0 c 131.0 1264.0 1460.0 218.0 1519.0 495.0 23.0 1588.0 1596.0 12.0 1584.0 1583.0 1533.0 110.0 175.0 g 1023.0 185.0 67.0 83.0 47.0 181.0 1493.0 7.0 9.0 17.0 15.0 15.0 27.0 930.0 421.0 t 46.0 114.0 66.0 1284.0 29.0 85.0 35.0 11.0 6.0 1570.0 10.0 9.0 40.0 56.0 29.0
MA0685.2_rc_shift5 (SP4_rc)				; oligos_6nt_mkv3_m1 versus MA0685.2_rc (SP4_rc); m=6/19; ncol2=9; w=0; offset=1; strand=R; shift=5; score=0.619674; -----CyCCKCCCc- ; cor=; Ncor= a 0 0 0 0 0 0.686813 50.1374 77.6099 0.686813 0.686813 0.686813 0.686813 0.686813 195.742 0 c 0 0 0 0 0 997.94 660.027 921.016 997.94 0.686813 997.94 997.94 997.94 654.533 0 g 0 0 0 0 0 0.686813 0.686813 0.686813 0.686813 723.214 0.686813 0.686813 0.686813 0.686813 0 t 0 0 0 0 0 0.686813 289.148 0.686813 0.686813 275.412 0.686813 0.686813 0.686813 149.038 0
MA0079.5_rc_shift5 (SP1_rc)				; oligos_6nt_mkv3_m1 versus MA0079.5_rc (SP1_rc); m=7/19; ncol2=9; w=0; offset=1; strand=R; shift=5; score=0.611345; -----CyCCKCCCC- ; cor=; Ncor= a 0 0 0 0 0 1.05485 34.8101 1.05485 1.05485 1.05485 1.05485 1.05485 1.05485 47.4684 0 c 0 0 0 0 0 836.498 659.283 912.447 996.835 1.05485 996.835 996.835 996.835 950.422 0 g 0 0 0 0 0 1.05485 51.6878 85.443 1.05485 731.013 1.05485 1.05485 1.05485 1.05485 0 t 0 0 0 0 0 161.392 254.219 1.05485 1.05485 266.878 1.05485 1.05485 1.05485 1.05485 0
MA1522.2_shift5 (MAZ)				; oligos_6nt_mkv3_m1 versus MA1522.2 (MAZ); m=8/19; ncol2=8; w=0; offset=1; strand=D; shift=5; score=0.593646; -----CCCCTCCc-- ; cor=; Ncor= a 0 0 0 0 0 17.0 49.0 36.0 39.0 6.0 90.0 23.0 1109.0 0 0 c 0 0 0 0 0 14945.0 14630.0 14731.0 14676.0 0.0 14961.0 14944.0 9372.0 0 0 g 0 0 0 0 0 75.0 384.0 290.0 347.0 130.0 8.0 96.0 1768.0 0 0 t 0 0 0 0 0 26.0 0.0 6.0 1.0 14927.0 4.0 0.0 2814.0 0 0
MA2099.1_shift4 (ZNF770)				; oligos_6nt_mkv3_m1 versus MA2099.1 (ZNF770); m=9/19; ncol2=8; w=0; offset=0; strand=D; shift=4; score=0.591863; ----CrGCCTCm--- ; cor=; Ncor= a 0 0 0 0 292.0 3968.0 179.0 101.0 37.0 87.0 35.0 9257.0 0 0 0 c 0 0 0 0 12613.0 857.0 79.0 13393.0 14096.0 140.0 14154.0 3865.0 0 0 0 g 0 0 0 0 374.0 9119.0 13947.0 681.0 133.0 215.0 86.0 485.0 0 0 0 t 0 0 0 0 1052.0 387.0 126.0 156.0 65.0 13889.0 56.0 724.0 0 0 0
MA0516.3_rc_shift5 (SP2_rc)				; oligos_6nt_mkv3_m1 versus MA0516.3_rc (SP2_rc); m=10/19; ncol2=9; w=0; offset=1; strand=R; shift=5; score=0.57828; -----cCCCGCCCC- ; cor=; Ncor= a 0 0 0 0 0 18.3284 0.733138 24.1935 0.733138 0.733138 0.733138 0.733138 0.733138 79.912 0 c 0 0 0 0 0 610.704 877.566 974.34 997.801 0.733138 997.801 997.801 830.645 766.129 0 g 0 0 0 0 0 164.956 0.733138 0.733138 0.733138 886.364 0.733138 0.733138 0.733138 0.733138 0 t 0 0 0 0 0 206.012 120.968 0.733138 0.733138 112.17 0.733138 0.733138 167.889 153.226 0
MA1587.1_shift1 (ZNF135)				; oligos_6nt_mkv3_m1 versus MA1587.1 (ZNF135); m=11/19; ncol2=14; w=-3; offset=-3; strand=D; shift=1; score=0.563103; -cCTCGACCTCCyrr ; cor=; Ncor= a 0 49.0 16.0 4.0 7.0 60.0 886.0 17.0 1.0 1.0 3.0 36.0 55.0 303.0 449.0 c 0 595.0 858.0 37.0 772.0 25.0 3.0 896.0 939.0 6.0 936.0 800.0 399.0 66.0 35.0 g 0 122.0 22.0 15.0 10.0 862.0 52.0 26.0 2.0 2.0 6.0 7.0 48.0 523.0 421.0 t 0 182.0 52.0 892.0 159.0 1.0 7.0 9.0 6.0 939.0 3.0 105.0 446.0 56.0 43.0
MA0528.3_rc_shift6 (ZNF263_rc)				; oligos_6nt_mkv3_m1 versus MA0528.3_rc (ZNF263_rc); m=12/19; ncol2=7; w=0; offset=2; strand=R; shift=6; score=0.557658; ------TCCTCCC-- ; cor=; Ncor= a 0 0 0 0 0 0 638.0 717.0 1672.0 620.0 986.0 1192.0 1270.0 0 0 c 0 0 0 0 0 0 1448.0 52741.0 52875.0 163.0 53435.0 52818.0 51804.0 0 0 g 0 0 0 0 0 0 1758.0 2190.0 966.0 1660.0 972.0 1544.0 1659.0 0 0 t 0 0 0 0 0 0 52499.0 695.0 830.0 53900.0 950.0 789.0 1610.0 0 0
MA1965.2_shift7 (SP5)				; oligos_6nt_mkv3_m1 versus MA1965.2 (SP5); m=13/19; ncol2=6; w=0; offset=3; strand=D; shift=7; score=0.544746; -------CCTCCC-- ; cor=; Ncor= a 0 0 0 0 0 0 0 6.0 7.0 0.0 47.0 11.0 0.0 0 0 c 0 0 0 0 0 0 0 20683.0 20286.0 0.0 20649.0 20451.0 20604.0 0 0 g 0 0 0 0 0 0 0 3.0 403.0 231.0 0.0 234.0 92.0 0 0 t 0 0 0 0 0 0 0 4.0 0.0 20465.0 0.0 0.0 0.0 0 0
MA1627.2_shift7 (Wt1)				; oligos_6nt_mkv3_m1 versus MA1627.2 (Wt1); m=14/19; ncol2=10; w=0; offset=3; strand=D; shift=7; score=0.536609; -------cCTCCCCC ; cor=; Ncor= a 0 0 0 0 0 0 0 839.0 48.0 120.0 21.0 40.0 43.0 850.0 31.0 c 0 0 0 0 0 0 0 2948.0 4546.0 69.0 4602.0 4354.0 4252.0 3636.0 4573.0 g 0 0 0 0 0 0 0 404.0 58.0 319.0 42.0 75.0 120.0 101.0 46.0 t 0 0 0 0 0 0 0 500.0 39.0 4183.0 26.0 222.0 276.0 104.0 41.0
MA1959.2_rc_shift5 (KLF7_rc)				; oligos_6nt_mkv3_m1 versus MA1959.2_rc (KLF7_rc); m=15/19; ncol2=8; w=0; offset=1; strand=R; shift=5; score=0.513193; -----CcMCGCCC-- ; cor=; Ncor= a 0 0 0 0 0 1.0 167.0 254.0 1.0 167.0 1.0 1.0 1.0 0 0 c 0 0 0 0 0 997.0 642.0 720.0 997.0 1.0 997.0 997.0 997.0 0 0 g 0 0 0 0 0 1.0 42.0 25.0 1.0 788.0 1.0 1.0 1.0 0 0 t 0 0 0 0 0 1.0 150.0 1.0 1.0 45.0 1.0 1.0 1.0 0 0
MA0493.3_rc_shift5 (KLF1_rc)				; oligos_6nt_mkv3_m1 versus MA0493.3_rc (KLF1_rc); m=16/19; ncol2=8; w=0; offset=1; strand=R; shift=5; score=0.509338; -----CCmCrCCC-- ; cor=; Ncor= a 0 0 0 0 0 1.0 21.0 324.0 1.0 346.0 1.0 1.0 1.0 0 0 c 0 0 0 0 0 998.0 896.0 675.0 998.0 1.0 998.0 998.0 998.0 0 0 g 0 0 0 0 0 1.0 1.0 1.0 1.0 529.0 1.0 1.0 1.0 0 0 t 0 0 0 0 0 1.0 82.0 1.0 1.0 125.0 1.0 1.0 1.0 0 0
MA1723.2_rc_shift1 (PRDM9_rc)				; oligos_6nt_mkv3_m1 versus MA1723.2_rc (PRDM9_rc); m=17/19; ncol2=20; w=-3; offset=-3; strand=R; shift=1; score=0.45282; -yTkyykCCyCCcTk ; cor=; Ncor= a 0 29.0 46.0 204.0 186.0 151.0 151.0 2.0 2.0 116.0 37.0 11.0 107.0 11.0 107.0 c 0 572.0 169.0 107.0 441.0 274.0 204.0 976.0 993.0 344.0 932.0 853.0 529.0 204.0 213.0 g 0 81.0 2.0 423.0 2.0 178.0 292.0 2.0 2.0 90.0 2.0 11.0 204.0 11.0 379.0 t 0 318.0 783.0 265.0 371.0 397.0 353.0 20.0 2.0 450.0 29.0 125.0 160.0 774.0 300.0
MA1710.2_rc_shift1 (ZNF257_rc)				; oligos_6nt_mkv3_m1 versus MA1710.2_rc (ZNF257_rc); m=18/19; ncol2=10; w=-3; offset=-3; strand=R; shift=1; score=0.44487; -cyCTygCCTC---- ; cor=; Ncor= a 0 162.0 1.0 1.0 1.0 1.0 124.0 1.0 1.0 74.0 1.0 0 0 0 0 c 0 625.0 480.0 997.0 166.0 396.0 1.0 997.0 997.0 1.0 997.0 0 0 0 0 g 0 101.0 85.0 1.0 1.0 55.0 637.0 1.0 1.0 1.0 1.0 0 0 0 0 t 0 112.0 434.0 1.0 832.0 549.0 239.0 1.0 1.0 924.0 1.0 0 0 0 0
MA1578.2_shift7 (VEZF1)				; oligos_6nt_mkv3_m1 versus MA1578.2 (VEZF1); m=19/19; ncol2=6; w=0; offset=3; strand=D; shift=7; score=0.41731; -------CCCCCC-- ; cor=; Ncor= a 0 0 0 0 0 0 0 71.0 1.0 4.0 2.0 6.0 10.0 0 0 c 0 0 0 0 0 0 0 790.0 997.0 995.0 997.0 989.0 977.0 0 0 g 0 0 0 0 0 0 0 137.0 0.0 0.0 0.0 0.0 3.0 0 0 t 0 0 0 0 0 0 0 0.0 0.0 0.0 0.0 4.0 8.0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m2_shift6 (oligos_6nt_mkv3_m2)				; oligos_6nt_mkv3_m2; m=0 (reference); ncol1=11; shift=6; ncol=17; ------amwCCCAGChm ; Alignment reference a 0 0 0 0 0 0 135 92 158 7 12 3 314 4 11 116 95 c 0 0 0 0 0 0 71 97 46 342 325 339 22 5 329 94 121 g 0 0 0 0 0 0 88 82 54 5 10 7 15 346 5 53 69 t 0 0 0 0 0 0 65 88 101 5 12 10 8 4 14 96 74
MA2125.1_shift7 (Zfp809)				; oligos_6nt_mkv3_m2 versus MA2125.1 (Zfp809); m=1/15; ncol2=9; w=0; offset=1; strand=D; shift=7; score=0.714751; -------wTCCCAGCc- ; cor=; Ncor= a 0 0 0 0 0 0 0 828.0 23.0 15.0 20.0 10.0 1529.0 32.0 287.0 217.0 0 c 0 0 0 0 0 0 0 66.0 41.0 1607.0 1610.0 1621.0 26.0 35.0 1218.0 1091.0 0 g 0 0 0 0 0 0 0 81.0 23.0 18.0 14.0 16.0 73.0 1572.0 99.0 115.0 0 t 0 0 0 0 0 0 0 690.0 1578.0 25.0 21.0 18.0 37.0 26.0 61.0 242.0 0
MA2341.1_shift9 (FEZF2)				; oligos_6nt_mkv3_m2 versus MA2341.1 (FEZF2); m=2/15; ncol2=8; w=0; offset=3; strand=D; shift=9; score=0.606541; ---------CCCAGCCT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 17.0 5.0 4.0 231.0 6.0 8.0 7.0 14.0 c 0 0 0 0 0 0 0 0 0 202.0 206.0 258.0 15.0 8.0 224.0 247.0 10.0 g 0 0 0 0 0 0 0 0 0 10.0 9.0 0.0 14.0 251.0 28.0 2.0 8.0 t 0 0 0 0 0 0 0 0 0 36.0 45.0 3.0 5.0 0.0 5.0 9.0 233.0
MA1629.2_shift9 (Zic2)				; oligos_6nt_mkv3_m2 versus MA1629.2 (Zic2); m=3/15; ncol2=9; w=0; offset=3; strand=D; shift=9; score=0.493329; ---------CaCAGCAG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1161.0 6888.0 135.0 11074.0 140.0 80.0 10625.0 192.0 c 0 0 0 0 0 0 0 0 0 9933.0 1765.0 11476.0 391.0 228.0 11272.0 118.0 133.0 g 0 0 0 0 0 0 0 0 0 585.0 829.0 188.0 186.0 11484.0 269.0 735.0 11184.0 t 0 0 0 0 0 0 0 0 0 240.0 2437.0 120.0 268.0 67.0 298.0 441.0 410.0
MA1116.2_rc_shift7 (RBPJ_rc)				; oligos_6nt_mkv3_m2 versus MA1116.2_rc (RBPJ_rc); m=4/15; ncol2=6; w=0; offset=1; strand=R; shift=7; score=0.440268; -------TTCCCA---- ; cor=; Ncor= a 0 0 0 0 0 0 0 4.0 29.0 78.0 60.0 1.0 2386.0 0 0 0 0 c 0 0 0 0 0 0 0 1.0 4.0 2309.0 2313.0 2341.0 2.0 0 0 0 0 g 0 0 0 0 0 0 0 15.0 0.0 8.0 20.0 25.0 12.0 0 0 0 0 t 0 0 0 0 0 0 0 2382.0 2369.0 7.0 9.0 35.0 2.0 0 0 0 0
MA1997.2_shift11 (Olig2)				; oligos_6nt_mkv3_m2 versus MA1997.2 (Olig2); m=5/15; ncol2=6; w=0; offset=5; strand=D; shift=11; score=0.436568; -----------CAGCTG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 10.0 59733.0 14.0 41.0 0.0 50.0 c 0 0 0 0 0 0 0 0 0 0 0 60968.0 668.0 18.0 61069.0 741.0 114.0 g 0 0 0 0 0 0 0 0 0 0 0 114.0 741.0 61069.0 18.0 668.0 60968.0 t 0 0 0 0 0 0 0 0 0 0 0 50.0 0.0 41.0 14.0 59733.0 10.0
MA0633.3_rc_shift11 (Twist2_rc)				; oligos_6nt_mkv3_m2 versus MA0633.3_rc (Twist2_rc); m=6/15; ncol2=6; w=0; offset=5; strand=R; shift=11; score=0.436209; -----------CAGCTG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 15.0 48918.0 9.0 21.0 0.0 60.0 c 0 0 0 0 0 0 0 0 0 0 0 49473.0 342.0 16.0 49583.0 369.0 81.0 g 0 0 0 0 0 0 0 0 0 0 0 81.0 369.0 49583.0 16.0 345.0 49473.0 t 0 0 0 0 0 0 0 0 0 0 0 60.0 0.0 21.0 9.0 48915.0 15.0
MA1993.2_shift11 (Neurod2)				; oligos_6nt_mkv3_m2 versus MA1993.2 (Neurod2); m=7/15; ncol2=6; w=0; offset=5; strand=D; shift=11; score=0.436145; -----------CAGCTG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 14.0 53280.0 8.0 17.0 0.0 39.0 c 0 0 0 0 0 0 0 0 0 0 0 53913.0 310.0 15.0 53984.0 434.0 58.0 g 0 0 0 0 0 0 0 0 0 0 0 58.0 434.0 53984.0 15.0 310.0 53913.0 t 0 0 0 0 0 0 0 0 0 0 0 39.0 0.0 17.0 8.0 53280.0 14.0
MA1635.2_shift11 (BHLHE22)				; oligos_6nt_mkv3_m2 versus MA1635.2 (BHLHE22); m=8/15; ncol2=6; w=0; offset=5; strand=D; shift=11; score=0.435372; -----------CAGCTG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0.0 18267.0 1.0 14.0 0.0 14.0 c 0 0 0 0 0 0 0 0 0 0 0 18331.0 37.0 53.0 18288.0 52.0 15.0 g 0 0 0 0 0 0 0 0 0 0 0 11.0 52.0 18288.0 53.0 37.0 18327.0 t 0 0 0 0 0 0 0 0 0 0 0 14.0 0.0 14.0 1.0 18267.0 0.0
MA2330.1_shift9 (ZBTB24)				; oligos_6nt_mkv3_m2 versus MA2330.1 (ZBTB24); m=9/15; ncol2=10; w=0; offset=3; strand=D; shift=9; score=0.431829; ---------cCCAGGAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 65.0 58.0 28.0 667.0 25.0 49.0 629.0 41.0 c 0 0 0 0 0 0 0 0 0 534.0 662.0 750.0 53.0 35.0 67.0 70.0 705.0 g 0 0 0 0 0 0 0 0 0 127.0 47.0 24.0 62.0 738.0 677.0 57.0 49.0 t 0 0 0 0 0 0 0 0 0 102.0 61.0 26.0 46.0 30.0 35.0 72.0 33.0
MA0521.3_shift11 (Tcf12)				; oligos_6nt_mkv3_m2 versus MA0521.3 (Tcf12); m=10/15; ncol2=6; w=0; offset=5; strand=D; shift=11; score=0.431104; -----------CAGCTG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 367.0 72283.0 836.0 1565.0 341.0 549.0 c 0 0 0 0 0 0 0 0 0 0 0 72674.0 739.0 1814.0 69780.0 632.0 402.0 g 0 0 0 0 0 0 0 0 0 0 0 404.0 632.0 69780.0 1814.0 738.0 72670.0 t 0 0 0 0 0 0 0 0 0 0 0 550.0 341.0 1565.0 836.0 72284.0 374.0
MA0056.3_shift5 (MZF1)				; oligos_6nt_mkv3_m2 versus MA0056.3 (MZF1); m=11/15; ncol2=8; w=-1; offset=-1; strand=D; shift=5; score=0.418211; -----AATCCCCA---- ; cor=; Ncor= a 0 0 0 0 0 5855.0 7149.0 106.0 100.0 135.0 111.0 117.0 6036.0 0 0 0 0 c 0 0 0 0 0 1016.0 426.0 56.0 7949.0 7939.0 7919.0 7673.0 611.0 0 0 0 0 g 0 0 0 0 0 999.0 385.0 98.0 100.0 54.0 58.0 83.0 484.0 0 0 0 0 t 0 0 0 0 0 372.0 282.0 7982.0 93.0 114.0 154.0 369.0 1111.0 0 0 0 0
MA0697.3_shift11 (Zic3)				; oligos_6nt_mkv3_m2 versus MA0697.3 (Zic3); m=12/15; ncol2=7; w=0; offset=5; strand=D; shift=11; score=0.412908; -----------CAGCAG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 345.0 23947.0 331.0 354.0 22980.0 393.0 c 0 0 0 0 0 0 0 0 0 0 0 25035.0 872.0 670.0 24272.0 568.0 500.0 g 0 0 0 0 0 0 0 0 0 0 0 460.0 759.0 24907.0 756.0 1768.0 24314.0 t 0 0 0 0 0 0 0 0 0 0 0 334.0 596.0 266.0 792.0 858.0 967.0
MA1628.2_shift11 (Zic1::Zic2)				; oligos_6nt_mkv3_m2 versus MA1628.2 (Zic1::Zic2); m=13/15; ncol2=7; w=0; offset=5; strand=D; shift=11; score=0.412843; -----------CAGCAG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 29.0 9238.0 96.0 75.0 8950.0 11.0 c 0 0 0 0 0 0 0 0 0 0 0 9594.0 384.0 195.0 9293.0 311.0 512.0 g 0 0 0 0 0 0 0 0 0 0 0 106.0 266.0 9527.0 96.0 627.0 9279.0 t 0 0 0 0 0 0 0 0 0 0 0 163.0 4.0 74.0 428.0 4.0 90.0
MA0734.4_shift4 (Gli2)				; oligos_6nt_mkv3_m2 versus MA0734.4 (Gli2); m=14/15; ncol2=9; w=-2; offset=-2; strand=D; shift=4; score=0.409914; ----GACCACCCA---- ; cor=; Ncor= a 0 0 0 0 60.0 1920.0 44.0 8.0 2216.0 9.0 313.0 59.0 2101.0 0 0 0 0 c 0 0 0 0 96.0 227.0 2404.0 2464.0 40.0 2451.0 2145.0 2288.0 85.0 0 0 0 0 g 0 0 0 0 2251.0 337.0 27.0 13.0 82.0 12.0 20.0 77.0 193.0 0 0 0 0 t 0 0 0 0 85.0 8.0 17.0 7.0 154.0 20.0 14.0 68.0 113.0 0 0 0 0
MA1573.2_shift0 (Thap11)				; oligos_6nt_mkv3_m2 versus MA1573.2 (Thap11); m=15/15; ncol2=14; w=-6; offset=-6; strand=D; shift=0; score=0.402665; ACTACAabTCCCAg--- ; cor=; Ncor= a 588.0 20.0 5.0 627.0 4.0 609.0 414.0 70.0 18.0 5.0 8.0 9.0 475.0 74.0 0 0 0 c 38.0 603.0 39.0 17.0 639.0 13.0 46.0 209.0 20.0 631.0 642.0 622.0 16.0 68.0 0 0 0 g 20.0 18.0 6.0 10.0 9.0 29.0 56.0 165.0 19.0 2.0 5.0 10.0 147.0 421.0 0 0 0 t 14.0 19.0 610.0 6.0 8.0 9.0 144.0 216.0 603.0 22.0 5.0 19.0 22.0 97.0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv4_m5_shift2 (oligos_7nt_mkv4_m5)				; oligos_7nt_mkv4_m5; m=0 (reference); ncol1=11; shift=2; ncol=13; --mwAAGTGCTrr ; Alignment reference a 0 0 60 81 182 186 8 6 10 13 14 61 62 c 0 0 56 36 6 8 4 4 3 191 2 28 37 g 0 0 44 27 6 6 197 1 187 2 2 79 62 t 0 0 52 68 18 12 3 201 12 6 194 44 51
MA0122.4_rc_shift2 (Nkx3-2_rc)				; oligos_7nt_mkv4_m5 versus MA0122.4_rc (Nkx3-2_rc); m=1/15; ncol2=10; w=0; offset=0; strand=R; shift=2; score=0.703344; --tTAAGTGktt- ; cor=; Ncor= a 0 0 2241.0 325.0 9919.0 10109.0 94.0 212.0 218.0 1033.0 2359.0 2088.0 0 c 0 0 1368.0 68.0 68.0 29.0 10.0 19.0 23.0 1504.0 1154.0 1466.0 0 g 0 0 991.0 147.0 138.0 32.0 9965.0 82.0 9900.0 5079.0 1109.0 952.0 0 t 0 0 5620.0 9680.0 95.0 50.0 151.0 9907.0 79.0 2604.0 5598.0 5714.0 0
MA0495.4_rc_shift3 (MAFF_rc)				; oligos_7nt_mkv4_m5 versus MA0495.4_rc (MAFF_rc); m=2/15; ncol2=11; w=0; offset=1; strand=R; shift=3; score=0.628007; ---aAAaTGCTGA ; cor=; Ncor= a 0 0 0 24063.0 28039.0 26745.0 21305.0 1690.0 694.0 2785.0 660.0 668.0 36393.0 c 0 0 0 2339.0 1498.0 1833.0 4442.0 1041.0 418.0 33923.0 444.0 330.0 409.0 g 0 0 0 4819.0 2423.0 2009.0 4360.0 559.0 36228.0 400.0 152.0 35020.0 369.0 t 0 0 0 6525.0 5786.0 7159.0 7639.0 34456.0 406.0 638.0 36490.0 1728.0 575.0
MA0672.2_rc_shift2 (NKX2-3_rc)				; oligos_7nt_mkv4_m5 versus MA0672.2_rc (NKX2-3_rc); m=3/15; ncol2=8; w=0; offset=0; strand=R; shift=2; score= 0.6116; --tyAAGTGs--- ; cor=; Ncor= a 0 0 2437.0 343.0 9278.0 9278.0 0.0 250.0 132.0 140.0 0 0 0 c 0 0 1831.0 5037.0 0.0 18.0 0.0 16.0 0.0 4499.0 0 0 0 g 0 0 917.0 1451.0 939.0 0.0 9278.0 98.0 9278.0 9278.0 0 0 0 t 0 0 9278.0 4241.0 0.0 0.0 8.0 9278.0 38.0 2025.0 0 0 0
MA2336.1_rc_shift5 (ZSCAN21_rc)				; oligos_7nt_mkv4_m5 versus MA2336.1_rc (ZSCAN21_rc); m=4/15; ncol2=7; w=0; offset=3; strand=R; shift=5; score=0.599243; -----AGTGCTT- ; cor=; Ncor= a 0 0 0 0 0 885.0 11.0 11.0 154.0 41.0 10.0 65.0 0 c 0 0 0 0 0 16.0 30.0 22.0 32.0 853.0 25.0 55.0 0 g 0 0 0 0 0 9.0 881.0 21.0 744.0 25.0 16.0 124.0 0 t 0 0 0 0 0 37.0 25.0 893.0 17.0 28.0 896.0 703.0 0
MA0117.3_shift3 (Mafb)				; oligos_7nt_mkv4_m5 versus MA0117.3 (Mafb); m=5/15; ncol2=11; w=0; offset=1; strand=D; shift=3; score=0.597188; ---awwwTGCTGA ; cor=; Ncor= a 0 0 0 1237.0 1263.0 1080.0 744.0 264.0 2.0 295.0 31.0 45.0 2182.0 c 0 0 0 174.0 121.0 216.0 398.0 618.0 14.0 2182.0 36.0 13.0 13.0 g 0 0 0 326.0 159.0 182.0 429.0 31.0 2182.0 5.0 2.0 2182.0 17.0 t 0 0 0 446.0 639.0 704.0 611.0 2182.0 5.0 7.0 2182.0 170.0 13.0
MA0673.2_rc_shift2 (NKX2-8_rc)				; oligos_7nt_mkv4_m5 versus MA0673.2_rc (NKX2-8_rc); m=6/15; ncol2=8; w=0; offset=0; strand=R; shift=2; score=0.595066; --TsRAGTGs--- ; cor=; Ncor= a 0 0 2158.0 271.0 8562.0 8562.0 110.0 516.0 2155.0 249.0 0 0 0 c 0 0 696.0 4286.0 0.0 0.0 0.0 0.0 0.0 2843.0 0 0 0 g 0 0 908.0 2267.0 3197.0 91.0 8562.0 595.0 8562.0 3529.0 0 0 0 t 0 0 8562.0 1738.0 23.0 0.0 14.0 8562.0 70.0 1942.0 0 0 0
MA0842.3_shift3 (NRL)				; oligos_7nt_mkv4_m5 versus MA0842.3 (NRL); m=7/15; ncol2=12; w=0; offset=1; strand=D; shift=3; score=0.573288; ---awwrTGCTGA ; cor=; Ncor= a 0 0 0 21189.0 17467.0 14033.0 6835.0 581.0 1.0 1008.0 0.0 73.0 27228.0 c 0 0 0 838.0 319.0 1314.0 5669.0 2768.0 0.0 27228.0 8.0 0.0 0.0 g 0 0 0 3685.0 635.0 822.0 7983.0 68.0 27228.0 22.0 0.0 27228.0 4.0 t 0 0 0 6039.0 9761.0 13194.0 6741.0 27228.0 0.0 14.0 27228.0 1036.0 0.0
MA2003.2_rc_shift2 (NKX2-4_rc)				; oligos_7nt_mkv4_m5 versus MA2003.2_rc (NKX2-4_rc); m=8/15; ncol2=8; w=0; offset=0; strand=R; shift=2; score=0.553145; --TsAAGTGg--- ; cor=; Ncor= a 0 0 153.0 58.0 1185.0 1185.0 0.0 207.0 129.0 61.0 0 0 0 c 0 0 57.0 640.0 13.0 1.0 0.0 17.0 7.0 485.0 0 0 0 g 0 0 56.0 545.0 409.0 25.0 1185.0 127.0 1185.0 1185.0 0 0 0 t 0 0 1185.0 243.0 52.0 0.0 0.0 1185.0 14.0 385.0 0 0 0
MA0124.3_rc_shift3 (Nkx3-1_rc)				; oligos_7nt_mkv4_m5 versus MA0124.3_rc (Nkx3-1_rc); m=9/15; ncol2=7; w=0; offset=1; strand=R; shift=3; score=0.528172; ---TAAGTGg--- ; cor=; Ncor= a 0 0 0 523.0 5335.0 5335.0 9.0 88.0 336.0 275.0 0 0 0 c 0 0 0 173.0 0.0 0.0 9.0 10.0 10.0 1776.0 0 0 0 g 0 0 0 273.0 254.0 1.0 5335.0 28.0 5335.0 5335.0 0 0 0 t 0 0 0 5335.0 0.0 0.0 59.0 5335.0 0.0 981.0 0 0 0
MA1994.2_rc_shift2 (Nkx2-1_rc)				; oligos_7nt_mkv4_m5 versus MA1994.2_rc (Nkx2-1_rc); m=10/15; ncol2=7; w=0; offset=0; strand=R; shift=2; score=0.52705; --TCAAGTG---- ; cor=; Ncor= a 0 0 541.0 518.0 15157.0 15106.0 316.0 343.0 886.0 0 0 0 0 c 0 0 213.0 14172.0 315.0 605.0 118.0 146.0 181.0 0 0 0 0 g 0 0 243.0 657.0 518.0 162.0 15640.0 275.0 14886.0 0 0 0 0 t 0 0 15245.0 895.0 252.0 369.0 168.0 15478.0 289.0 0 0 0 0
MA0914.2_rc_shift3 (ISL2_rc)				; oligos_7nt_mkv4_m5 versus MA0914.2_rc (ISL2_rc); m=11/15; ncol2=6; w=0; offset=1; strand=R; shift=3; score=0.494436; ---TAAkTG---- ; cor=; Ncor= a 0 0 0 1354.0 5631.0 5631.0 398.0 248.0 1019.0 0 0 0 0 c 0 0 0 59.0 13.0 169.0 171.0 134.0 126.0 0 0 0 0 g 0 0 0 206.0 718.0 130.0 5631.0 162.0 5631.0 0 0 0 0 t 0 0 0 5631.0 278.0 218.0 3161.0 5631.0 160.0 0 0 0 0
MA0063.3_rc_shift2 (NKX2-5_rc)				; oligos_7nt_mkv4_m5 versus MA0063.3_rc (NKX2-5_rc); m=12/15; ncol2=7; w=0; offset=0; strand=R; shift=2; score=0.44759; --TTGAGTG---- ; cor=; Ncor= a 0 0 250.0 288.0 841.0 5166.0 153.0 74.0 322.0 0 0 0 0 c 0 0 98.0 217.0 62.0 61.0 49.0 76.0 24.0 0 0 0 0 g 0 0 165.0 120.0 4319.0 82.0 5098.0 48.0 5002.0 0 0 0 0 t 0 0 4931.0 4819.0 222.0 135.0 144.0 5246.0 96.0 0 0 0 0
MA1106.2_shift4 (HIF1A)				; oligos_7nt_mkv4_m5 versus MA1106.2 (HIF1A); m=13/15; ncol2=6; w=0; offset=2; strand=D; shift=4; score=0.415926; ----ACGTGC--- ; cor=; Ncor= a 0 0 0 0 976.0 0.0 1.0 2.0 84.0 88.0 0 0 0 c 0 0 0 0 0.0 979.0 0.0 33.0 41.0 837.0 0 0 0 g 0 0 0 0 2.0 0.0 979.0 11.0 844.0 20.0 0 0 0 t 0 0 0 0 2.0 1.0 0.0 934.0 11.0 35.0 0 0 0
MA2329.1_rc_shift0 (ZBTB11_rc)				; oligos_7nt_mkv4_m5 versus MA2329.1_rc (ZBTB11_rc); m=14/15; ncol2=9; w=-2; offset=-2; strand=R; shift=0; score=0.402726; CCGGAAGTG---- ; cor=; Ncor= a 91.0 319.0 27.0 9.0 2293.0 2176.0 106.0 78.0 153.0 0 0 0 0 c 2030.0 1977.0 25.0 15.0 31.0 101.0 84.0 262.0 188.0 0 0 0 0 g 230.0 74.0 2328.0 2342.0 33.0 39.0 2192.0 120.0 1926.0 0 0 0 0 t 44.0 25.0 15.0 29.0 38.0 79.0 13.0 1935.0 128.0 0 0 0 0
MA0473.4_shift0 (ELF1)				; oligos_7nt_mkv4_m5 versus MA0473.4 (ELF1); m=15/15; ncol2=9; w=-2; offset=-2; strand=D; shift=0; score=0.401912; CAGGAAGTG---- ; cor=; Ncor= a 3094.0 42164.0 320.0 649.0 45930.0 45243.0 4063.0 3009.0 5688.0 0 0 0 0 c 37923.0 4038.0 421.0 505.0 796.0 705.0 1570.0 1993.0 4236.0 0 0 0 0 g 4819.0 932.0 46642.0 45970.0 676.0 779.0 41738.0 2007.0 34757.0 0 0 0 0 t 1934.0 636.0 387.0 646.0 368.0 1043.0 399.0 40761.0 3089.0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m3_shift0 (oligos_6nt_mkv3_m3)				; oligos_6nt_mkv3_m3; m=0 (reference); ncol1=15; shift=0; ncol=15; ssCgCCCCGCCCsss ; Alignment reference a 33 30 17 22 8 15 11 8 12 7 13 13 23 35 33 c 124 125 206 45 229 211 218 231 35 242 235 233 84 124 112 g 87 96 46 197 37 47 49 36 228 33 34 30 151 90 96 t 47 40 22 27 17 18 13 16 16 9 9 15 33 42 50
MA1961.2_rc_shift3 (PATZ1_rc)				; oligos_6nt_mkv3_m3 versus MA1961.2_rc (PATZ1_rc); m=1/28; ncol2=11; w=0; offset=3; strand=R; shift=3; score=0.658772; ---sCCCCkCCCCs- ; cor=; Ncor= a 0 0 0 34.0 1.0 1.0 1.0 1.0 155.0 1.0 1.0 1.0 24.0 44.0 0 c 0 0 0 523.0 944.0 964.0 957.0 997.0 1.0 997.0 997.0 727.0 680.0 543.0 0 g 0 0 0 392.0 1.0 34.0 41.0 1.0 489.0 1.0 1.0 78.0 228.0 288.0 0 t 0 0 0 51.0 54.0 1.0 1.0 1.0 355.0 1.0 1.0 195.0 68.0 125.0 0
MA2328.1_shift0 (ZBED4)				; oligos_6nt_mkv3_m3 versus MA2328.1 (ZBED4); m=2/28; ncol2=10; w=0; offset=0; strand=D; shift=0; score=0.632655; CcCGCyCCGC----- ; cor=; Ncor= a 41.0 26.0 29.0 17.0 6.0 11.0 14.0 12.0 22.0 19.0 0 0 0 0 0 c 479.0 419.0 549.0 14.0 621.0 391.0 598.0 604.0 19.0 589.0 0 0 0 0 0 g 80.0 65.0 62.0 608.0 26.0 28.0 34.0 23.0 580.0 35.0 0 0 0 0 0 t 60.0 150.0 20.0 21.0 7.0 230.0 14.0 21.0 39.0 17.0 0 0 0 0 0
MA0746.3_shift3 (SP3)				; oligos_6nt_mkv3_m3 versus MA0746.3 (SP3); m=3/28; ncol2=11; w=0; offset=3; strand=D; shift=3; score=0.597554; ---rCCACGCCCmC- ; cor=; Ncor= a 0 0 0 2146.0 664.0 160.0 5253.0 6.0 465.0 0.0 0.0 2.0 3430.0 556.0 0 c 0 0 0 531.0 6591.0 6591.0 1338.0 6591.0 0.0 6591.0 6591.0 6591.0 3160.0 5116.0 0 g 0 0 0 4445.0 226.0 54.0 2.0 0.0 6591.0 0.0 0.0 2.0 39.0 297.0 0 t 0 0 0 421.0 345.0 202.0 11.0 12.0 504.0 0.0 9.0 718.0 552.0 1475.0 0
MA0599.1_shift3 (KLF5)				; oligos_6nt_mkv3_m3 versus MA0599.1 (KLF5); m=4/28; ncol2=10; w=0; offset=3; strand=D; shift=3; score=0.584472; ---gCCMCrCCCh-- ; cor=; Ncor= a 0 0 0 1429.0 0.0 0.0 3477.0 0.0 5051.0 0.0 0.0 0.0 3915.0 0 0 c 0 0 0 2023.0 11900.0 12008.0 9569.0 13611.0 0.0 13611.0 13611.0 13135.0 5595.0 0 0 g 0 0 0 7572.0 0.0 0.0 0.0 0.0 5182.0 0.0 0.0 0.0 0.0 0 0 t 0 0 0 2587.0 1711.0 1603.0 565.0 0.0 3378.0 0.0 0.0 476.0 4101.0 0 0
MA0741.1_shift3 (KLF16)				; oligos_6nt_mkv3_m3 versus MA0741.1 (KLF16); m=5/28; ncol2=11; w=0; offset=3; strand=D; shift=3; score=0.579178; ---gmCMCgCCCMC- ; cor=; Ncor= a 0 0 0 666.0 901.0 62.0 1150.0 66.0 497.0 8.0 2.0 16.0 437.0 32.0 0 c 0 0 0 535.0 1612.0 1612.0 461.0 1612.0 173.0 1612.0 1612.0 1612.0 1175.0 1612.0 0 g 0 0 0 1612.0 77.0 6.0 32.0 17.0 1612.0 0.0 8.0 3.0 19.0 23.0 0 t 0 0 0 240.0 116.0 45.0 0.0 19.0 403.0 0.0 0.0 97.0 40.0 370.0 0
MA0742.2_rc_shift4 (KLF12_rc)				; oligos_6nt_mkv3_m3 versus MA0742.2_rc (KLF12_rc); m=6/28; ncol2=9; w=0; offset=4; strand=R; shift=4; score=0.559934; ----CCCCGCCCC-- ; cor=; Ncor= a 0 0 0 0 29.2208 0.649351 190.26 0.649351 0.649351 0.649351 0.649351 0.649351 187.662 0 0 c 0 0 0 0 969.481 930.519 725.325 998.052 0.649351 998.052 998.052 912.338 709.74 0 0 g 0 0 0 0 0.649351 0.649351 78.5714 0.649351 951.299 0.649351 0.649351 0.649351 0.649351 0 0 t 0 0 0 0 0.649351 68.1818 5.84416 0.649351 47.4026 0.649351 0.649351 86.3636 101.948 0 0
MA1564.2_shift4 (SP9)				; oligos_6nt_mkv3_m3 versus MA1564.2 (SP9); m=7/28; ncol2=10; w=0; offset=4; strand=D; shift=4; score=0.552271; ----cCmCGCCCmc- ; cor=; Ncor= a 0 0 0 0 566.0 321.0 2451.0 2.0 211.0 22.0 0.0 39.0 1192.0 188.0 0 c 0 0 0 0 2451.0 2451.0 1127.0 2451.0 200.0 2451.0 2451.0 2451.0 1259.0 1863.0 0 g 0 0 0 0 309.0 113.0 56.0 17.0 2451.0 0.0 0.0 24.0 38.0 191.0 0 t 0 0 0 0 518.0 284.0 96.0 9.0 173.0 14.0 30.0 412.0 353.0 588.0 0
MA0685.2_rc_shift4 (SP4_rc)				; oligos_6nt_mkv3_m3 versus MA0685.2_rc (SP4_rc); m=8/28; ncol2=9; w=0; offset=4; strand=R; shift=4; score=0.550988; ----CyCCKCCCc-- ; cor=; Ncor= a 0 0 0 0 0.686813 50.1374 77.6099 0.686813 0.686813 0.686813 0.686813 0.686813 195.742 0 0 c 0 0 0 0 997.94 660.027 921.016 997.94 0.686813 997.94 997.94 997.94 654.533 0 0 g 0 0 0 0 0.686813 0.686813 0.686813 0.686813 723.214 0.686813 0.686813 0.686813 0.686813 0 0 t 0 0 0 0 0.686813 289.148 0.686813 0.686813 275.412 0.686813 0.686813 0.686813 149.038 0 0
MA0747.2_shift4 (SP8)				; oligos_6nt_mkv3_m3 versus MA0747.2 (SP8); m=9/28; ncol2=11; w=0; offset=4; strand=D; shift=4; score=0.549572; ----mCACgCCCmCy ; cor=; Ncor= a 0 0 0 0 54.0 25.0 133.0 7.0 25.0 5.0 2.0 0.0 90.0 13.0 31.0 c 0 0 0 0 113.0 167.0 33.0 167.0 37.0 167.0 167.0 167.0 77.0 167.0 52.0 g 0 0 0 0 0.0 0.0 1.0 1.0 167.0 6.0 3.0 4.0 6.0 21.0 1.0 t 0 0 0 0 4.0 13.0 2.0 5.0 39.0 2.0 0.0 15.0 3.0 39.0 82.0
MA1511.2_rc_shift4 (KLF10_rc)				; oligos_6nt_mkv3_m3 versus MA1511.2_rc (KLF10_rc); m=10/28; ncol2=9; w=0; offset=4; strand=R; shift=4; score=0.549562; ----CCMCGCCCC-- ; cor=; Ncor= a 0 0 0 0 49.3528 26.699 253.236 0.809061 152.913 0.809061 0.809061 0.809061 104.369 0 0 c 0 0 0 0 884.304 906.958 693.366 997.573 0.809061 997.573 997.573 997.573 819.579 0 0 g 0 0 0 0 0.809061 0.809061 52.589 0.809061 803.398 0.809061 0.809061 0.809061 0.809061 0 0 t 0 0 0 0 65.534 65.534 0.809061 0.809061 42.8803 0.809061 0.809061 0.809061 75.2427 0 0
MA0740.2_rc_shift4 (KLF14_rc)				; oligos_6nt_mkv3_m3 versus MA0740.2_rc (KLF14_rc); m=11/28; ncol2=9; w=0; offset=4; strand=R; shift=4; score=0.548378; ----CCMCGCCCm-- ; cor=; Ncor= a 0 0 0 0 0.635877 0.635877 280.83 0.635877 90.067 0.635877 0.635877 0.635877 348.681 0 0 c 0 0 0 0 738.662 891.023 717.898 998.092 0.635877 998.092 998.092 998.092 619.525 0 0 g 0 0 0 0 62.0884 0.635877 0.635877 0.635877 814.392 0.635877 0.635877 0.635877 0.635877 0 0 t 0 0 0 0 198.614 107.705 0.635877 0.635877 94.9046 0.635877 0.635877 0.635877 31.158 0 0
MA0516.3_rc_shift4 (SP2_rc)				; oligos_6nt_mkv3_m3 versus MA0516.3_rc (SP2_rc); m=12/28; ncol2=9; w=0; offset=4; strand=R; shift=4; score=0.548197; ----cCCCGCCCC-- ; cor=; Ncor= a 0 0 0 0 18.3284 0.733138 24.1935 0.733138 0.733138 0.733138 0.733138 0.733138 79.912 0 0 c 0 0 0 0 610.704 877.566 974.34 997.801 0.733138 997.801 997.801 830.645 766.129 0 0 g 0 0 0 0 164.956 0.733138 0.733138 0.733138 886.364 0.733138 0.733138 0.733138 0.733138 0 0 t 0 0 0 0 206.012 120.968 0.733138 0.733138 112.17 0.733138 0.733138 167.889 153.226 0 0
MA1653.2_shift4 (ZNF148)				; oligos_6nt_mkv3_m3 versus MA1653.2 (ZNF148); m=13/28; ncol2=10; w=0; offset=4; strand=D; shift=4; score=0.543971; ----CCCCTCCCcc- ; cor=; Ncor= a 0 0 0 0 82.0 132.0 136.0 89.0 133.0 66.0 352.0 442.0 846.0 841.0 0 c 0 0 0 0 10799.0 10396.0 10526.0 10833.0 14.0 10954.0 9922.0 9283.0 7239.0 7114.0 0 g 0 0 0 0 205.0 471.0 401.0 211.0 1012.0 112.0 460.0 392.0 1924.0 2064.0 0 t 0 0 0 0 113.0 200.0 136.0 66.0 10040.0 67.0 465.0 1082.0 1190.0 1180.0 0
MA0079.5_rc_shift4 (SP1_rc)				; oligos_6nt_mkv3_m3 versus MA0079.5_rc (SP1_rc); m=14/28; ncol2=9; w=0; offset=4; strand=R; shift=4; score=0.538157; ----CyCCKCCCC-- ; cor=; Ncor= a 0 0 0 0 1.05485 34.8101 1.05485 1.05485 1.05485 1.05485 1.05485 1.05485 47.4684 0 0 c 0 0 0 0 836.498 659.283 912.447 996.835 1.05485 996.835 996.835 996.835 950.422 0 0 g 0 0 0 0 1.05485 51.6878 85.443 1.05485 731.013 1.05485 1.05485 1.05485 1.05485 0 0 t 0 0 0 0 161.392 254.219 1.05485 1.05485 266.878 1.05485 1.05485 1.05485 1.05485 0 0
MA1630.3_rc_shift4 (ZNF281_rc)				; oligos_6nt_mkv3_m3 versus MA1630.3_rc (ZNF281_rc); m=15/28; ncol2=10; w=0; offset=4; strand=R; shift=4; score=0.525646; ----CCCCTCCCCC- ; cor=; Ncor= a 0 0 0 0 7.0 18.0 1.0 105.0 96.0 1.0 1.0 1.0 1.0 1.0 0 c 0 0 0 0 920.0 940.0 998.0 772.0 1.0 998.0 998.0 963.0 998.0 998.0 0 g 0 0 0 0 27.0 1.0 1.0 1.0 183.0 1.0 1.0 1.0 1.0 1.0 0 t 0 0 0 0 47.0 41.0 1.0 122.0 720.0 1.0 1.0 35.0 1.0 1.0 0
MA1513.2_shift4 (KLF15)				; oligos_6nt_mkv3_m3 versus MA1513.2 (KLF15); m=16/28; ncol2=8; w=0; offset=4; strand=D; shift=4; score=0.519215; ----cCCCGCCC--- ; cor=; Ncor= a 0 0 0 0 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 0 0 0 c 0 0 0 0 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 0 0 0 g 0 0 0 0 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 0 0 0 t 0 0 0 0 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0 0 0 0
MA1959.2_rc_shift4 (KLF7_rc)				; oligos_6nt_mkv3_m3 versus MA1959.2_rc (KLF7_rc); m=17/28; ncol2=8; w=0; offset=4; strand=R; shift=4; score=0.515481; ----CcMCGCCC--- ; cor=; Ncor= a 0 0 0 0 1.0 167.0 254.0 1.0 167.0 1.0 1.0 1.0 0 0 0 c 0 0 0 0 997.0 642.0 720.0 997.0 1.0 997.0 997.0 997.0 0 0 0 g 0 0 0 0 1.0 42.0 25.0 1.0 788.0 1.0 1.0 1.0 0 0 0 t 0 0 0 0 1.0 150.0 1.0 1.0 45.0 1.0 1.0 1.0 0 0 0
MA1516.2_shift2 (KLF3)				; oligos_6nt_mkv3_m3 versus MA1516.2 (KLF3); m=18/28; ncol2=10; w=0; offset=2; strand=D; shift=2; score=0.512163; --grCCrCGCCC--- ; cor=; Ncor= a 0 0 7717.0 24771.0 1442.0 298.0 26757.0 2261.0 4245.0 202.0 83.0 77.0 0 0 0 c 0 0 2655.0 615.0 43259.0 43259.0 707.0 43259.0 334.0 43259.0 43259.0 43259.0 0 0 0 g 0 0 26568.0 18489.0 1954.0 248.0 16503.0 21.0 43259.0 31.0 29.0 48.0 0 0 0 t 0 0 6319.0 207.0 705.0 335.0 419.0 1409.0 1212.0 0.0 0.0 1218.0 0 0 0
MA1512.2_shift4 (KLF11)				; oligos_6nt_mkv3_m3 versus MA1512.2 (KLF11); m=19/28; ncol2=10; w=0; offset=4; strand=D; shift=4; score=0.507124; ----cCACGCCCmC- ; cor=; Ncor= a 0 0 0 0 2022.0 650.0 8655.0 0.0 2426.0 11.0 1.0 0.0 4689.0 581.0 0 c 0 0 0 0 5549.0 8662.0 1289.0 9142.0 52.0 9161.0 9166.0 8941.0 4226.0 8403.0 0 g 0 0 0 0 401.0 156.0 115.0 0.0 8291.0 18.0 20.0 4.0 69.0 358.0 0 t 0 0 0 0 1192.0 506.0 27.0 38.0 349.0 23.0 7.0 885.0 761.0 1281.0 0
MA0753.3_shift4 (ZNF740)				; oligos_6nt_mkv3_m3 versus MA0753.3 (ZNF740); m=20/28; ncol2=10; w=0; offset=4; strand=D; shift=4; score=0.505947; ----CCCCCCCCAc- ; cor=; Ncor= a 0 0 0 0 60.0 110.0 18.0 22.0 23.0 10.0 2.0 115.0 1055.0 207.0 0 c 0 0 0 0 1055.0 1055.0 1055.0 1055.0 1055.0 1055.0 1055.0 1055.0 239.0 1055.0 0 g 0 0 0 0 37.0 14.0 4.0 7.0 3.0 7.0 3.0 6.0 68.0 54.0 0 t 0 0 0 0 49.0 1.0 16.0 15.0 11.0 6.0 3.0 4.0 134.0 246.0 0
MA0493.3_rc_shift4 (KLF1_rc)				; oligos_6nt_mkv3_m3 versus MA0493.3_rc (KLF1_rc); m=21/28; ncol2=8; w=0; offset=4; strand=R; shift=4; score=0.502357; ----CCmCrCCC--- ; cor=; Ncor= a 0 0 0 0 1.0 21.0 324.0 1.0 346.0 1.0 1.0 1.0 0 0 0 c 0 0 0 0 998.0 896.0 675.0 998.0 1.0 998.0 998.0 998.0 0 0 0 g 0 0 0 0 1.0 1.0 1.0 1.0 529.0 1.0 1.0 1.0 0 0 0 t 0 0 0 0 1.0 82.0 1.0 1.0 125.0 1.0 1.0 1.0 0 0 0
MA1515.2_shift4 (KLF2)				; oligos_6nt_mkv3_m3 versus MA1515.2 (KLF2); m=22/28; ncol2=8; w=0; offset=4; strand=D; shift=4; score=0.47261; ----CCmCrCCC--- ; cor=; Ncor= a 0 0 0 0 741.0 403.0 4622.0 0.0 1702.0 0.0 128.0 68.0 0 0 0 c 0 0 0 0 4622.0 4622.0 2265.0 4622.0 274.0 4622.0 4622.0 4622.0 0 0 0 g 0 0 0 0 495.0 186.0 1060.0 0.0 2920.0 49.0 195.0 105.0 0 0 0 t 0 0 0 0 346.0 312.0 214.0 78.0 167.0 22.0 9.0 444.0 0 0 0
MA1517.2_shift4 (KLF6)				; oligos_6nt_mkv3_m3 versus MA1517.2 (KLF6); m=23/28; ncol2=9; w=0; offset=4; strand=D; shift=4; score=0.459465; ----cCACRCCCm-- ; cor=; Ncor= a 0 0 0 0 569.0 432.0 2192.0 0.0 1024.0 0.0 25.0 71.0 955.0 0 0 c 0 0 0 0 2192.0 2192.0 284.0 2192.0 0.0 2192.0 2192.0 2192.0 665.0 0 0 g 0 0 0 0 332.0 298.0 60.0 0.0 2192.0 0.0 60.0 12.0 52.0 0 0 t 0 0 0 0 219.0 140.0 60.0 24.0 0.0 0.0 0.0 64.0 520.0 0 0
MA0039.5_shift4 (KLF4)				; oligos_6nt_mkv3_m3 versus MA0039.5 (KLF4); m=24/28; ncol2=8; w=0; offset=4; strand=D; shift=4; score=0.450733; ----CCCCACCC--- ; cor=; Ncor= a 0 0 0 0 2465.0 2105.0 7021.0 1173.0 45602.0 852.0 1617.0 1202.0 0 0 0 c 0 0 0 0 49209.0 47865.0 45405.0 52875.0 161.0 52366.0 51112.0 51045.0 0 0 0 g 0 0 0 0 1583.0 1214.0 1422.0 793.0 6598.0 1470.0 1870.0 1005.0 0 0 0 t 0 0 0 0 2560.0 4633.0 1969.0 976.0 3456.0 1129.0 1218.0 2565.0 0 0 0
MA0162.5_shift6 (EGR1)				; oligos_6nt_mkv3_m3 versus MA0162.5 (EGR1); m=25/28; ncol2=10; w=0; offset=6; strand=D; shift=6; score=0.428341; ------mCGCCCACg ; cor=; Ncor= a 0 0 0 0 0 0 14508.0 642.0 5110.0 227.0 1440.0 314.0 22297.0 153.0 4696.0 c 0 0 0 0 0 0 10303.0 28403.0 1131.0 29338.0 27321.0 28958.0 5420.0 29507.0 2806.0 g 0 0 0 0 0 0 3854.0 756.0 22237.0 665.0 1455.0 698.0 2122.0 699.0 20544.0 t 0 0 0 0 0 0 1933.0 797.0 2120.0 368.0 382.0 628.0 759.0 239.0 2552.0
MA1522.2_shift4 (MAZ)				; oligos_6nt_mkv3_m3 versus MA1522.2 (MAZ); m=26/28; ncol2=8; w=0; offset=4; strand=D; shift=4; score=0.425584; ----CCCCTCCc--- ; cor=; Ncor= a 0 0 0 0 17.0 49.0 36.0 39.0 6.0 90.0 23.0 1109.0 0 0 0 c 0 0 0 0 14945.0 14630.0 14731.0 14676.0 0.0 14961.0 14944.0 9372.0 0 0 0 g 0 0 0 0 75.0 384.0 290.0 347.0 130.0 8.0 96.0 1768.0 0 0 0 t 0 0 0 0 26.0 0.0 6.0 1.0 14927.0 4.0 0.0 2814.0 0 0 0
MA0733.2_shift6 (EGR4)				; oligos_6nt_mkv3_m3 versus MA0733.2 (EGR4); m=27/28; ncol2=11; w=0; offset=6; strand=D; shift=6; score=0.409817; ------mCGCCCACG ; cor=; Ncor= a 0 0 0 0 0 0 2745.0 101.0 556.0 11.0 120.0 0.0 4500.0 44.0 233.0 c 0 0 0 0 0 0 1924.0 4466.0 475.0 4447.0 4448.0 4403.0 1055.0 4402.0 1793.0 g 0 0 0 0 0 0 151.0 150.0 7053.0 63.0 107.0 110.0 348.0 114.0 6862.0 t 0 0 0 0 0 0 158.0 319.0 707.0 88.0 76.0 131.0 363.0 245.0 253.0
MA0732.2_shift6 (EGR3)				; oligos_6nt_mkv3_m3 versus MA0732.2 (EGR3); m=28/28; ncol2=11; w=0; offset=6; strand=D; shift=6; score=0.401317; ------mCGCCCMCG ; cor=; Ncor= a 0 0 0 0 0 0 1031.0 2.0 66.0 0.0 0.0 0.0 1159.0 0.0 39.0 c 0 0 0 0 0 0 701.0 1855.0 32.0 1856.0 1858.0 1823.0 455.0 1875.0 28.0 g 0 0 0 0 0 0 10.0 0.0 2158.0 2.0 0.0 7.0 11.0 7.0 2152.0 t 0 0 0 0 0 0 20.0 13.0 36.0 0.0 10.0 80.0 4.0 2.0 26.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m4_shift1 (oligos_6nt_mkv3_m4)				; oligos_6nt_mkv3_m4; m=0 (reference); ncol1=11; shift=1; ncol=12; -ssGCGCCGCss ; Alignment reference a 0 41 47 7 8 8 8 9 13 13 35 35 c 0 132 113 34 279 46 250 253 21 255 141 114 g 0 93 100 254 18 243 42 39 261 31 102 109 t 0 42 48 13 3 11 8 7 13 9 30 50
MA2328.1_shift0 (ZBED4)				; oligos_6nt_mkv3_m4 versus MA2328.1 (ZBED4); m=1/10; ncol2=10; w=-1; offset=-1; strand=D; shift=0; score=0.628028; CcCGCyCCGC-- ; cor=; Ncor= a 41.0 26.0 29.0 17.0 6.0 11.0 14.0 12.0 22.0 19.0 0 0 c 479.0 419.0 549.0 14.0 621.0 391.0 598.0 604.0 19.0 589.0 0 0 g 80.0 65.0 62.0 608.0 26.0 28.0 34.0 23.0 580.0 35.0 0 0 t 60.0 150.0 20.0 21.0 7.0 230.0 14.0 21.0 39.0 17.0 0 0
MA1713.2_shift3 (ZNF610)				; oligos_6nt_mkv3_m4 versus MA1713.2 (ZNF610); m=2/10; ncol2=10; w=0; offset=2; strand=D; shift=3; score=0.552671; ---scGCCGCTC ; cor=; Ncor= a 0 0 0 176.0 354.0 68.0 37.0 18.0 18.0 4.0 18.0 6.0 c 0 0 0 1222.0 1347.0 121.0 2245.0 2312.0 45.0 2357.0 34.0 2315.0 g 0 0 0 738.0 392.0 2118.0 84.0 41.0 2312.0 21.0 45.0 62.0 t 0 0 0 250.0 293.0 79.0 20.0 15.0 11.0 4.0 2289.0 3.0
MA1959.2_rc_shift4 (KLF7_rc)				; oligos_6nt_mkv3_m4 versus MA1959.2_rc (KLF7_rc); m=3/10; ncol2=8; w=0; offset=3; strand=R; shift=4; score=0.549378; ----CcMCGCCC ; cor=; Ncor= a 0 0 0 0 1.0 167.0 254.0 1.0 167.0 1.0 1.0 1.0 c 0 0 0 0 997.0 642.0 720.0 997.0 1.0 997.0 997.0 997.0 g 0 0 0 0 1.0 42.0 25.0 1.0 788.0 1.0 1.0 1.0 t 0 0 0 0 1.0 150.0 1.0 1.0 45.0 1.0 1.0 1.0
MA1513.2_shift4 (KLF15)				; oligos_6nt_mkv3_m4 versus MA1513.2 (KLF15); m=4/10; ncol2=8; w=0; offset=3; strand=D; shift=4; score=0.52124; ----cCCCGCCC ; cor=; Ncor= a 0 0 0 0 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 c 0 0 0 0 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 g 0 0 0 0 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 t 0 0 0 0 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0
MA1727.2_rc_shift1 (ZNF417_rc)				; oligos_6nt_mkv3_m4 versus MA1727.2_rc (ZNF417_rc); m=5/10; ncol2=7; w=0; offset=0; strand=R; shift=1; score=0.51636; -TGGCGCC---- ; cor=; Ncor= a 0 1.0 13.0 7.0 1.0 55.0 1.0 1.0 0 0 0 0 c 0 1.0 1.0 1.0 996.0 1.0 996.0 996.0 0 0 0 0 g 0 13.0 954.0 990.0 1.0 936.0 1.0 1.0 0 0 0 0 t 0 984.0 31.0 1.0 1.0 7.0 1.0 1.0 0 0 0 0
MA0685.2_rc_shift4 (SP4_rc)				; oligos_6nt_mkv3_m4 versus MA0685.2_rc (SP4_rc); m=6/10; ncol2=9; w=0; offset=3; strand=R; shift=4; score=0.502543; ----CyCCKCCC ; cor=; Ncor= a 0 0 0 0 0.686813 50.1374 77.6099 0.686813 0.686813 0.686813 0.686813 0.686813 c 0 0 0 0 997.94 660.027 921.016 997.94 0.686813 997.94 997.94 997.94 g 0 0 0 0 0.686813 0.686813 0.686813 0.686813 723.214 0.686813 0.686813 0.686813 t 0 0 0 0 0.686813 289.148 0.686813 0.686813 275.412 0.686813 0.686813 0.686813
MA0079.5_rc_shift4 (SP1_rc)				; oligos_6nt_mkv3_m4 versus MA0079.5_rc (SP1_rc); m=7/10; ncol2=9; w=0; offset=3; strand=R; shift=4; score=0.500756; ----CyCCKCCC ; cor=; Ncor= a 0 0 0 0 1.05485 34.8101 1.05485 1.05485 1.05485 1.05485 1.05485 1.05485 c 0 0 0 0 836.498 659.283 912.447 996.835 1.05485 996.835 996.835 996.835 g 0 0 0 0 1.05485 51.6878 85.443 1.05485 731.013 1.05485 1.05485 1.05485 t 0 0 0 0 161.392 254.219 1.05485 1.05485 266.878 1.05485 1.05485 1.05485
MA0742.2_rc_shift4 (KLF12_rc)				; oligos_6nt_mkv3_m4 versus MA0742.2_rc (KLF12_rc); m=8/10; ncol2=9; w=0; offset=3; strand=R; shift=4; score=0.499257; ----CCCCGCCC ; cor=; Ncor= a 0 0 0 0 29.2208 0.649351 190.26 0.649351 0.649351 0.649351 0.649351 0.649351 c 0 0 0 0 969.481 930.519 725.325 998.052 0.649351 998.052 998.052 912.338 g 0 0 0 0 0.649351 0.649351 78.5714 0.649351 951.299 0.649351 0.649351 0.649351 t 0 0 0 0 0.649351 68.1818 5.84416 0.649351 47.4026 0.649351 0.649351 86.3636
MA0516.3_rc_shift4 (SP2_rc)				; oligos_6nt_mkv3_m4 versus MA0516.3_rc (SP2_rc); m=9/10; ncol2=9; w=0; offset=3; strand=R; shift=4; score=0.485368; ----cCCCGCCC ; cor=; Ncor= a 0 0 0 0 18.3284 0.733138 24.1935 0.733138 0.733138 0.733138 0.733138 0.733138 c 0 0 0 0 610.704 877.566 974.34 997.801 0.733138 997.801 997.801 830.645 g 0 0 0 0 164.956 0.733138 0.733138 0.733138 886.364 0.733138 0.733138 0.733138 t 0 0 0 0 206.012 120.968 0.733138 0.733138 112.17 0.733138 0.733138 167.889
MA1511.2_rc_shift4 (KLF10_rc)				; oligos_6nt_mkv3_m4 versus MA1511.2_rc (KLF10_rc); m=10/10; ncol2=9; w=0; offset=3; strand=R; shift=4; score=0.477347; ----CCMCGCCC ; cor=; Ncor= a 0 0 0 0 49.3528 26.699 253.236 0.809061 152.913 0.809061 0.809061 0.809061 c 0 0 0 0 884.304 906.958 693.366 997.573 0.809061 997.573 997.573 997.573 g 0 0 0 0 0.809061 0.809061 52.589 0.809061 803.398 0.809061 0.809061 0.809061 t 0 0 0 0 65.534 65.534 0.809061 0.809061 42.8803 0.809061 0.809061 0.809061

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv4_m4_shift3 (oligos_7nt_mkv4_m4)				; oligos_7nt_mkv4_m4; m=0 (reference); ncol1=11; shift=3; ncol=14; ---dtAAAGGCAyr ; Alignment reference a 0 0 0 52 44 181 150 181 3 16 4 187 39 66 c 0 0 0 30 30 3 25 3 3 2 179 0 50 33 g 0 0 0 49 30 1 4 2 179 162 3 3 38 49 t 0 0 0 63 90 9 15 8 9 14 8 4 67 46
MA0676.1_shift4 (Nr2e1)				; oligos_7nt_mkv4_m4 versus MA0676.1 (Nr2e1); m=1/7; ncol2=9; w=0; offset=1; strand=D; shift=4; score=0.599264; ----aaAAGTCAA- ; cor=; Ncor= a 0 0 0 0 1118.0 1118.0 1118.0 1118.0 40.0 0.0 11.0 1118.0 1118.0 0 c 0 0 0 0 244.0 89.0 1.0 0.0 0.0 58.0 1118.0 0.0 131.0 0 g 0 0 0 0 191.0 448.0 101.0 74.0 1118.0 0.0 12.0 0.0 117.0 0 t 0 0 0 0 401.0 369.0 19.0 5.0 8.0 1118.0 112.0 0.0 247.0 0
MA0768.3_rc_shift2 (Lef1_rc)				; oligos_7nt_mkv4_m4 versus MA0768.3_rc (Lef1_rc); m=2/7; ncol2=8; w=-1; offset=-1; strand=R; shift=2; score=0.48662; --ATCAAAGG---- ; cor=; Ncor= a 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 51.0 25.0 882.0 15.0 39.0 14.0 21.0 130.0 0 0 0 0 g 0 0 28.0 28.0 75.0 18.0 47.0 19.0 989.0 788.0 0 0 0 0 t 0 0 130.0 987.0 73.0 18.0 19.0 12.0 26.0 73.0 0 0 0 0
MA2002.2_shift5 (Zfp335)				; oligos_7nt_mkv4_m4 versus MA2002.2 (Zfp335); m=3/7; ncol2=7; w=0; offset=2; strand=D; shift=5; score=0.451937; -----tCAGGCA-- ; cor=; Ncor= a 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 5.0 82.0 3.0 2.0 0.0 81.0 1.0 0 0 g 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 52.0 0.0 3.0 1.0 2.0 0.0 1.0 0 0
MA1730.2_rc_shift7 (ZNF708_rc)				; oligos_7nt_mkv4_m4 versus MA1730.2_rc (ZNF708_rc); m=4/7; ncol2=9; w=0; offset=4; strand=R; shift=7; score=0.427426; -------AGGyACA ; cor=; Ncor= a 0 0 0 0 0 0 0 800.0 5.0 24.0 6.0 791.0 2.0 780.0 c 0 0 0 0 0 0 0 13.0 12.0 49.0 436.0 19.0 827.0 8.0 g 0 0 0 0 0 0 0 31.0 828.0 771.0 4.0 28.0 7.0 54.0 t 0 0 0 0 0 0 0 5.0 4.0 5.0 403.0 11.0 13.0 7.0
MA0442.3_shift3 (SOX10)				; oligos_7nt_mkv4_m4 versus MA0442.3 (SOX10); m=5/7; ncol2=6; w=0; offset=0; strand=D; shift=3; score=0.421309; ---ACAAAG----- ; cor=; Ncor= a 0 0 0 2023.0 3.0 2029.0 1968.0 1959.0 10.0 0 0 0 0 0 c 0 0 0 4.0 1989.0 7.0 28.0 23.0 13.0 0 0 0 0 0 g 0 0 0 3.0 11.0 7.0 20.0 12.0 2012.0 0 0 0 0 0 t 0 0 0 25.0 52.0 12.0 39.0 61.0 20.0 0 0 0 0 0
MA1991.2_rc_shift0 (Hnf1A_rc)				; oligos_7nt_mkv4_m4 versus MA1991.2_rc (Hnf1A_rc); m=6/7; ncol2=10; w=-3; offset=-3; strand=R; shift=0; score=0.407055; asATCAAAGg---- ; cor=; Ncor= a 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 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 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 156.0 85.0 105.0 1125.0 30.0 16.0 16.0 19.0 18.0 103.0 0 0 0 0
MA0738.2_rc_shift7 (HIC2_rc)				; oligos_7nt_mkv4_m4 versus MA0738.2_rc (HIC2_rc); m=7/7; ncol2=6; w=0; offset=4; strand=R; shift=7; score=0.404179; -------KGGCAy- ; cor=; Ncor= a 0 0 0 0 0 0 0 0.0 59.0 0.0 151.0 4891.0 367.0 0 c 0 0 0 0 0 0 0 0.0 0.0 14.0 4891.0 0.0 2285.0 0 g 0 0 0 0 0 0 0 3425.0 4891.0 4891.0 354.0 117.0 394.0 0 t 0 0 0 0 0 0 0 1466.0 435.0 23.0 494.0 0.0 2606.0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv4_m2_shift2 (oligos_7nt_mkv4_m2)				; oligos_7nt_mkv4_m2; m=0 (reference); ncol1=13; shift=2; ncol=15; --ctrGGATTACAgg ; Alignment reference a 0 0 28 30 47 6 5 157 2 5 157 3 158 37 33 c 0 0 91 16 9 3 6 2 14 4 8 153 5 13 23 g 0 0 21 32 94 154 156 5 4 8 3 8 3 85 87 t 0 0 33 95 23 10 6 9 153 156 5 9 7 38 30
MA1720.2_shift4 (ZNF85)				; oligos_7nt_mkv4_m2 versus MA1720.2 (ZNF85); m=1/16; ncol2=12; w=0; offset=2; strand=D; shift=4; score=0.586768; ----rAGATTaCwkC ; cor=; Ncor= a 0 0 0 0 155.0 488.0 4.0 573.0 5.0 7.0 395.0 2.0 323.0 28.0 12.0 c 0 0 0 0 66.0 4.0 5.0 2.0 2.0 5.0 136.0 578.0 15.0 21.0 544.0 g 0 0 0 0 328.0 71.0 571.0 5.0 12.0 3.0 42.0 3.0 27.0 308.0 14.0 t 0 0 0 0 35.0 21.0 4.0 4.0 565.0 569.0 11.0 1.0 219.0 227.0 14.0
MA0883.2_shift1 (Dmbx1)				; oligos_7nt_mkv4_m2 versus MA0883.2 (Dmbx1); m=2/16; ncol2=10; w=-1; offset=-1; strand=D; shift=1; score=0.573603; -rwmmGGATTA---- ; cor=; Ncor= a 0 49.0 49.0 25.0 28.0 6.0 0.0 94.0 0.0 1.0 97.0 0 0 0 0 c 0 8.0 8.0 36.0 50.0 1.0 1.0 6.0 0.0 1.0 0.0 0 0 0 0 g 0 31.0 13.0 18.0 20.0 93.0 99.0 0.0 0.0 0.0 0.0 0 0 0 0 t 0 12.0 30.0 21.0 3.0 0.0 0.0 0.0 99.0 98.0 3.0 0 0 0 0
MA0019.2_rc_shift4 (Ddit3::Cebpa_rc)				; oligos_7nt_mkv4_m2 versus MA0019.2_rc (Ddit3::Cebpa_rc); m=3/16; ncol2=10; w=0; offset=2; strand=R; shift=4; score=0.569678; ----ggkATTGCAy- ; cor=; Ncor= a 0 0 0 0 7.0 3.0 3.0 33.0 0.0 0.0 2.0 1.0 38.0 3.0 0 c 0 0 0 0 6.0 9.0 5.0 0.0 1.0 0.0 0.0 38.0 0.0 15.0 0 g 0 0 0 0 26.0 23.0 17.0 6.0 2.0 1.0 33.0 0.0 1.0 3.0 0 t 0 0 0 0 0.0 4.0 14.0 0.0 36.0 38.0 4.0 0.0 0.0 18.0 0
MA1547.2_rc_shift4 (PITX2_rc)				; oligos_7nt_mkv4_m2 versus MA1547.2_rc (PITX2_rc); m=4/16; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.539173; ----rGGATTAr--- ; cor=; Ncor= a 0 0 0 0 2222.0 189.0 0.0 8019.0 0.0 0.0 8019.0 3859.0 0 0 0 c 0 0 0 0 786.0 0.0 0.0 668.0 0.0 0.0 0.0 454.0 0 0 0 g 0 0 0 0 4129.0 8019.0 8019.0 0.0 0.0 0.0 51.0 2782.0 0 0 0 t 0 0 0 0 881.0 0.0 0.0 0.0 8019.0 8019.0 0.0 924.0 0 0 0
MA0712.3_shift4 (OTX2)				; oligos_7nt_mkv4_m2 versus MA0712.3 (OTX2); m=5/16; ncol2=7; w=0; offset=2; strand=D; shift=4; score=0.536674; ----rGGATTA---- ; cor=; Ncor= a 0 0 0 0 37155.0 5435.0 2918.0 116411.0 765.0 1913.0 114798.0 0 0 0 0 c 0 0 0 0 5322.0 827.0 1620.0 2220.0 598.0 1771.0 636.0 0 0 0 0 g 0 0 0 0 55814.0 111741.0 113842.0 706.0 787.0 1407.0 1302.0 0 0 0 0 t 0 0 0 0 22388.0 2676.0 2299.0 1342.0 118529.0 115588.0 3943.0 0 0 0 0
MA0056.3_rc_shift2 (MZF1_rc)				; oligos_7nt_mkv4_m2 versus MA0056.3_rc (MZF1_rc); m=6/16; ncol2=8; w=0; offset=0; strand=R; shift=2; score=0.484168; --TGGGGATT----- ; cor=; Ncor= a 0 0 1111.0 369.0 154.0 114.0 93.0 7982.0 282.0 372.0 0 0 0 0 0 c 0 0 484.0 83.0 58.0 54.0 100.0 98.0 385.0 999.0 0 0 0 0 0 g 0 0 611.0 7673.0 7919.0 7939.0 7949.0 56.0 426.0 1016.0 0 0 0 0 0 t 0 0 6036.0 117.0 111.0 135.0 100.0 106.0 7149.0 5855.0 0 0 0 0 0
MA0467.3_shift5 (Crx)				; oligos_7nt_mkv4_m2 versus MA0467.3 (Crx); m=7/16; ncol2=6; w=0; offset=3; strand=D; shift=5; score=0.461031; -----GGATTA---- ; cor=; Ncor= a 0 0 0 0 0 19.0 26.0 4227.0 11.0 50.0 4241.0 0 0 0 0 c 0 0 0 0 0 155.0 36.0 17.0 32.0 25.0 25.0 0 0 0 0 g 0 0 0 0 0 4129.0 4200.0 42.0 9.0 20.0 23.0 0 0 0 0 t 0 0 0 0 0 30.0 71.0 47.0 4281.0 4238.0 44.0 0 0 0 0
MA0682.3_rc_shift5 (PITX1_rc)				; oligos_7nt_mkv4_m2 versus MA0682.3_rc (PITX1_rc); m=8/16; ncol2=6; w=0; offset=3; strand=R; shift=5; score=0.459932; -----GGATTA---- ; cor=; Ncor= a 0 0 0 0 0 547.0 141.0 10531.0 0.0 0.0 10531.0 0 0 0 0 c 0 0 0 0 0 134.0 0.0 1039.0 0.0 0.0 0.0 0 0 0 0 g 0 0 0 0 0 10531.0 10531.0 0.0 0.0 0.0 0.0 0 0 0 0 t 0 0 0 0 0 68.0 143.0 0.0 10531.0 10531.0 0.0 0 0 0 0
MA0714.2_rc_shift5 (PITX3_rc)				; oligos_7nt_mkv4_m2 versus MA0714.2_rc (PITX3_rc); m=9/16; ncol2=6; w=0; offset=3; strand=R; shift=5; score=0.456757; -----GGATTA---- ; cor=; Ncor= a 0 0 0 0 0 968.0 236.0 6253.0 0.0 158.0 6253.0 0 0 0 0 c 0 0 0 0 0 239.0 166.0 1101.0 15.0 260.0 9.0 0 0 0 0 g 0 0 0 0 0 6253.0 6253.0 138.0 0.0 32.0 51.0 0 0 0 0 t 0 0 0 0 0 227.0 318.0 262.0 6253.0 6253.0 493.0 0 0 0 0
MA0648.2_rc_shift5 (GSC_rc)				; oligos_7nt_mkv4_m2 versus MA0648.2_rc (GSC_rc); m=10/16; ncol2=6; w=0; offset=3; strand=R; shift=5; score=0.454715; -----GGATTA---- ; cor=; Ncor= a 0 0 0 0 0 1099.0 787.0 6081.0 0.0 89.0 6081.0 0 0 0 0 c 0 0 0 0 0 828.0 452.0 144.0 0.0 176.0 0.0 0 0 0 0 g 0 0 0 0 0 6081.0 6081.0 25.0 0.0 71.0 54.0 0 0 0 0 t 0 0 0 0 0 315.0 416.0 0.0 6081.0 6081.0 0.0 0 0 0 0
MA0891.2_rc_shift5 (GSC2_rc)				; oligos_7nt_mkv4_m2 versus MA0891.2_rc (GSC2_rc); m=11/16; ncol2=6; w=0; offset=3; strand=R; shift=5; score=0.452797; -----gGATTA---- ; cor=; Ncor= a 0 0 0 0 0 439.0 204.0 2016.0 132.0 201.0 2016.0 0 0 0 0 c 0 0 0 0 0 422.0 179.0 145.0 0.0 56.0 0.0 0 0 0 0 g 0 0 0 0 0 2016.0 2016.0 41.0 11.0 87.0 0.0 0 0 0 0 t 0 0 0 0 0 182.0 255.0 0.0 2016.0 2016.0 116.0 0 0 0 0
MA0711.2_rc_shift5 (OTX1_rc)				; oligos_7nt_mkv4_m2 versus MA0711.2_rc (OTX1_rc); m=12/16; ncol2=6; w=0; offset=3; strand=R; shift=5; score=0.450712; -----gGATTA---- ; cor=; Ncor= a 0 0 0 0 0 3363.0 378.0 23441.0 0.0 544.0 23441.0 0 0 0 0 c 0 0 0 0 0 8662.0 659.0 3160.0 0.0 254.0 0.0 0 0 0 0 g 0 0 0 0 0 23441.0 23441.0 0.0 0.0 0.0 90.0 0 0 0 0 t 0 0 0 0 0 789.0 647.0 243.0 23441.0 23441.0 745.0 0 0 0 0
MA0629.2_rc_shift7 (Rhox11_rc)				; oligos_7nt_mkv4_m2 versus MA0629.2_rc (Rhox11_rc); m=13/16; ncol2=9; w=0; offset=5; strand=R; shift=7; score=0.42122; -------wTwACAGC ; cor=; Ncor= a 0 0 0 0 0 0 0 36.0 15.0 43.0 99.0 2.0 99.0 0.0 1.0 c 0 0 0 0 0 0 0 1.0 3.0 0.0 0.0 94.0 1.0 15.0 95.0 g 0 0 0 0 0 0 0 10.0 4.0 0.0 1.0 0.0 0.0 76.0 1.0 t 0 0 0 0 0 0 0 52.0 78.0 56.0 1.0 4.0 1.0 9.0 3.0
MA0719.2_rc_shift5 (RHOXF1_rc)				; oligos_7nt_mkv4_m2 versus MA0719.2_rc (RHOXF1_rc); m=14/16; ncol2=6; w=0; offset=3; strand=R; shift=5; score=0.414916; -----GGmTyA---- ; cor=; Ncor= a 0 0 0 0 0 2275.0 0.0 7376.0 0.0 1367.0 10916.0 0 0 0 0 c 0 0 0 0 0 0.0 0.0 3540.0 0.0 5373.0 478.0 0 0 0 0 g 0 0 0 0 0 10916.0 10916.0 0.0 0.0 0.0 0.0 0 0 0 0 t 0 0 0 0 0 0.0 0.0 0.0 10916.0 5543.0 2837.0 0 0 0 0
MA2125.1_rc_shift0 (Zfp809_rc)				; oligos_7nt_mkv4_m2 versus MA2125.1_rc (Zfp809_rc); m=15/16; ncol2=9; w=-2; offset=-2; strand=R; shift=0; score=0.405976; gGCTGGGAw------ ; cor=; Ncor= a 242.0 61.0 26.0 37.0 18.0 21.0 25.0 1578.0 690.0 0 0 0 0 0 0 c 115.0 99.0 1572.0 73.0 16.0 14.0 18.0 23.0 81.0 0 0 0 0 0 0 g 1091.0 1218.0 35.0 26.0 1621.0 1610.0 1607.0 41.0 66.0 0 0 0 0 0 0 t 217.0 287.0 32.0 1529.0 10.0 20.0 15.0 23.0 828.0 0 0 0 0 0 0
MA0025.3_rc_shift7 (NFIL3_rc)				; oligos_7nt_mkv4_m2 versus MA0025.3_rc (NFIL3_rc); m=16/16; ncol2=9; w=0; offset=5; strand=R; shift=7; score=0.400807; -------aTTrCATA ; cor=; Ncor= a 0 0 0 0 0 0 0 13143.0 474.0 434.0 9180.0 610.0 20334.0 433.0 20606.0 c 0 0 0 0 0 0 0 2701.0 360.0 171.0 454.0 20459.0 492.0 990.0 1714.0 g 0 0 0 0 0 0 0 4959.0 251.0 543.0 12004.0 467.0 1511.0 220.0 208.0 t 0 0 0 0 0 0 0 2193.0 21911.0 21848.0 1358.0 1460.0 659.0 21353.0 468.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv4_m3_shift1 (oligos_7nt_mkv4_m3)				; oligos_7nt_mkv4_m3; m=0 (reference); ncol1=11; shift=1; ncol=12; -ssCGCkCGCss ; Alignment reference a 0 22 16 9 5 7 10 2 10 7 26 22 c 0 65 56 146 8 156 21 155 6 153 60 68 g 0 54 74 16 159 6 68 12 149 10 62 57 t 0 36 31 6 5 8 78 8 12 7 29 30
MA0632.3_shift2 (TCFL5)				; oligos_7nt_mkv4_m3 versus MA0632.3 (TCFL5); m=1/7; ncol2=8; w=0; offset=1; strand=D; shift=2; score=0.571416; --kCrCGCGC-- ; cor=; Ncor= a 0 0 2810.0 0.0 72543.0 0.0 1566.0 1765.0 3520.0 1593.0 0 0 c 0 0 10582.0 72543.0 0.0 72543.0 0.0 57092.0 657.0 72543.0 0 0 g 0 0 22297.0 0.0 29710.0 0.0 72543.0 0.0 72543.0 4594.0 0 0 t 0 0 36854.0 0.0 9359.0 1643.0 0.0 15451.0 0.0 635.0 0 0
MA1513.2_shift0 (KLF15)				; oligos_7nt_mkv4_m3 versus MA1513.2 (KLF15); m=2/7; ncol2=8; w=-1; offset=-1; strand=D; shift=0; score=0.435986; cCCCGCCC---- ; cor=; Ncor= a 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 0 0 0 0 c 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 0 0 0 0 g 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 0 0 0 0 t 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0 0 0 0 0
MA1959.2_rc_shift0 (KLF7_rc)				; oligos_7nt_mkv4_m3 versus MA1959.2_rc (KLF7_rc); m=3/7; ncol2=8; w=-1; offset=-1; strand=R; shift=0; score=0.433988; CcMCGCCC---- ; cor=; Ncor= a 1.0 167.0 254.0 1.0 167.0 1.0 1.0 1.0 0 0 0 0 c 997.0 642.0 720.0 997.0 1.0 997.0 997.0 997.0 0 0 0 0 g 1.0 42.0 25.0 1.0 788.0 1.0 1.0 1.0 0 0 0 0 t 1.0 150.0 1.0 1.0 45.0 1.0 1.0 1.0 0 0 0 0
MA2126.1_rc_shift0 (Zfp961_rc)				; oligos_7nt_mkv4_m3 versus MA2126.1_rc (Zfp961_rc); m=4/7; ncol2=8; w=-1; offset=-1; strand=R; shift=0; score=0.42668; TGGCGCCC---- ; cor=; Ncor= a 61.0 26.0 16.0 15.0 182.0 116.0 71.0 8.0 0 0 0 0 c 69.0 30.0 23.0 1372.0 9.0 1278.0 1312.0 1372.0 0 0 0 0 g 74.0 1353.0 1367.0 8.0 1219.0 13.0 22.0 20.0 0 0 0 0 t 1214.0 9.0 12.0 23.0 8.0 11.0 13.0 18.0 0 0 0 0
MA1650.2_shift0 (ZBTB14)				; oligos_7nt_mkv4_m3 versus MA1650.2 (ZBTB14); m=5/7; ncol2=8; w=-1; offset=-1; strand=D; shift=0; score=0.41354; CCGCGCAC---- ; cor=; Ncor= a 335.0 41.0 93.0 68.0 132.0 56.0 4500.0 99.0 0 0 0 0 c 3525.0 4292.0 294.0 4078.0 305.0 4178.0 37.0 3674.0 0 0 0 0 g 614.0 155.0 4098.0 319.0 4043.0 261.0 10.0 651.0 0 0 0 0 t 73.0 59.0 62.0 82.0 67.0 52.0 0.0 123.0 0 0 0 0
MA1099.3_rc_shift5 (HES1_rc)				; oligos_7nt_mkv4_m3 versus MA1099.3_rc (HES1_rc); m=6/7; ncol2=8; w=0; offset=4; strand=R; shift=5; score=0.409227; -----CACGyGc ; cor=; Ncor= a 0 0 0 0 0 53.0 18526.0 0.0 791.0 232.0 18.0 8007.0 c 0 0 0 0 0 18526.0 0.0 18526.0 0.0 9081.0 0.0 18526.0 g 0 0 0 0 0 0.0 4057.0 0.0 18526.0 0.0 18526.0 2072.0 t 0 0 0 0 0 1.0 253.0 21.0 0.0 9446.0 464.0 5858.0
MA2328.1_shift5 (ZBED4)				; oligos_7nt_mkv4_m3 versus MA2328.1 (ZBED4); m=7/7; ncol2=10; w=0; offset=4; strand=D; shift=5; score=0.405485; -----CcCGCyC ; cor=; Ncor= a 0 0 0 0 0 41.0 26.0 29.0 17.0 6.0 11.0 14.0 c 0 0 0 0 0 479.0 419.0 549.0 14.0 621.0 391.0 598.0 g 0 0 0 0 0 80.0 65.0 62.0 608.0 26.0 28.0 34.0 t 0 0 0 0 0 60.0 150.0 20.0 21.0 7.0 230.0 14.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv4_m1_shift1 (oligos_7nt_mkv4_m1)				; oligos_7nt_mkv4_m1; m=0 (reference); ncol1=11; shift=1; ncol=12; -mgCCACTGCmc ; Alignment reference a 0 109 73 14 5 257 5 18 11 13 105 71 c 0 77 75 252 282 10 282 19 15 266 81 95 g 0 68 103 8 4 20 8 8 266 7 44 72 t 0 48 51 28 11 15 7 257 10 16 72 64
MA0130.1_shift1 (ZNF354C)				; oligos_7nt_mkv4_m1 versus MA0130.1 (ZNF354C); m=1/3; ncol2=6; w=0; offset=0; strand=D; shift=1; score=0.502344; -mTCCAC----- ; cor=; Ncor= a 0 7.0 3.0 0.0 0.0 16.0 0.0 0 0 0 0 0 c 0 6.0 2.0 16.0 16.0 0.0 15.0 0 0 0 0 0 g 0 3.0 0.0 0.0 0.0 0.0 1.0 0 0 0 0 0 t 0 0.0 11.0 0.0 0.0 0.0 0.0 0 0 0 0 0
MA0002.3_rc_shift0 (Runx1_rc)				; oligos_7nt_mkv4_m1 versus MA0002.3_rc (Runx1_rc); m=2/3; ncol2=9; w=-1; offset=-1; strand=R; shift=0; score=0.467345; waaCCACAr--- ; cor=; Ncor= a 1053.0 1325.0 1339.0 93.0 13.0 1716.0 53.0 1936.0 656.0 0 0 0 c 289.0 81.0 251.0 1848.0 1987.0 70.0 1872.0 7.0 149.0 0 0 0 g 158.0 463.0 400.0 42.0 0.0 127.0 75.0 0.0 1072.0 0 0 0 t 500.0 131.0 10.0 17.0 0.0 87.0 0.0 57.0 123.0 0 0 0
MA0100.4_shift3 (MYB)				; oligos_7nt_mkv4_m1 versus MA0100.4 (MYB); m=3/3; ncol2=6; w=0; offset=2; strand=D; shift=3; score=0.412412; ---CAACTG--- ; cor=; Ncor= a 0 0 0 0.0 1478.0 1519.0 0.0 1.0 8.0 0 0 0 c 0 0 0 1513.0 3.0 2.0 1527.0 60.0 3.0 0 0 0 g 0 0 0 5.0 39.0 0.0 0.0 68.0 1516.0 0 0 0 t 0 0 0 9.0 7.0 6.0 0.0 1398.0 0.0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m5_shift1 (oligos_6nt_mkv3_m5)				; oligos_6nt_mkv3_m5; m=0 (reference); ncol1=10; shift=1; ncol=11; -svCGaGCGss ; Alignment reference a 0 55 62 14 11 160 7 9 11 52 54 c 0 66 69 208 13 26 5 216 11 78 73 g 0 81 70 8 219 45 233 13 216 72 77 t 0 45 46 17 4 16 2 9 9 45 43
MA1959.2_shift4 (KLF7)				; oligos_6nt_mkv3_m5 versus MA1959.2 (KLF7); m=1/6; ncol2=8; w=0; offset=3; strand=D; shift=4; score=0.48369; ----GGGCGKg ; cor=; Ncor= a 0 0 0 0 1.0 1.0 1.0 45.0 1.0 1.0 150.0 c 0 0 0 0 1.0 1.0 1.0 788.0 1.0 25.0 42.0 g 0 0 0 0 997.0 997.0 997.0 1.0 997.0 720.0 642.0 t 0 0 0 0 1.0 1.0 1.0 167.0 1.0 254.0 167.0
MA1713.2_rc_shift3 (ZNF610_rc)				; oligos_6nt_mkv3_m5 versus MA1713.2_rc (ZNF610_rc); m=2/6; ncol2=10; w=0; offset=2; strand=R; shift=3; score=0.482325; ---GGAGCGGC ; cor=; Ncor= a 0 0 0 101.0 3.0 2289.0 4.0 11.0 15.0 20.0 79.0 c 0 0 0 186.0 62.0 45.0 21.0 2312.0 41.0 84.0 2118.0 g 0 0 0 1976.0 2315.0 34.0 2357.0 45.0 2312.0 2245.0 121.0 t 0 0 0 123.0 6.0 18.0 4.0 18.0 18.0 37.0 68.0
MA1513.2_rc_shift4 (KLF15_rc)				; oligos_6nt_mkv3_m5 versus MA1513.2_rc (KLF15_rc); m=3/6; ncol2=8; w=0; offset=3; strand=R; shift=4; score=0.468533; ----GGGCGGG ; cor=; Ncor= a 0 0 0 0 3.0 1.0 11.0 0.0 0.0 3.0 9.0 c 0 0 0 0 100.0 359.0 2.0 11369.0 1.0 333.0 86.0 g 0 0 0 0 11254.0 10954.0 11345.0 0.0 11368.0 10940.0 11234.0 t 0 0 0 0 12.0 55.0 11.0 0.0 0.0 93.0 40.0
MA0632.3_shift0 (TCFL5)				; oligos_6nt_mkv3_m5 versus MA0632.3 (TCFL5); m=4/6; ncol2=8; w=-1; offset=-1; strand=D; shift=0; score=0.463928; kCrCGCGC--- ; cor=; Ncor= a 2810.0 0.0 72543.0 0.0 1566.0 1765.0 3520.0 1593.0 0 0 0 c 10582.0 72543.0 0.0 72543.0 0.0 57092.0 657.0 72543.0 0 0 0 g 22297.0 0.0 29710.0 0.0 72543.0 0.0 72543.0 4594.0 0 0 0 t 36854.0 0.0 9359.0 1643.0 0.0 15451.0 0.0 635.0 0 0 0
MA2126.1_shift4 (Zfp961)				; oligos_6nt_mkv3_m5 versus MA2126.1 (Zfp961); m=5/6; ncol2=8; w=0; offset=3; strand=D; shift=4; score=0.45427; ----GGGCGCC ; cor=; Ncor= a 0 0 0 0 18.0 13.0 11.0 8.0 23.0 12.0 9.0 c 0 0 0 0 20.0 22.0 13.0 1219.0 8.0 1367.0 1353.0 g 0 0 0 0 1372.0 1312.0 1278.0 9.0 1372.0 23.0 30.0 t 0 0 0 0 8.0 71.0 116.0 182.0 15.0 16.0 26.0
MA1515.2_rc_shift4 (KLF2_rc)				; oligos_6nt_mkv3_m5 versus MA1515.2_rc (KLF2_rc); m=6/6; ncol2=8; w=0; offset=3; strand=R; shift=4; score=0.449516; ----GGGyGkG ; cor=; Ncor= a 0 0 0 0 444.0 9.0 22.0 167.0 78.0 214.0 312.0 c 0 0 0 0 105.0 195.0 49.0 2920.0 0.0 1060.0 186.0 g 0 0 0 0 4622.0 4622.0 4622.0 274.0 4622.0 2265.0 4622.0 t 0 0 0 0 68.0 128.0 0.0 1702.0 0.0 4622.0 403.0