One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.184343_2025-05-16.184343_1fYTf9/results/discovered_motifs/peak-motifs_motifs_discovered.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -mode matches -strand DR -uth offset_rank 1 -lth w 5 -lth Wr 0.3 -lth cor 0.7 -lth Ncor 0.4 -return matrix_name,matrix_id,cor,Ncor,width,strand,offset,alignments_1ton -sort Ncor -quick -o $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.184343_2025-05-16.184343_1fYTf9/results/discovered_vs_db/peak-motifs_motifs_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.tab

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m4_shift5 ; 28 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv2_m4_shift5 (oligos_6nt_mkv2_m4)
; oligos_6nt_mkv2_m4; m=0 (reference); ncol1=10; shift=5; ncol=15; -----ysCCTCCCws ; Alignment reference a 0 0 0 0 0 24 15 1 0 5 4 2 0 32 30 c 0 0 0 0 0 37 50 123 123 0 120 119 124 28 43 g 0 0 0 0 0 29 41 3 2 7 1 6 3 27 32 t 0 0 0 0 0 37 21 0 2 115 2 0 0 40 22

MA1653.2_shift5 (ZNF148)
; oligos_6nt_mkv2_m4 versus MA1653.2 (ZNF148); m=1/27; ncol2=10; w=0; offset=0; strand=D; shift=5; score=0.854376; -----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

MA1630.3_rc_shift5 (ZNF281_rc)
; oligos_6nt_mkv2_m4 versus MA1630.3_rc (ZNF281_rc); m=2/27; ncol2=10; w=0; offset=0; strand=R; shift=5; score=0.780065; -----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

MA0685.2_rc_shift5 (SP4_rc)
; oligos_6nt_mkv2_m4 versus MA0685.2_rc (SP4_rc); m=3/27; ncol2=9; w=0; offset=0; strand=R; shift=5; score=0.710686; -----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

MA1961.2_rc_shift4 (PATZ1_rc)
; oligos_6nt_mkv2_m4 versus MA1961.2_rc (PATZ1_rc); m=4/27; ncol2=11; w=-1; offset=-1; strand=R; shift=4; score=0.710078; ----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

MA0079.5_rc_shift5 (SP1_rc)
; oligos_6nt_mkv2_m4 versus MA0079.5_rc (SP1_rc); m=5/27; ncol2=9; w=0; offset=0; strand=R; shift=5; score=0.697617; -----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_mkv2_m4 versus MA1522.2 (MAZ); m=6/27; ncol2=8; w=0; offset=0; strand=D; shift=5; score=0.691999; -----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

MA0516.3_rc_shift5 (SP2_rc)
; oligos_6nt_mkv2_m4 versus MA0516.3_rc (SP2_rc); m=7/27; ncol2=9; w=0; offset=0; strand=R; shift=5; score=0.677832; -----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

MA0740.2_rc_shift5 (KLF14_rc)
; oligos_6nt_mkv2_m4 versus MA0740.2_rc (KLF14_rc); m=8/27; ncol2=9; w=0; offset=0; strand=R; shift=5; score=0.668999; -----CCMCGCCCm- ; cor=; Ncor= a 0 0 0 0 0 0.635877 0.635877 280.83 0.635877 90.067 0.635877 0.635877 0.635877 348.681 0 c 0 0 0 0 0 738.662 891.023 717.898 998.092 0.635877 998.092 998.092 998.092 619.525 0 g 0 0 0 0 0 62.0884 0.635877 0.635877 0.635877 814.392 0.635877 0.635877 0.635877 0.635877 0 t 0 0 0 0 0 198.614 107.705 0.635877 0.635877 94.9046 0.635877 0.635877 0.635877 31.158 0

MA0599.1_shift4 (KLF5)
; oligos_6nt_mkv2_m4 versus MA0599.1 (KLF5); m=9/27; ncol2=10; w=-1; offset=-1; strand=D; shift=4; score=0.656292; ----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

MA1511.2_rc_shift5 (KLF10_rc)
; oligos_6nt_mkv2_m4 versus MA1511.2_rc (KLF10_rc); m=10/27; ncol2=9; w=0; offset=0; strand=R; shift=5; score=0.63259; -----CCMCGCCCC- ; cor=; Ncor= a 0 0 0 0 0 49.3528 26.699 253.236 0.809061 152.913 0.809061 0.809061 0.809061 104.369 0 c 0 0 0 0 0 884.304 906.958 693.366 997.573 0.809061 997.573 997.573 997.573 819.579 0 g 0 0 0 0 0 0.809061 0.809061 52.589 0.809061 803.398 0.809061 0.809061 0.809061 0.809061 0 t 0 0 0 0 0 65.534 65.534 0.809061 0.809061 42.8803 0.809061 0.809061 0.809061 75.2427 0

MA0528.3_rc_shift6 (ZNF263_rc)
; oligos_6nt_mkv2_m4 versus MA0528.3_rc (ZNF263_rc); m=11/27; ncol2=7; w=0; offset=1; strand=R; shift=6; score=0.631577; ------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

MA0493.3_rc_shift5 (KLF1_rc)
; oligos_6nt_mkv2_m4 versus MA0493.3_rc (KLF1_rc); m=12/27; ncol2=8; w=0; offset=0; strand=R; shift=5; score=0.603957; -----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

MA1513.2_shift5 (KLF15)
; oligos_6nt_mkv2_m4 versus MA1513.2 (KLF15); m=13/27; ncol2=8; w=0; offset=0; strand=D; shift=5; score=0.603011; -----cCCCGCCC-- ; cor=; Ncor= a 0 0 0 0 0 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 0 0 c 0 0 0 0 0 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 0 0 g 0 0 0 0 0 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 0 0 t 0 0 0 0 0 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0 0 0

MA1965.2_shift7 (SP5)
; oligos_6nt_mkv2_m4 versus MA1965.2 (SP5); m=14/27; ncol2=6; w=0; offset=2; strand=D; shift=7; score=0.59943; -------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

MA1959.2_rc_shift5 (KLF7_rc)
; oligos_6nt_mkv2_m4 versus MA1959.2_rc (KLF7_rc); m=15/27; ncol2=8; w=0; offset=0; strand=R; shift=5; score=0.594844; -----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

MA0039.5_shift5 (KLF4)
; oligos_6nt_mkv2_m4 versus MA0039.5 (KLF4); m=16/27; ncol2=8; w=0; offset=0; strand=D; shift=5; score=0.593587; -----CCCCACCC-- ; cor=; Ncor= a 0 0 0 0 0 2465.0 2105.0 7021.0 1173.0 45602.0 852.0 1617.0 1202.0 0 0 c 0 0 0 0 0 49209.0 47865.0 45405.0 52875.0 161.0 52366.0 51112.0 51045.0 0 0 g 0 0 0 0 0 1583.0 1214.0 1422.0 793.0 6598.0 1470.0 1870.0 1005.0 0 0 t 0 0 0 0 0 2560.0 4633.0 1969.0 976.0 3456.0 1129.0 1218.0 2565.0 0 0

MA1627.2_shift7 (Wt1)
; oligos_6nt_mkv2_m4 versus MA1627.2 (Wt1); m=17/27; ncol2=10; w=0; offset=2; strand=D; shift=7; score=0.575781; -------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

MA1596.1_shift0 (ZNF460)
; oligos_6nt_mkv2_m4 versus MA1596.1 (ZNF460); m=18/27; ncol2=16; w=-5; offset=-5; strand=D; shift=0; score=0.551377; 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

MA1587.1_shift1 (ZNF135)
; oligos_6nt_mkv2_m4 versus MA1587.1 (ZNF135); m=19/27; ncol2=14; w=-4; offset=-4; strand=D; shift=1; score=0.517008; -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

MA2099.1_shift4 (ZNF770)
; oligos_6nt_mkv2_m4 versus MA2099.1 (ZNF770); m=20/27; ncol2=8; w=-1; offset=-1; strand=D; shift=4; score=0.482841; ----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

MA1578.2_shift7 (VEZF1)
; oligos_6nt_mkv2_m4 versus MA1578.2 (VEZF1); m=21/27; ncol2=6; w=0; offset=2; strand=D; shift=7; score=0.459495; -------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

MA0471.3_rc_shift4 (E2F6_rc)
; oligos_6nt_mkv2_m4 versus MA0471.3_rc (E2F6_rc); m=22/27; ncol2=8; w=-1; offset=-1; strand=R; shift=4; score=0.45873; ----TTCCCGCC--- ; cor=; Ncor= a 0 0 0 0 757.0 268.0 296.0 353.0 813.0 2125.0 205.0 453.0 0 0 0 c 0 0 0 0 5021.0 2322.0 31614.0 31973.0 30573.0 693.0 31790.0 29387.0 0 0 0 g 0 0 0 0 1595.0 1171.0 834.0 434.0 539.0 26424.0 837.0 1148.0 0 0 0 t 0 0 0 0 25725.0 29337.0 354.0 338.0 1173.0 3856.0 266.0 2110.0 0 0 0

MA1652.2_rc_shift3 (ZKSCAN5_rc)
; oligos_6nt_mkv2_m4 versus MA1652.2_rc (ZKSCAN5_rc); m=23/27; ncol2=9; w=-2; offset=-2; strand=R; shift=3; score=0.438765; ---cTCACyTCC--- ; cor=; Ncor= a 0 0 0 548.0 25.0 9.0 3092.0 49.0 27.0 19.0 26.0 50.0 0 0 0 c 0 0 0 2034.0 62.0 3251.0 76.0 3149.0 1827.0 47.0 3236.0 3111.0 0 0 0 g 0 0 0 370.0 41.0 24.0 86.0 37.0 27.0 62.0 27.0 30.0 0 0 0 t 0 0 0 375.0 3199.0 43.0 73.0 92.0 1446.0 3199.0 38.0 136.0 0 0 0

MA1723.2_rc_shift1 (PRDM9_rc)
; oligos_6nt_mkv2_m4 versus MA1723.2_rc (PRDM9_rc); m=24/27; ncol2=20; w=-4; offset=-4; strand=R; shift=1; score=0.427104; -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

MA1637.2_rc_shift9 (EBF3_rc)
; oligos_6nt_mkv2_m4 versus MA1637.2_rc (EBF3_rc); m=25/27; ncol2=9; w=0; offset=4; strand=R; shift=9; score=0.407883; ---------TCCCTT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1596.0 463.0 362.0 99.0 1612.0 1903.0 c 0 0 0 0 0 0 0 0 0 1985.0 20515.0 20589.0 21188.0 3374.0 1436.0 g 0 0 0 0 0 0 0 0 0 1819.0 515.0 230.0 260.0 1150.0 3634.0 t 0 0 0 0 0 0 0 0 0 16662.0 569.0 881.0 515.0 15926.0 15089.0

MA1604.2_rc_shift9 (Ebf2_rc)
; oligos_6nt_mkv2_m4 versus MA1604.2_rc (Ebf2_rc); m=26/27; ncol2=9; w=0; offset=4; strand=R; shift=9; score=0.405365; ---------TCCCTT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1321.0 586.0 379.0 182.0 2124.0 1855.0 c 0 0 0 0 0 0 0 0 0 1701.0 24124.0 24386.0 25103.0 3635.0 1427.0 g 0 0 0 0 0 0 0 0 0 1437.0 580.0 220.0 239.0 1347.0 3744.0 t 0 0 0 0 0 0 0 0 0 21802.0 971.0 1276.0 737.0 19155.0 19235.0

MA1710.2_rc_shift1 (ZNF257_rc)
; oligos_6nt_mkv2_m4 versus MA1710.2_rc (ZNF257_rc); m=27/27; ncol2=10; w=-4; offset=-4; strand=R; shift=1; score=0.401091; -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

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m5_shift4 ; 42 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv2_m5_shift4 (oligos_6nt_mkv2_m5)
; oligos_6nt_mkv2_m5; m=0 (reference); ncol1=11; shift=4; ncol=15; ----awAAACAAAam ; Alignment reference a 0 0 0 0 40 50 101 111 109 0 106 112 93 45 35 c 0 0 0 0 29 25 6 2 5 116 9 3 6 25 42 g 0 0 0 0 24 13 4 0 3 0 0 0 9 25 16 t 0 0 0 0 26 31 8 6 2 3 4 4 11 24 26

MA0847.4_shift4 (FOXD2)
; oligos_6nt_mkv2_m5 versus MA0847.4 (FOXD2); m=1/41; ncol2=11; w=0; offset=0; strand=D; shift=4; score=0.746713; ----yTAAryAAACA ; cor=; Ncor= a 0 0 0 0 219.0 480.0 2484.0 2484.0 2484.0 84.0 2484.0 2484.0 2484.0 0.0 2484.0 c 0 0 0 0 906.0 19.0 16.0 285.0 23.0 1342.0 81.0 23.0 0.0 2484.0 24.0 g 0 0 0 0 131.0 0.0 137.0 292.0 1615.0 3.0 0.0 18.0 5.0 0.0 34.0 t 0 0 0 0 1578.0 2004.0 0.0 262.0 4.0 1141.0 79.0 1.0 2.0 768.0 232.0

MA0851.2_shift4 (Foxj3)
; oligos_6nt_mkv2_m5 versus MA0851.2 (Foxj3); m=2/41; ncol2=9; w=0; offset=0; strand=D; shift=4; score=0.702769; ----RTAAACAAw-- ; cor=; Ncor= a 0 0 0 0 30.0 1.0 91.0 96.0 99.0 0.0 99.0 79.0 57.0 0 0 c 0 0 0 0 1.0 2.0 8.0 2.0 0.0 81.0 0.0 7.0 9.0 0 0 g 0 0 0 0 68.0 0.0 0.0 0.0 0.0 0.0 0.0 6.0 7.0 0 0 t 0 0 0 0 0.0 97.0 0.0 3.0 1.0 18.0 1.0 9.0 27.0 0 0

MA0515.1_rc_shift5 (Sox6_rc)
; oligos_6nt_mkv2_m5 versus MA0515.1_rc (Sox6_rc); m=3/41; ncol2=10; w=0; offset=1; strand=R; shift=5; score=0.68362; -----rrrACAAwGg ; cor=; Ncor= a 0 0 0 0 0 128.0 133.0 129.0 249.0 0.0 249.0 249.0 88.0 28.0 56.0 c 0 0 0 0 0 31.0 0.0 5.0 0.0 249.0 0.0 0.0 0.0 0.0 50.0 g 0 0 0 0 0 76.0 112.0 115.0 0.0 0.0 0.0 0.0 0.0 221.0 139.0 t 0 0 0 0 0 14.0 4.0 0.0 0.0 0.0 0.0 0.0 161.0 0.0 4.0

MA0867.3_shift7 (SOX4)
; oligos_6nt_mkv2_m5 versus MA0867.3 (SOX4); m=4/41; ncol2=8; w=0; offset=3; strand=D; shift=7; score=0.636258; -------aACAAwGr ; cor=; Ncor= a 0 0 0 0 0 0 0 5582.0 5582.0 0.0 5582.0 5582.0 5582.0 1018.0 2093.0 c 0 0 0 0 0 0 0 951.0 0.0 5582.0 1.0 6.0 120.0 64.0 1422.0 g 0 0 0 0 0 0 0 2047.0 0.0 37.0 6.0 11.0 50.0 5582.0 3489.0 t 0 0 0 0 0 0 0 431.0 9.0 33.0 0.0 0.0 2719.0 83.0 174.0

MA0614.1_shift4 (Foxj2)
; oligos_6nt_mkv2_m5 versus MA0614.1 (Foxj2); m=5/41; ncol2=8; w=0; offset=0; strand=D; shift=4; score=0.630111; ----rTAAACAa--- ; cor=; Ncor= a 0 0 0 0 461.0 50.0 795.0 977.0 999.0 0.0 999.0 593.0 0 0 0 c 0 0 0 0 0.0 25.0 205.0 0.0 0.0 954.0 0.0 125.0 0 0 0 g 0 0 0 0 538.0 0.0 0.0 0.0 0.0 0.0 0.0 125.0 0 0 0 t 0 0 0 0 0.0 924.0 0.0 22.0 0.0 46.0 0.0 156.0 0 0 0

MA1489.1_shift4 (FOXN3)
; oligos_6nt_mkv2_m5 versus MA1489.1 (FOXN3); m=6/41; ncol2=8; w=0; offset=0; strand=D; shift=4; score=0.616994; ----GTAAACAA--- ; cor=; Ncor= a 0 0 0 0 9.0 9.0 971.0 971.0 971.0 9.0 971.0 971.0 0 0 0 c 0 0 0 0 9.0 9.0 9.0 9.0 9.0 971.0 9.0 9.0 0 0 0 g 0 0 0 0 971.0 9.0 9.0 9.0 9.0 9.0 9.0 9.0 0 0 0 t 0 0 0 0 9.0 971.0 9.0 9.0 9.0 9.0 9.0 9.0 0 0 0

MA0613.1_shift4 (FOXG1)
; oligos_6nt_mkv2_m5 versus MA0613.1 (FOXG1); m=7/41; ncol2=8; w=0; offset=0; strand=D; shift=4; score=0.611709; ----rTAAACAw--- ; cor=; Ncor= a 0 0 0 0 374.0 1.0 997.0 997.0 997.0 1.0 997.0 498.0 0 0 0 c 0 0 0 0 1.0 1.0 1.0 1.0 1.0 997.0 1.0 167.0 0 0 0 g 0 0 0 0 623.0 1.0 1.0 1.0 1.0 1.0 1.0 2.0 0 0 0 t 0 0 0 0 1.0 997.0 1.0 1.0 1.0 1.0 1.0 333.0 0 0 0

MA0041.3_shift1 (FOXD3)
; oligos_6nt_mkv2_m5 versus MA0041.3 (FOXD3); m=8/41; ncol2=14; w=-3; offset=-3; strand=D; shift=1; score=0.601273; -wawrhAAAYAAACa ; cor=; Ncor= a 0 86.0 120.0 91.0 56.0 99.0 171.0 171.0 171.0 0.0 171.0 171.0 171.0 13.0 125.0 c 0 22.0 17.0 45.0 17.0 109.0 37.0 8.0 1.0 43.0 4.0 11.0 17.0 171.0 20.0 g 0 13.0 52.0 45.0 115.0 8.0 1.0 0.0 7.0 0.0 2.0 8.0 20.0 13.0 30.0 t 0 85.0 22.0 81.0 10.0 171.0 2.0 7.0 2.0 128.0 7.0 11.0 35.0 30.0 47.0

MA0040.2_rc_shift3 (Foxq1_rc)
; oligos_6nt_mkv2_m5 versus MA0040.2_rc (Foxq1_rc); m=9/41; ncol2=10; w=-1; offset=-1; strand=R; shift=3; score=0.578294; ---wATAAACAwT-- ; cor=; Ncor= a 0 0 0 9.0 13.0 0.0 18.0 18.0 18.0 0.0 15.0 11.0 1.0 0 0 c 0 0 0 3.0 4.0 1.0 0.0 0.0 0.0 18.0 0.0 0.0 3.0 0 0 g 0 0 0 0.0 1.0 0.0 0.0 0.0 0.0 0.0 0.0 2.0 1.0 0 0 t 0 0 0 6.0 0.0 17.0 0.0 0.0 0.0 0.0 3.0 5.0 13.0 0 0

MA0869.3_shift6 (Sox11)
; oligos_6nt_mkv2_m5 versus MA0869.3 (Sox11); m=10/41; ncol2=8; w=0; offset=2; strand=D; shift=6; score=0.56577; ------GAACAAAG- ; cor=; Ncor= a 0 0 0 0 0 0 1014.0 7912.0 9856.0 119.0 10020.0 9676.0 9276.0 506.0 0 c 0 0 0 0 0 0 764.0 766.0 100.0 9471.0 108.0 264.0 61.0 148.0 0 g 0 0 0 0 0 0 8063.0 1298.0 211.0 501.0 49.0 248.0 233.0 9486.0 0 t 0 0 0 0 0 0 407.0 272.0 81.0 157.0 71.0 60.0 678.0 108.0 0

MA0030.2_shift3 (FOXF2)
; oligos_6nt_mkv2_m5 versus MA0030.2 (FOXF2); m=11/41; ncol2=9; w=-1; offset=-1; strand=D; shift=3; score= 0.5618; ---sRTAAACAa--- ; cor=; Ncor= a 0 0 0 3.0 7.0 0.0 27.0 27.0 27.0 0.0 27.0 16.0 0 0 0 c 0 0 0 11.0 0.0 0.0 0.0 0.0 0.0 25.0 0.0 4.0 0 0 0 g 0 0 0 8.0 20.0 0.0 0.0 0.0 0.0 0.0 0.0 2.0 0 0 0 t 0 0 0 0.0 0.0 27.0 0.0 0.0 0.0 2.0 0.0 5.0 0 0 0

MA1606.2_shift4 (Foxf1)
; oligos_6nt_mkv2_m5 versus MA1606.2 (Foxf1); m=12/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.557236; ----rTAAACA---- ; cor=; Ncor= a 0 0 0 0 18534.0 568.0 57293.0 53942.0 57167.0 437.0 56436.0 0 0 0 0 c 0 0 0 0 3754.0 446.0 899.0 2249.0 475.0 54394.0 745.0 0 0 0 0 g 0 0 0 0 33599.0 1158.0 445.0 811.0 1067.0 522.0 443.0 0 0 0 0 t 0 0 0 0 3653.0 57368.0 903.0 2538.0 831.0 4187.0 1916.0 0 0 0 0

MA1125.2_shift6 (ZNF384)
; oligos_6nt_mkv2_m5 versus MA1125.2 (ZNF384); m=13/41; ncol2=8; w=0; offset=2; strand=D; shift=6; score=0.556785; ------AAAAAAaa- ; cor=; Ncor= a 0 0 0 0 0 0 30354.0 30191.0 30072.0 30252.0 30202.0 30406.0 20322.0 18916.0 0 c 0 0 0 0 0 0 7.0 35.0 21.0 13.0 26.0 6.0 2908.0 3963.0 0 g 0 0 0 0 0 0 13.0 19.0 26.0 15.0 14.0 0.0 2767.0 2898.0 0 t 0 0 0 0 0 0 59.0 188.0 314.0 153.0 191.0 21.0 4436.0 4656.0 0

MA0084.2_shift6 (SRY)
; oligos_6nt_mkv2_m5 versus MA0084.2 (SRY); m=14/41; ncol2=7; w=0; offset=2; strand=D; shift=6; score=0.553621; ------waACAAw-- ; cor=; Ncor= a 0 0 0 0 0 0 15.0 18.0 25.0 0.0 28.0 27.0 7.0 0 0 c 0 0 0 0 0 0 0.0 3.0 0.0 26.0 0.0 0.0 0.0 0 0 g 0 0 0 0 0 0 3.0 3.0 0.0 0.0 0.0 1.0 2.0 0 0 t 0 0 0 0 0 0 10.0 4.0 3.0 2.0 0.0 0.0 19.0 0 0

MA0033.2_shift4 (FOXL1)
; oligos_6nt_mkv2_m5 versus MA0033.2 (FOXL1); m=15/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.552182; ----rTAAACA---- ; cor=; Ncor= a 0 0 0 0 2102.0 10.0 4780.0 4780.0 4780.0 0.0 4780.0 0 0 0 0 c 0 0 0 0 13.0 416.0 628.0 38.0 82.0 3723.0 54.0 0 0 0 0 g 0 0 0 0 2678.0 0.0 57.0 0.0 50.0 0.0 0.0 0 0 0 0 t 0 0 0 0 140.0 4780.0 0.0 15.0 0.0 1057.0 17.0 0 0 0 0

MA0850.1_shift4 (FOXP3)
; oligos_6nt_mkv2_m5 versus MA0850.1 (FOXP3); m=16/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.550401; ----rTAAACA---- ; cor=; Ncor= a 0 0 0 0 74.0 20.0 211.0 211.0 211.0 0.0 211.0 0 0 0 0 c 0 0 0 0 0.0 52.0 0.0 0.0 15.0 211.0 0.0 0 0 0 0 g 0 0 0 0 137.0 0.0 0.0 9.0 49.0 32.0 18.0 0 0 0 0 t 0 0 0 0 0.0 211.0 31.0 8.0 0.0 39.0 0.0 0 0 0 0

MA1152.2_rc_shift8 (SOX15_rc)
; oligos_6nt_mkv2_m5 versus MA1152.2_rc (SOX15_rc); m=17/41; ncol2=7; w=0; offset=4; strand=R; shift=8; score=0.548235; --------ACAAwrr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 971.0 5.0 994.0 988.0 362.0 501.0 267.0 c 0 0 0 0 0 0 0 0 3.0 890.0 2.0 6.0 5.0 26.0 147.0 g 0 0 0 0 0 0 0 0 2.0 21.0 2.0 3.0 3.0 412.0 554.0 t 0 0 0 0 0 0 0 0 24.0 83.0 3.0 3.0 631.0 62.0 32.0

MA0157.4_shift4 (Foxo3)
; oligos_6nt_mkv2_m5 versus MA0157.4 (Foxo3); m=18/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.546052; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 3470.0 1546.0 22240.0 22288.0 22551.0 403.0 22141.0 0 0 0 0 c 0 0 0 0 590.0 435.0 968.0 803.0 483.0 21237.0 587.0 0 0 0 0 g 0 0 0 0 19202.0 1199.0 328.0 333.0 464.0 361.0 361.0 0 0 0 0 t 0 0 0 0 650.0 20732.0 376.0 488.0 414.0 1911.0 823.0 0 0 0 0

MA0852.3_shift4 (FOXK1)
; oligos_6nt_mkv2_m5 versus MA0852.3 (FOXK1); m=19/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.544824; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 143.0 60.0 1003.0 999.0 1022.0 10.0 1015.0 0 0 0 0 c 0 0 0 0 28.0 5.0 37.0 37.0 13.0 958.0 16.0 0 0 0 0 g 0 0 0 0 868.0 44.0 10.0 11.0 10.0 12.0 12.0 0 0 0 0 t 0 0 0 0 17.0 947.0 6.0 9.0 11.0 76.0 13.0 0 0 0 0

MA0480.3_shift4 (Foxo1)
; oligos_6nt_mkv2_m5 versus MA0480.3 (Foxo1); m=20/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.544658; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 1411.0 945.0 12408.0 12663.0 12972.0 293.0 13332.0 0 0 0 0 c 0 0 0 0 481.0 555.0 934.0 849.0 387.0 12710.0 277.0 0 0 0 0 g 0 0 0 0 11670.0 1025.0 478.0 384.0 508.0 356.0 153.0 0 0 0 0 t 0 0 0 0 554.0 11591.0 296.0 220.0 249.0 757.0 354.0 0 0 0 0

MA0593.2_shift3 (FOXP2)
; oligos_6nt_mkv2_m5 versus MA0593.2 (FOXP2); m=21/41; ncol2=9; w=-1; offset=-1; strand=D; shift=3; score=0.543715; ---wGTAAACAr--- ; cor=; Ncor= a 0 0 0 340.0 160.0 59.0 766.0 766.0 766.0 0.0 766.0 297.0 0 0 0 c 0 0 0 7.0 0.0 0.0 0.0 0.0 0.0 757.0 0.0 154.0 0 0 0 g 0 0 0 142.0 606.0 0.0 0.0 0.0 0.0 0.0 0.0 293.0 0 0 0 t 0 0 0 277.0 0.0 707.0 0.0 0.0 0.0 9.0 0.0 22.0 0 0 0

MA0848.1_shift4 (FOXO4)
; oligos_6nt_mkv2_m5 versus MA0848.1 (FOXO4); m=22/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.540535; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 1669.0 345.0 5378.0 5378.0 5378.0 58.0 5378.0 0 0 0 0 c 0 0 0 0 13.0 69.0 1259.0 146.0 0.0 5378.0 10.0 0 0 0 0 g 0 0 0 0 5378.0 123.0 32.0 19.0 90.0 33.0 10.0 0 0 0 0 t 0 0 0 0 0.0 5378.0 20.0 20.0 10.0 958.0 40.0 0 0 0 0

MA0849.1_shift4 (FOXO6)
; oligos_6nt_mkv2_m5 versus MA0849.1 (FOXO6); m=23/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.537086; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 1445.0 154.0 7025.0 7025.0 7025.0 0.0 7025.0 0 0 0 0 c 0 0 0 0 0.0 0.0 1147.0 195.0 0.0 7025.0 0.0 0 0 0 0 g 0 0 0 0 7025.0 32.0 7.0 0.0 0.0 31.0 13.0 0 0 0 0 t 0 0 0 0 0.0 7025.0 0.0 26.0 0.0 385.0 0.0 0 0 0 0

MA1103.3_shift4 (FOXK2)
; oligos_6nt_mkv2_m5 versus MA1103.3 (FOXK2); m=24/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.535651; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 2697.0 360.0 15913.0 14387.0 15593.0 499.0 15709.0 0 0 0 0 c 0 0 0 0 551.0 210.0 277.0 1291.0 330.0 14282.0 295.0 0 0 0 0 g 0 0 0 0 12737.0 327.0 148.0 436.0 391.0 426.0 170.0 0 0 0 0 t 0 0 0 0 694.0 15782.0 341.0 565.0 365.0 1472.0 505.0 0 0 0 0

MA1563.2_shift7 (SOX18)
; oligos_6nt_mkv2_m5 versus MA1563.2 (SOX18); m=25/41; ncol2=8; w=0; offset=3; strand=D; shift=7; score=0.535558; -------aACAATdv ; cor=; Ncor= a 0 0 0 0 0 0 0 424.0 424.0 0.0 424.0 424.0 0.0 203.0 382.0 c 0 0 0 0 0 0 0 81.0 0.0 424.0 0.0 35.0 0.0 0.0 551.0 g 0 0 0 0 0 0 0 170.0 0.0 91.0 0.0 17.0 0.0 221.0 424.0 t 0 0 0 0 0 0 0 34.0 0.0 2.0 0.0 0.0 447.0 228.0 0.0

MA2117.1_shift4 (FOXP4)
; oligos_6nt_mkv2_m5 versus MA2117.1 (FOXP4); m=26/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.534437; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 2224.0 543.0 19122.0 19613.0 20280.0 379.0 20230.0 0 0 0 0 c 0 0 0 0 834.0 793.0 1545.0 1330.0 419.0 18349.0 443.0 0 0 0 0 g 0 0 0 0 17315.0 539.0 534.0 368.0 550.0 493.0 218.0 0 0 0 0 t 0 0 0 0 1294.0 19792.0 466.0 356.0 418.0 2446.0 776.0 0 0 0 0

MA0868.3_shift7 (SOX8)
; oligos_6nt_mkv2_m5 versus MA0868.3 (SOX8); m=27/41; ncol2=7; w=0; offset=3; strand=D; shift=7; score=0.530399; -------AACAATr- ; cor=; Ncor= a 0 0 0 0 0 0 0 1827.0 1827.0 3.0 1827.0 1827.0 273.0 1356.0 0 c 0 0 0 0 0 0 0 151.0 0.0 1827.0 0.0 43.0 36.0 208.0 0 g 0 0 0 0 0 0 0 263.0 0.0 35.0 0.0 0.0 20.0 1827.0 0 t 0 0 0 0 0 0 0 222.0 45.0 70.0 16.0 36.0 1827.0 287.0 0

MA0087.3_shift7 (Sox5)
; oligos_6nt_mkv2_m5 versus MA0087.3 (Sox5); m=28/41; ncol2=8; w=0; offset=3; strand=D; shift=7; score=0.529706; -------AACAATGG ; cor=; Ncor= a 0 0 0 0 0 0 0 104.0 122.0 0.0 120.0 114.0 6.0 20.0 13.0 c 0 0 0 0 0 0 0 4.0 0.0 120.0 2.0 5.0 3.0 0.0 14.0 g 0 0 0 0 0 0 0 12.0 1.0 2.0 2.0 4.0 1.0 101.0 90.0 t 0 0 0 0 0 0 0 4.0 1.0 2.0 0.0 1.0 114.0 3.0 7.0

MA0031.2_shift4 (FOXD1)
; oligos_6nt_mkv2_m5 versus MA0031.2 (FOXD1); m=29/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score= 0.5287; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 1.0 0.0 19.0 20.0 18.0 1.0 20.0 0 0 0 0 c 0 0 0 0 1.0 0.0 1.0 0.0 1.0 18.0 0.0 0 0 0 0 g 0 0 0 0 17.0 0.0 0.0 0.0 1.0 0.0 0.0 0 0 0 0 t 0 0 0 0 1.0 20.0 0.0 0.0 0.0 1.0 0.0 0 0 0 0

MA0481.4_shift4 (FOXP1)
; oligos_6nt_mkv2_m5 versus MA0481.4 (FOXP1); m=30/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.526181; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 10463.0 1209.0 69603.0 65236.0 70030.0 1336.0 68456.0 0 0 0 0 c 0 0 0 0 1573.0 727.0 2095.0 5067.0 1487.0 61094.0 1904.0 0 0 0 0 g 0 0 0 0 59571.0 920.0 1073.0 1830.0 1132.0 1493.0 749.0 0 0 0 0 t 0 0 0 0 3111.0 71862.0 1947.0 2585.0 2069.0 10795.0 3609.0 0 0 0 0

MA0042.2_shift4 (FOXI1)
; oligos_6nt_mkv2_m5 versus MA0042.2 (FOXI1); m=31/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.525824; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 618.0 74.0 5175.0 5175.0 5175.0 157.0 5175.0 0 0 0 0 c 0 0 0 0 39.0 60.0 540.0 23.0 23.0 5175.0 12.0 0 0 0 0 g 0 0 0 0 5175.0 35.0 37.0 0.0 29.0 48.0 25.0 0 0 0 0 t 0 0 0 0 0.0 5175.0 0.0 0.0 66.0 810.0 0.0 0 0 0 0

MA0077.2_rc_shift7 (SOX9_rc)
; oligos_6nt_mkv2_m5 versus MA0077.2_rc (SOX9_rc); m=32/41; ncol2=8; w=0; offset=3; strand=R; shift=7; score=0.525684; -------AACAATrG ; cor=; Ncor= a 0 0 0 0 0 0 0 54.0 59.0 0.0 65.0 71.0 4.0 24.0 9.0 c 0 0 0 0 0 0 0 6.0 4.0 72.0 4.0 2.0 0.0 6.0 9.0 g 0 0 0 0 0 0 0 7.0 0.0 2.0 0.0 1.0 1.0 38.0 55.0 t 0 0 0 0 0 0 0 9.0 13.0 2.0 7.0 2.0 71.0 8.0 3.0

MA1683.2_shift4 (FOXA3)
; oligos_6nt_mkv2_m5 versus MA1683.2 (FOXA3); m=33/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.523642; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 4481.0 758.0 45178.0 43099.0 46046.0 951.0 45552.0 0 0 0 0 c 0 0 0 0 1464.0 903.0 1980.0 3883.0 973.0 39509.0 933.0 0 0 0 0 g 0 0 0 0 40396.0 690.0 636.0 977.0 934.0 1205.0 614.0 0 0 0 0 t 0 0 0 0 2596.0 46586.0 1143.0 978.0 984.0 7272.0 1838.0 0 0 0 0

MA0148.5_shift4 (FOXA1)
; oligos_6nt_mkv2_m5 versus MA0148.5 (FOXA1); m=34/41; ncol2=8; w=0; offset=0; strand=D; shift=4; score=0.514629; ----GTAAACAT--- ; cor=; Ncor= a 0 0 0 0 23286.0 11061.0 297679.0 294900.0 312906.0 7396.0 308904.0 42299.0 0 0 0 c 0 0 0 0 5935.0 13932.0 14648.0 13410.0 2452.0 272943.0 3674.0 23038.0 0 0 0 g 0 0 0 0 281612.0 6092.0 5243.0 3774.0 3652.0 4805.0 3226.0 27283.0 0 0 0 t 0 0 0 0 11970.0 291718.0 5233.0 10719.0 3793.0 37659.0 6999.0 230183.0 0 0 0

MA1487.3_shift0 (FOXE1)
; oligos_6nt_mkv2_m5 versus MA1487.3 (FOXE1); m=35/41; ncol2=12; w=-4; offset=-4; strand=D; shift=0; score=0.496728; yTAARyAAACAa--- ; cor=; Ncor= a 86.0 581.0 3126.0 2547.0 2255.0 587.0 3126.0 3126.0 3126.0 0.0 3126.0 2026.0 0 0 0 c 1646.0 43.0 28.0 113.0 117.0 1062.0 362.0 90.0 0.0 3126.0 32.0 392.0 0 0 0 g 57.0 0.0 402.0 116.0 871.0 17.0 0.0 0.0 23.0 0.0 18.0 258.0 0 0 0 t 1479.0 2545.0 43.0 579.0 27.0 2064.0 20.0 53.0 9.0 85.0 110.0 450.0 0 0 0

MA2118.1_shift3 (FOXS1)
; oligos_6nt_mkv2_m5 versus MA2118.1 (FOXS1); m=36/41; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.490003; ---tGTAAACA---- ; cor=; Ncor= a 0 0 0 66.0 36.0 13.0 345.0 345.0 361.0 9.0 356.0 0 0 0 0 c 0 0 0 20.0 8.0 15.0 15.0 16.0 3.0 322.0 5.0 0 0 0 0 g 0 0 0 49.0 323.0 12.0 5.0 8.0 5.0 7.0 3.0 0 0 0 0 t 0 0 0 239.0 7.0 334.0 9.0 5.0 5.0 36.0 10.0 0 0 0 0

MA0442.3_shift8 (SOX10)
; oligos_6nt_mkv2_m5 versus MA0442.3 (SOX10); m=37/41; ncol2=6; w=0; offset=4; strand=D; shift=8; score=0.486163; --------ACAAAG- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 2023.0 3.0 2029.0 1968.0 1959.0 10.0 0 c 0 0 0 0 0 0 0 0 4.0 1989.0 7.0 28.0 23.0 13.0 0 g 0 0 0 0 0 0 0 0 3.0 11.0 7.0 20.0 12.0 2012.0 0 t 0 0 0 0 0 0 0 0 25.0 52.0 12.0 39.0 61.0 20.0 0

MA0846.2_shift1 (FOXC2)
; oligos_6nt_mkv2_m5 versus MA0846.2 (FOXC2); m=38/41; ncol2=11; w=-3; offset=-3; strand=D; shift=1; score=0.480006; -wAwrTAAAYAw--- ; cor=; Ncor= a 0 8939.0 20456.0 11301.0 6418.0 2005.0 20456.0 20456.0 20456.0 31.0 20456.0 13296.0 0 0 0 c 0 1279.0 1652.0 3476.0 440.0 3773.0 6759.0 344.0 105.0 14435.0 101.0 2087.0 0 0 0 g 0 454.0 5093.0 3129.0 14038.0 321.0 87.0 81.0 279.0 68.0 328.0 1710.0 0 0 0 t 0 11517.0 2080.0 9155.0 136.0 20456.0 122.0 107.0 242.0 6021.0 215.0 7160.0 0 0 0

MA0047.4_shift3 (FOXA2)
; oligos_6nt_mkv2_m5 versus MA0047.4 (FOXA2); m=39/41; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.463749; ---wGTAAACA---- ; cor=; Ncor= a 0 0 0 93740.0 18770.0 3737.0 243805.0 223061.0 248214.0 2411.0 246665.0 0 0 0 0 c 0 0 0 12432.0 2928.0 2037.0 9424.0 22429.0 3329.0 196969.0 3086.0 0 0 0 0 g 0 0 0 38538.0 236311.0 1890.0 2641.0 6484.0 2805.0 3603.0 2984.0 0 0 0 0 t 0 0 0 117443.0 4144.0 254489.0 6283.0 10179.0 7805.0 59170.0 9418.0 0 0 0 0

MA1607.2_shift1 (Foxl2)
; oligos_6nt_mkv2_m5 versus MA1607.2 (Foxl2); m=40/41; ncol2=10; w=-3; offset=-3; strand=D; shift=1; score=0.424032; -waTGTAAACA---- ; cor=; Ncor= a 0 6433.0 11158.0 2985.0 2607.0 1097.0 17227.0 17212.0 17146.0 282.0 15623.0 0 0 0 0 c 0 1576.0 2051.0 896.0 367.0 301.0 558.0 336.0 216.0 15698.0 807.0 0 0 0 0 g 0 1599.0 2107.0 1371.0 14648.0 419.0 112.0 187.0 411.0 151.0 401.0 0 0 0 0 t 0 8493.0 2785.0 12849.0 479.0 16284.0 204.0 366.0 328.0 1970.0 1270.0 0 0 0 0

MA0032.2_shift1 (FOXC1)
; oligos_6nt_mkv2_m5 versus MA0032.2 (FOXC1); m=41/41; ncol2=11; w=-3; offset=-3; strand=D; shift=1; score=0.408712; -wAwRTMAAyAw--- ; cor=; Ncor= a 0 6452.0 14324.0 7893.0 4858.0 2496.0 13117.0 18489.0 18489.0 122.0 18489.0 6702.0 0 0 0 c 0 772.0 728.0 2008.0 336.0 1652.0 5372.0 108.0 56.0 8782.0 27.0 1558.0 0 0 0 g 0 304.0 4165.0 2422.0 13631.0 390.0 21.0 0.0 141.0 165.0 433.0 1107.0 0 0 0 t 0 12038.0 1386.0 10596.0 51.0 18489.0 45.0 57.0 112.0 9708.0 184.0 11787.0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m2_shift0 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m2_shift0 (oligos_7nt_mkv2_m2)
; oligos_7nt_mkv2_m2; m=0 (reference); ncol1=12; shift=0; ncol=12; yaCACACACAca ; Alignment reference a 23 109 6 182 3 175 5 173 6 170 28 98 c 86 22 169 3 173 5 172 5 174 6 91 31 g 25 45 6 3 9 4 1 5 2 4 30 42 t 56 14 9 2 5 6 12 7 8 10 41 19

MA1107.3_shift0 (KLF9)
; oligos_7nt_mkv2_m2 versus MA1107.3 (KLF9); m=1/3; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.687284; gCCACACCCAC- ; cor=; Ncor= a 2862.0 4664.0 287.0 21899.0 221.0 19187.0 224.0 2428.0 146.0 18837.0 792.0 0 c 4342.0 17839.0 24709.0 2559.0 24863.0 1070.0 24365.0 22117.0 24682.0 4339.0 20644.0 0 g 16852.0 1660.0 291.0 708.0 353.0 4340.0 735.0 605.0 205.0 852.0 1778.0 0 t 1523.0 1416.0 292.0 413.0 142.0 982.0 255.0 429.0 546.0 1551.0 2365.0 0

MA1155.1_shift0 (ZSCAN4)
; oligos_7nt_mkv2_m2 versus MA1155.1 (ZSCAN4); m=2/3; ncol2=15; w=0; offset=0; strand=D; shift=0; score=0.567915; tGCACACmCTGa ; cor=; Ncor= a 257.0 290.0 0.0 1292.0 0.0 1281.0 3.0 772.0 7.0 8.0 3.0 1118.0 c 383.0 2.0 1676.0 0.0 1665.0 0.0 1702.0 374.0 1684.0 11.0 50.0 107.0 g 112.0 1737.0 1.0 0.0 0.0 2.0 0.0 320.0 0.0 75.0 1873.0 230.0 t 1373.0 0.0 0.0 2.0 0.0 2.0 73.0 8.0 2.0 1699.0 218.0 362.0

MA1523.2_shift2 (MSANTD3)
; oligos_7nt_mkv2_m2 versus MA1523.2 (MSANTD3); m=3/3; ncol2=7; w=0; offset=2; strand=D; shift=2; score=0.436949; --CACTCAm--- ; cor=; Ncor= a 0 0 64.0 980.0 31.0 37.0 47.0 775.0 271.0 0 0 0 c 0 0 723.0 0.0 896.0 7.0 862.0 140.0 568.0 0 0 0 g 0 0 31.0 2.0 27.0 0.0 29.0 24.0 63.0 0 0 0 t 0 0 180.0 16.0 45.0 954.0 60.0 59.0 96.0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m3_shift1 ; 16 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv2_m3_shift1 (oligos_6nt_mkv2_m3)
; oligos_6nt_mkv2_m3; m=0 (reference); ncol1=11; shift=1; ncol=12; -rgcCCCAGCys ; Alignment reference a 0 36 34 16 3 3 5 123 8 1 32 26 c 0 34 33 86 131 124 124 6 2 133 44 51 g 0 46 41 16 3 9 4 8 124 1 21 35 t 0 21 29 19 0 1 4 0 3 2 40 25

MA2125.1_shift2 (Zfp809)
; oligos_6nt_mkv2_m3 versus MA2125.1 (Zfp809); m=1/15; ncol2=9; w=0; offset=1; strand=D; shift=2; score=0.676867; --wTCCCAGCc- ; cor=; Ncor= a 0 0 828.0 23.0 15.0 20.0 10.0 1529.0 32.0 287.0 217.0 0 c 0 0 66.0 41.0 1607.0 1610.0 1621.0 26.0 35.0 1218.0 1091.0 0 g 0 0 81.0 23.0 18.0 14.0 16.0 73.0 1572.0 99.0 115.0 0 t 0 0 690.0 1578.0 25.0 21.0 18.0 37.0 26.0 61.0 242.0 0

MA2341.1_shift4 (FEZF2)
; oligos_6nt_mkv2_m3 versus MA2341.1 (FEZF2); m=2/15; ncol2=8; w=0; offset=3; strand=D; shift=4; score=0.608258; ----CCCAGCCT ; cor=; Ncor= a 0 0 0 0 17.0 5.0 4.0 231.0 6.0 8.0 7.0 14.0 c 0 0 0 0 202.0 206.0 258.0 15.0 8.0 224.0 247.0 10.0 g 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 36.0 45.0 3.0 5.0 0.0 5.0 9.0 233.0

MA0039.5_shift3 (KLF4)
; oligos_6nt_mkv2_m3 versus MA0039.5 (KLF4); m=3/15; ncol2=8; w=0; offset=2; strand=D; shift=3; score=0.528666; ---CCCCACCC- ; cor=; Ncor= a 0 0 0 2465.0 2105.0 7021.0 1173.0 45602.0 852.0 1617.0 1202.0 0 c 0 0 0 49209.0 47865.0 45405.0 52875.0 161.0 52366.0 51112.0 51045.0 0 g 0 0 0 1583.0 1214.0 1422.0 793.0 6598.0 1470.0 1870.0 1005.0 0 t 0 0 0 2560.0 4633.0 1969.0 976.0 3456.0 1129.0 1218.0 2565.0 0

MA1615.2_rc_shift0 (Plagl1_rc)
; oligos_6nt_mkv2_m3 versus MA1615.2_rc (Plagl1_rc); m=4/15; ncol2=8; w=-1; offset=-1; strand=R; shift=0; score=0.486745; TGGCCCCa---- ; cor=; Ncor= a 371.0 398.0 321.0 142.0 183.0 323.0 118.0 9425.0 0 0 0 0 c 1032.0 422.0 313.0 13495.0 13517.0 12261.0 13595.0 1338.0 0 0 0 0 g 686.0 13152.0 12737.0 336.0 266.0 356.0 243.0 1471.0 0 0 0 0 t 12064.0 181.0 782.0 180.0 187.0 1213.0 197.0 1919.0 0 0 0 0

MA1629.2_shift4 (Zic2)
; oligos_6nt_mkv2_m3 versus MA1629.2 (Zic2); m=5/15; ncol2=9; w=0; offset=3; strand=D; shift=4; score=0.486492; ----CaCAGCAG ; cor=; Ncor= a 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 9933.0 1765.0 11476.0 391.0 228.0 11272.0 118.0 133.0 g 0 0 0 0 585.0 829.0 188.0 186.0 11484.0 269.0 735.0 11184.0 t 0 0 0 0 240.0 2437.0 120.0 268.0 67.0 298.0 441.0 410.0

MA0056.3_shift0 (MZF1)
; oligos_6nt_mkv2_m3 versus MA0056.3 (MZF1); m=6/15; ncol2=8; w=-1; offset=-1; strand=D; shift=0; score=0.468842; AATCCCCA---- ; cor=; Ncor= a 5855.0 7149.0 106.0 100.0 135.0 111.0 117.0 6036.0 0 0 0 0 c 1016.0 426.0 56.0 7949.0 7939.0 7919.0 7673.0 611.0 0 0 0 0 g 999.0 385.0 98.0 100.0 54.0 58.0 83.0 484.0 0 0 0 0 t 372.0 282.0 7982.0 93.0 114.0 154.0 369.0 1111.0 0 0 0 0

MA1997.2_shift6 (Olig2)
; oligos_6nt_mkv2_m3 versus MA1997.2 (Olig2); m=7/15; ncol2=6; w=0; offset=5; strand=D; shift=6; score=0.450051; ------CAGCTG ; cor=; Ncor= a 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 60968.0 668.0 18.0 61069.0 741.0 114.0 g 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 50.0 0.0 41.0 14.0 59733.0 10.0

MA0633.3_rc_shift6 (Twist2_rc)
; oligos_6nt_mkv2_m3 versus MA0633.3_rc (Twist2_rc); m=8/15; ncol2=6; w=0; offset=5; strand=R; shift=6; score=0.449658; ------CAGCTG ; cor=; Ncor= a 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 49473.0 342.0 16.0 49583.0 369.0 81.0 g 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 60.0 0.0 21.0 9.0 48915.0 15.0

MA1993.2_shift6 (Neurod2)
; oligos_6nt_mkv2_m3 versus MA1993.2 (Neurod2); m=9/15; ncol2=6; w=0; offset=5; strand=D; shift=6; score=0.449605; ------CAGCTG ; cor=; Ncor= a 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 53913.0 310.0 15.0 53984.0 434.0 58.0 g 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 39.0 0.0 17.0 8.0 53280.0 14.0

MA1578.2_shift1 (VEZF1)
; oligos_6nt_mkv2_m3 versus MA1578.2 (VEZF1); m=10/15; ncol2=6; w=0; offset=0; strand=D; shift=1; score=0.449296; -CCCCCC----- ; cor=; Ncor= a 0 71.0 1.0 4.0 2.0 6.0 10.0 0 0 0 0 0 c 0 790.0 997.0 995.0 997.0 989.0 977.0 0 0 0 0 0 g 0 137.0 0.0 0.0 0.0 0.0 3.0 0 0 0 0 0 t 0 0.0 0.0 0.0 0.0 4.0 8.0 0 0 0 0 0

MA1635.2_shift6 (BHLHE22)
; oligos_6nt_mkv2_m3 versus MA1635.2 (BHLHE22); m=11/15; ncol2=6; w=0; offset=5; strand=D; shift=6; score=0.448804; ------CAGCTG ; cor=; Ncor= a 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 18331.0 37.0 53.0 18288.0 52.0 15.0 g 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 14.0 0.0 14.0 1.0 18267.0 0.0

MA0521.3_shift6 (Tcf12)
; oligos_6nt_mkv2_m3 versus MA0521.3 (Tcf12); m=12/15; ncol2=6; w=0; offset=5; strand=D; shift=6; score=0.444692; ------CAGCTG ; cor=; Ncor= a 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 72674.0 739.0 1814.0 69780.0 632.0 402.0 g 0 0 0 0 0 0 404.0 632.0 69780.0 1814.0 738.0 72670.0 t 0 0 0 0 0 0 550.0 341.0 1565.0 836.0 72284.0 374.0

MA0500.3_shift5 (MYOG)
; oligos_6nt_mkv2_m3 versus MA0500.3 (MYOG); m=13/15; ncol2=8; w=0; offset=4; strand=D; shift=5; score=0.410842; -----rCAGCTG ; cor=; Ncor= a 0 0 0 0 0 7159.0 86.0 21782.0 95.0 167.0 163.0 182.0 c 0 0 0 0 0 2730.0 21988.0 176.0 130.0 21964.0 238.0 102.0 g 0 0 0 0 0 10790.0 101.0 236.0 21963.0 131.0 179.0 21985.0 t 0 0 0 0 0 1678.0 182.0 163.0 169.0 95.0 21777.0 88.0

MA1628.2_shift6 (Zic1::Zic2)
; oligos_6nt_mkv2_m3 versus MA1628.2 (Zic1::Zic2); m=14/15; ncol2=7; w=0; offset=5; strand=D; shift=6; score=0.408393; ------CAGCAG ; cor=; Ncor= a 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 9594.0 384.0 195.0 9293.0 311.0 512.0 g 0 0 0 0 0 0 106.0 266.0 9527.0 96.0 627.0 9279.0 t 0 0 0 0 0 0 163.0 4.0 74.0 428.0 4.0 90.0

MA0697.3_shift6 (Zic3)
; oligos_6nt_mkv2_m3 versus MA0697.3 (Zic3); m=15/15; ncol2=7; w=0; offset=5; strand=D; shift=6; score=0.408228; ------CAGCAG ; cor=; Ncor= a 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 25035.0 872.0 670.0 24272.0 568.0 500.0 g 0 0 0 0 0 0 460.0 759.0 24907.0 756.0 1768.0 24314.0 t 0 0 0 0 0 0 334.0 596.0 266.0 792.0 858.0 967.0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m4_shift3 ; 36 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m4_shift3 (oligos_7nt_mkv2_m4)
; oligos_7nt_mkv2_m4; m=0 (reference); ncol1=12; shift=3; ncol=15; ---amAAAACAAAam ; Alignment reference a 0 0 0 40 42 100 106 102 100 0 104 103 99 51 37 c 0 0 0 26 31 4 4 4 6 103 7 5 6 25 35 g 0 0 0 27 23 5 4 3 7 1 1 2 4 20 19 t 0 0 0 21 18 5 0 5 1 10 2 4 5 18 23

MA0847.4_shift4 (FOXD2)
; oligos_7nt_mkv2_m4 versus MA0847.4 (FOXD2); m=1/35; ncol2=11; w=0; offset=1; strand=D; shift=4; score=0.649496; ----yTAAryAAACA ; cor=; Ncor= a 0 0 0 0 219.0 480.0 2484.0 2484.0 2484.0 84.0 2484.0 2484.0 2484.0 0.0 2484.0 c 0 0 0 0 906.0 19.0 16.0 285.0 23.0 1342.0 81.0 23.0 0.0 2484.0 24.0 g 0 0 0 0 131.0 0.0 137.0 292.0 1615.0 3.0 0.0 18.0 5.0 0.0 34.0 t 0 0 0 0 1578.0 2004.0 0.0 262.0 4.0 1141.0 79.0 1.0 2.0 768.0 232.0

MA0041.3_shift1 (FOXD3)
; oligos_7nt_mkv2_m4 versus MA0041.3 (FOXD3); m=2/35; ncol2=14; w=-2; offset=-2; strand=D; shift=1; score=0.629721; -wawrhAAAYAAACa ; cor=; Ncor= a 0 86.0 120.0 91.0 56.0 99.0 171.0 171.0 171.0 0.0 171.0 171.0 171.0 13.0 125.0 c 0 22.0 17.0 45.0 17.0 109.0 37.0 8.0 1.0 43.0 4.0 11.0 17.0 171.0 20.0 g 0 13.0 52.0 45.0 115.0 8.0 1.0 0.0 7.0 0.0 2.0 8.0 20.0 13.0 30.0 t 0 85.0 22.0 81.0 10.0 171.0 2.0 7.0 2.0 128.0 7.0 11.0 35.0 30.0 47.0

MA0515.1_rc_shift5 (Sox6_rc)
; oligos_7nt_mkv2_m4 versus MA0515.1_rc (Sox6_rc); m=3/35; ncol2=10; w=0; offset=2; strand=R; shift=5; score=0.607879; -----rrrACAAwGg ; cor=; Ncor= a 0 0 0 0 0 128.0 133.0 129.0 249.0 0.0 249.0 249.0 88.0 28.0 56.0 c 0 0 0 0 0 31.0 0.0 5.0 0.0 249.0 0.0 0.0 0.0 0.0 50.0 g 0 0 0 0 0 76.0 112.0 115.0 0.0 0.0 0.0 0.0 0.0 221.0 139.0 t 0 0 0 0 0 14.0 4.0 0.0 0.0 0.0 0.0 0.0 161.0 0.0 4.0

MA0867.3_shift7 (SOX4)
; oligos_7nt_mkv2_m4 versus MA0867.3 (SOX4); m=4/35; ncol2=8; w=0; offset=4; strand=D; shift=7; score=0.576312; -------aACAAwGr ; cor=; Ncor= a 0 0 0 0 0 0 0 5582.0 5582.0 0.0 5582.0 5582.0 5582.0 1018.0 2093.0 c 0 0 0 0 0 0 0 951.0 0.0 5582.0 1.0 6.0 120.0 64.0 1422.0 g 0 0 0 0 0 0 0 2047.0 0.0 37.0 6.0 11.0 50.0 5582.0 3489.0 t 0 0 0 0 0 0 0 431.0 9.0 33.0 0.0 0.0 2719.0 83.0 174.0

MA0851.2_shift4 (Foxj3)
; oligos_7nt_mkv2_m4 versus MA0851.2 (Foxj3); m=5/35; ncol2=9; w=0; offset=1; strand=D; shift=4; score=0.574023; ----RTAAACAAw-- ; cor=; Ncor= a 0 0 0 0 30.0 1.0 91.0 96.0 99.0 0.0 99.0 79.0 57.0 0 0 c 0 0 0 0 1.0 2.0 8.0 2.0 0.0 81.0 0.0 7.0 9.0 0 0 g 0 0 0 0 68.0 0.0 0.0 0.0 0.0 0.0 0.0 6.0 7.0 0 0 t 0 0 0 0 0.0 97.0 0.0 3.0 1.0 18.0 1.0 9.0 27.0 0 0

MA0030.2_shift3 (FOXF2)
; oligos_7nt_mkv2_m4 versus MA0030.2 (FOXF2); m=6/35; ncol2=9; w=0; offset=0; strand=D; shift=3; score=0.550525; ---sRTAAACAa--- ; cor=; Ncor= a 0 0 0 3.0 7.0 0.0 27.0 27.0 27.0 0.0 27.0 16.0 0 0 0 c 0 0 0 11.0 0.0 0.0 0.0 0.0 0.0 25.0 0.0 4.0 0 0 0 g 0 0 0 8.0 20.0 0.0 0.0 0.0 0.0 0.0 0.0 2.0 0 0 0 t 0 0 0 0.0 0.0 27.0 0.0 0.0 0.0 2.0 0.0 5.0 0 0 0

MA0593.2_shift3 (FOXP2)
; oligos_7nt_mkv2_m4 versus MA0593.2 (FOXP2); m=7/35; ncol2=9; w=0; offset=0; strand=D; shift=3; score=0.545982; ---wGTAAACAr--- ; cor=; Ncor= a 0 0 0 340.0 160.0 59.0 766.0 766.0 766.0 0.0 766.0 297.0 0 0 0 c 0 0 0 7.0 0.0 0.0 0.0 0.0 0.0 757.0 0.0 154.0 0 0 0 g 0 0 0 142.0 606.0 0.0 0.0 0.0 0.0 0.0 0.0 293.0 0 0 0 t 0 0 0 277.0 0.0 707.0 0.0 0.0 0.0 9.0 0.0 22.0 0 0 0

MA1125.2_shift5 (ZNF384)
; oligos_7nt_mkv2_m4 versus MA1125.2 (ZNF384); m=8/35; ncol2=8; w=0; offset=2; strand=D; shift=5; score=0.521476; -----AAAAAAaa-- ; cor=; Ncor= a 0 0 0 0 0 30354.0 30191.0 30072.0 30252.0 30202.0 30406.0 20322.0 18916.0 0 0 c 0 0 0 0 0 7.0 35.0 21.0 13.0 26.0 6.0 2908.0 3963.0 0 0 g 0 0 0 0 0 13.0 19.0 26.0 15.0 14.0 0.0 2767.0 2898.0 0 0 t 0 0 0 0 0 59.0 188.0 314.0 153.0 191.0 21.0 4436.0 4656.0 0 0

MA0614.1_shift4 (Foxj2)
; oligos_7nt_mkv2_m4 versus MA0614.1 (Foxj2); m=9/35; ncol2=8; w=0; offset=1; strand=D; shift=4; score=0.513672; ----rTAAACAa--- ; cor=; Ncor= a 0 0 0 0 461.0 50.0 795.0 977.0 999.0 0.0 999.0 593.0 0 0 0 c 0 0 0 0 0.0 25.0 205.0 0.0 0.0 954.0 0.0 125.0 0 0 0 g 0 0 0 0 538.0 0.0 0.0 0.0 0.0 0.0 0.0 125.0 0 0 0 t 0 0 0 0 0.0 924.0 0.0 22.0 0.0 46.0 0.0 156.0 0 0 0

MA0869.3_shift6 (Sox11)
; oligos_7nt_mkv2_m4 versus MA0869.3 (Sox11); m=10/35; ncol2=8; w=0; offset=3; strand=D; shift=6; score=0.504091; ------GAACAAAG- ; cor=; Ncor= a 0 0 0 0 0 0 1014.0 7912.0 9856.0 119.0 10020.0 9676.0 9276.0 506.0 0 c 0 0 0 0 0 0 764.0 766.0 100.0 9471.0 108.0 264.0 61.0 148.0 0 g 0 0 0 0 0 0 8063.0 1298.0 211.0 501.0 49.0 248.0 233.0 9486.0 0 t 0 0 0 0 0 0 407.0 272.0 81.0 157.0 71.0 60.0 678.0 108.0 0

MA1489.1_shift4 (FOXN3)
; oligos_7nt_mkv2_m4 versus MA1489.1 (FOXN3); m=11/35; ncol2=8; w=0; offset=1; strand=D; shift=4; score=0.500368; ----GTAAACAA--- ; cor=; Ncor= a 0 0 0 0 9.0 9.0 971.0 971.0 971.0 9.0 971.0 971.0 0 0 0 c 0 0 0 0 9.0 9.0 9.0 9.0 9.0 971.0 9.0 9.0 0 0 0 g 0 0 0 0 971.0 9.0 9.0 9.0 9.0 9.0 9.0 9.0 0 0 0 t 0 0 0 0 9.0 971.0 9.0 9.0 9.0 9.0 9.0 9.0 0 0 0

MA1487.3_shift0 (FOXE1)
; oligos_7nt_mkv2_m4 versus MA1487.3 (FOXE1); m=12/35; ncol2=12; w=-3; offset=-3; strand=D; shift=0; score=0.499225; yTAARyAAACAa--- ; cor=; Ncor= a 86.0 581.0 3126.0 2547.0 2255.0 587.0 3126.0 3126.0 3126.0 0.0 3126.0 2026.0 0 0 0 c 1646.0 43.0 28.0 113.0 117.0 1062.0 362.0 90.0 0.0 3126.0 32.0 392.0 0 0 0 g 57.0 0.0 402.0 116.0 871.0 17.0 0.0 0.0 23.0 0.0 18.0 258.0 0 0 0 t 1479.0 2545.0 43.0 579.0 27.0 2064.0 20.0 53.0 9.0 85.0 110.0 450.0 0 0 0

MA0613.1_shift4 (FOXG1)
; oligos_7nt_mkv2_m4 versus MA0613.1 (FOXG1); m=13/35; ncol2=8; w=0; offset=1; strand=D; shift=4; score=0.496671; ----rTAAACAw--- ; cor=; Ncor= a 0 0 0 0 374.0 1.0 997.0 997.0 997.0 1.0 997.0 498.0 0 0 0 c 0 0 0 0 1.0 1.0 1.0 1.0 1.0 997.0 1.0 167.0 0 0 0 g 0 0 0 0 623.0 1.0 1.0 1.0 1.0 1.0 1.0 2.0 0 0 0 t 0 0 0 0 1.0 997.0 1.0 1.0 1.0 1.0 1.0 333.0 0 0 0

MA1152.2_rc_shift8 (SOX15_rc)
; oligos_7nt_mkv2_m4 versus MA1152.2_rc (SOX15_rc); m=14/35; ncol2=7; w=0; offset=5; strand=R; shift=8; score=0.494421; --------ACAAwrr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 971.0 5.0 994.0 988.0 362.0 501.0 267.0 c 0 0 0 0 0 0 0 0 3.0 890.0 2.0 6.0 5.0 26.0 147.0 g 0 0 0 0 0 0 0 0 2.0 21.0 2.0 3.0 3.0 412.0 554.0 t 0 0 0 0 0 0 0 0 24.0 83.0 3.0 3.0 631.0 62.0 32.0

MA0084.2_shift6 (SRY)
; oligos_7nt_mkv2_m4 versus MA0084.2 (SRY); m=15/35; ncol2=7; w=0; offset=3; strand=D; shift=6; score=0.488295; ------waACAAw-- ; cor=; Ncor= a 0 0 0 0 0 0 15.0 18.0 25.0 0.0 28.0 27.0 7.0 0 0 c 0 0 0 0 0 0 0.0 3.0 0.0 26.0 0.0 0.0 0.0 0 0 g 0 0 0 0 0 0 3.0 3.0 0.0 0.0 0.0 1.0 2.0 0 0 t 0 0 0 0 0 0 10.0 4.0 3.0 2.0 0.0 0.0 19.0 0 0

MA0846.2_shift1 (FOXC2)
; oligos_7nt_mkv2_m4 versus MA0846.2 (FOXC2); m=16/35; ncol2=11; w=-2; offset=-2; strand=D; shift=1; score=0.480959; -wAwrTAAAYAw--- ; cor=; Ncor= a 0 8939.0 20456.0 11301.0 6418.0 2005.0 20456.0 20456.0 20456.0 31.0 20456.0 13296.0 0 0 0 c 0 1279.0 1652.0 3476.0 440.0 3773.0 6759.0 344.0 105.0 14435.0 101.0 2087.0 0 0 0 g 0 454.0 5093.0 3129.0 14038.0 321.0 87.0 81.0 279.0 68.0 328.0 1710.0 0 0 0 t 0 11517.0 2080.0 9155.0 136.0 20456.0 122.0 107.0 242.0 6021.0 215.0 7160.0 0 0 0

MA2118.1_shift3 (FOXS1)
; oligos_7nt_mkv2_m4 versus MA2118.1 (FOXS1); m=17/35; ncol2=8; w=0; offset=0; strand=D; shift=3; score=0.469394; ---tGTAAACA---- ; cor=; Ncor= a 0 0 0 66.0 36.0 13.0 345.0 345.0 361.0 9.0 356.0 0 0 0 0 c 0 0 0 20.0 8.0 15.0 15.0 16.0 3.0 322.0 5.0 0 0 0 0 g 0 0 0 49.0 323.0 12.0 5.0 8.0 5.0 7.0 3.0 0 0 0 0 t 0 0 0 239.0 7.0 334.0 9.0 5.0 5.0 36.0 10.0 0 0 0 0

MA0868.3_shift7 (SOX8)
; oligos_7nt_mkv2_m4 versus MA0868.3 (SOX8); m=18/35; ncol2=7; w=0; offset=4; strand=D; shift=7; score=0.467705; -------AACAATr- ; cor=; Ncor= a 0 0 0 0 0 0 0 1827.0 1827.0 3.0 1827.0 1827.0 273.0 1356.0 0 c 0 0 0 0 0 0 0 151.0 0.0 1827.0 0.0 43.0 36.0 208.0 0 g 0 0 0 0 0 0 0 263.0 0.0 35.0 0.0 0.0 20.0 1827.0 0 t 0 0 0 0 0 0 0 222.0 45.0 70.0 16.0 36.0 1827.0 287.0 0

MA1563.2_shift7 (SOX18)
; oligos_7nt_mkv2_m4 versus MA1563.2 (SOX18); m=19/35; ncol2=8; w=0; offset=4; strand=D; shift=7; score=0.467538; -------aACAATdv ; cor=; Ncor= a 0 0 0 0 0 0 0 424.0 424.0 0.0 424.0 424.0 0.0 203.0 382.0 c 0 0 0 0 0 0 0 81.0 0.0 424.0 0.0 35.0 0.0 0.0 551.0 g 0 0 0 0 0 0 0 170.0 0.0 91.0 0.0 17.0 0.0 221.0 424.0 t 0 0 0 0 0 0 0 34.0 0.0 2.0 0.0 0.0 447.0 228.0 0.0

MA0850.1_shift4 (FOXP3)
; oligos_7nt_mkv2_m4 versus MA0850.1 (FOXP3); m=20/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.443603; ----rTAAACA---- ; cor=; Ncor= a 0 0 0 0 74.0 20.0 211.0 211.0 211.0 0.0 211.0 0 0 0 0 c 0 0 0 0 0.0 52.0 0.0 0.0 15.0 211.0 0.0 0 0 0 0 g 0 0 0 0 137.0 0.0 0.0 9.0 49.0 32.0 18.0 0 0 0 0 t 0 0 0 0 0.0 211.0 31.0 8.0 0.0 39.0 0.0 0 0 0 0

MA1606.2_shift4 (Foxf1)
; oligos_7nt_mkv2_m4 versus MA1606.2 (Foxf1); m=21/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.442921; ----rTAAACA---- ; cor=; Ncor= a 0 0 0 0 18534.0 568.0 57293.0 53942.0 57167.0 437.0 56436.0 0 0 0 0 c 0 0 0 0 3754.0 446.0 899.0 2249.0 475.0 54394.0 745.0 0 0 0 0 g 0 0 0 0 33599.0 1158.0 445.0 811.0 1067.0 522.0 443.0 0 0 0 0 t 0 0 0 0 3653.0 57368.0 903.0 2538.0 831.0 4187.0 1916.0 0 0 0 0

MA0442.3_shift8 (SOX10)
; oligos_7nt_mkv2_m4 versus MA0442.3 (SOX10); m=22/35; ncol2=6; w=0; offset=5; strand=D; shift=8; score=0.43971; --------ACAAAG- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 2023.0 3.0 2029.0 1968.0 1959.0 10.0 0 c 0 0 0 0 0 0 0 0 4.0 1989.0 7.0 28.0 23.0 13.0 0 g 0 0 0 0 0 0 0 0 3.0 11.0 7.0 20.0 12.0 2012.0 0 t 0 0 0 0 0 0 0 0 25.0 52.0 12.0 39.0 61.0 20.0 0

MA0033.2_shift4 (FOXL1)
; oligos_7nt_mkv2_m4 versus MA0033.2 (FOXL1); m=23/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.439206; ----rTAAACA---- ; cor=; Ncor= a 0 0 0 0 2102.0 10.0 4780.0 4780.0 4780.0 0.0 4780.0 0 0 0 0 c 0 0 0 0 13.0 416.0 628.0 38.0 82.0 3723.0 54.0 0 0 0 0 g 0 0 0 0 2678.0 0.0 57.0 0.0 50.0 0.0 0.0 0 0 0 0 t 0 0 0 0 140.0 4780.0 0.0 15.0 0.0 1057.0 17.0 0 0 0 0

MA0157.4_shift4 (Foxo3)
; oligos_7nt_mkv2_m4 versus MA0157.4 (Foxo3); m=24/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.438847; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 3470.0 1546.0 22240.0 22288.0 22551.0 403.0 22141.0 0 0 0 0 c 0 0 0 0 590.0 435.0 968.0 803.0 483.0 21237.0 587.0 0 0 0 0 g 0 0 0 0 19202.0 1199.0 328.0 333.0 464.0 361.0 361.0 0 0 0 0 t 0 0 0 0 650.0 20732.0 376.0 488.0 414.0 1911.0 823.0 0 0 0 0

MA0852.3_shift4 (FOXK1)
; oligos_7nt_mkv2_m4 versus MA0852.3 (FOXK1); m=25/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.437797; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 143.0 60.0 1003.0 999.0 1022.0 10.0 1015.0 0 0 0 0 c 0 0 0 0 28.0 5.0 37.0 37.0 13.0 958.0 16.0 0 0 0 0 g 0 0 0 0 868.0 44.0 10.0 11.0 10.0 12.0 12.0 0 0 0 0 t 0 0 0 0 17.0 947.0 6.0 9.0 11.0 76.0 13.0 0 0 0 0

MA0480.3_shift4 (Foxo1)
; oligos_7nt_mkv2_m4 versus MA0480.3 (Foxo1); m=26/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.437054; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 1411.0 945.0 12408.0 12663.0 12972.0 293.0 13332.0 0 0 0 0 c 0 0 0 0 481.0 555.0 934.0 849.0 387.0 12710.0 277.0 0 0 0 0 g 0 0 0 0 11670.0 1025.0 478.0 384.0 508.0 356.0 153.0 0 0 0 0 t 0 0 0 0 554.0 11591.0 296.0 220.0 249.0 757.0 354.0 0 0 0 0

MA0848.1_shift4 (FOXO4)
; oligos_7nt_mkv2_m4 versus MA0848.1 (FOXO4); m=27/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.432658; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 1669.0 345.0 5378.0 5378.0 5378.0 58.0 5378.0 0 0 0 0 c 0 0 0 0 13.0 69.0 1259.0 146.0 0.0 5378.0 10.0 0 0 0 0 g 0 0 0 0 5378.0 123.0 32.0 19.0 90.0 33.0 10.0 0 0 0 0 t 0 0 0 0 0.0 5378.0 20.0 20.0 10.0 958.0 40.0 0 0 0 0

MA1103.3_shift4 (FOXK2)
; oligos_7nt_mkv2_m4 versus MA1103.3 (FOXK2); m=28/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.425856; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 2697.0 360.0 15913.0 14387.0 15593.0 499.0 15709.0 0 0 0 0 c 0 0 0 0 551.0 210.0 277.0 1291.0 330.0 14282.0 295.0 0 0 0 0 g 0 0 0 0 12737.0 327.0 148.0 436.0 391.0 426.0 170.0 0 0 0 0 t 0 0 0 0 694.0 15782.0 341.0 565.0 365.0 1472.0 505.0 0 0 0 0

MA0849.1_shift4 (FOXO6)
; oligos_7nt_mkv2_m4 versus MA0849.1 (FOXO6); m=29/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.425694; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 1445.0 154.0 7025.0 7025.0 7025.0 0.0 7025.0 0 0 0 0 c 0 0 0 0 0.0 0.0 1147.0 195.0 0.0 7025.0 0.0 0 0 0 0 g 0 0 0 0 7025.0 32.0 7.0 0.0 0.0 31.0 13.0 0 0 0 0 t 0 0 0 0 0.0 7025.0 0.0 26.0 0.0 385.0 0.0 0 0 0 0

MA2117.1_shift4 (FOXP4)
; oligos_7nt_mkv2_m4 versus MA2117.1 (FOXP4); m=30/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.423482; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 2224.0 543.0 19122.0 19613.0 20280.0 379.0 20230.0 0 0 0 0 c 0 0 0 0 834.0 793.0 1545.0 1330.0 419.0 18349.0 443.0 0 0 0 0 g 0 0 0 0 17315.0 539.0 534.0 368.0 550.0 493.0 218.0 0 0 0 0 t 0 0 0 0 1294.0 19792.0 466.0 356.0 418.0 2446.0 776.0 0 0 0 0

MA0031.2_shift4 (FOXD1)
; oligos_7nt_mkv2_m4 versus MA0031.2 (FOXD1); m=31/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.417893; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 1.0 0.0 19.0 20.0 18.0 1.0 20.0 0 0 0 0 c 0 0 0 0 1.0 0.0 1.0 0.0 1.0 18.0 0.0 0 0 0 0 g 0 0 0 0 17.0 0.0 0.0 0.0 1.0 0.0 0.0 0 0 0 0 t 0 0 0 0 1.0 20.0 0.0 0.0 0.0 1.0 0.0 0 0 0 0

MA0042.2_shift4 (FOXI1)
; oligos_7nt_mkv2_m4 versus MA0042.2 (FOXI1); m=32/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.417299; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 618.0 74.0 5175.0 5175.0 5175.0 157.0 5175.0 0 0 0 0 c 0 0 0 0 39.0 60.0 540.0 23.0 23.0 5175.0 12.0 0 0 0 0 g 0 0 0 0 5175.0 35.0 37.0 0.0 29.0 48.0 25.0 0 0 0 0 t 0 0 0 0 0.0 5175.0 0.0 0.0 66.0 810.0 0.0 0 0 0 0

MA0481.4_shift4 (FOXP1)
; oligos_7nt_mkv2_m4 versus MA0481.4 (FOXP1); m=33/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.416852; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 10463.0 1209.0 69603.0 65236.0 70030.0 1336.0 68456.0 0 0 0 0 c 0 0 0 0 1573.0 727.0 2095.0 5067.0 1487.0 61094.0 1904.0 0 0 0 0 g 0 0 0 0 59571.0 920.0 1073.0 1830.0 1132.0 1493.0 749.0 0 0 0 0 t 0 0 0 0 3111.0 71862.0 1947.0 2585.0 2069.0 10795.0 3609.0 0 0 0 0

MA1683.2_shift4 (FOXA3)
; oligos_7nt_mkv2_m4 versus MA1683.2 (FOXA3); m=34/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.414675; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 4481.0 758.0 45178.0 43099.0 46046.0 951.0 45552.0 0 0 0 0 c 0 0 0 0 1464.0 903.0 1980.0 3883.0 973.0 39509.0 933.0 0 0 0 0 g 0 0 0 0 40396.0 690.0 636.0 977.0 934.0 1205.0 614.0 0 0 0 0 t 0 0 0 0 2596.0 46586.0 1143.0 978.0 984.0 7272.0 1838.0 0 0 0 0

MA1607.2_shift1 (Foxl2)
; oligos_7nt_mkv2_m4 versus MA1607.2 (Foxl2); m=35/35; ncol2=10; w=-2; offset=-2; strand=D; shift=1; score=0.403407; -waTGTAAACA---- ; cor=; Ncor= a 0 6433.0 11158.0 2985.0 2607.0 1097.0 17227.0 17212.0 17146.0 282.0 15623.0 0 0 0 0 c 0 1576.0 2051.0 896.0 367.0 301.0 558.0 336.0 216.0 15698.0 807.0 0 0 0 0 g 0 1599.0 2107.0 1371.0 14648.0 419.0 112.0 187.0 411.0 151.0 401.0 0 0 0 0 t 0 8493.0 2785.0 12849.0 479.0 16284.0 204.0 366.0 328.0 1970.0 1270.0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m2_shift0 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv2_m2_shift0 (oligos_6nt_mkv2_m2)
; oligos_6nt_mkv2_m2; m=0 (reference); ncol1=10; shift=0; ncol=10; ssGCGCGCss ; Alignment reference a 20 22 3 7 3 5 4 4 18 17 c 38 49 9 107 8 109 7 110 36 49 g 50 38 109 7 109 8 107 8 49 38 t 17 16 4 4 5 3 7 3 22 21

MA0632.3_shift0 (TCFL5)
; oligos_6nt_mkv2_m2 versus MA0632.3 (TCFL5); m=1/2; ncol2=8; w=0; offset=0; strand=D; shift=0; score=0.634809; kCrCGCGC-- ; cor=; Ncor= a 2810.0 0.0 72543.0 0.0 1566.0 1765.0 3520.0 1593.0 0 0 c 10582.0 72543.0 0.0 72543.0 0.0 57092.0 657.0 72543.0 0 0 g 22297.0 0.0 29710.0 0.0 72543.0 0.0 72543.0 4594.0 0 0 t 36854.0 0.0 9359.0 1643.0 0.0 15451.0 0.0 635.0 0 0

MA1650.2_shift2 (ZBTB14)
; oligos_6nt_mkv2_m2 versus MA1650.2 (ZBTB14); m=2/2; ncol2=8; w=0; offset=2; strand=D; shift=2; score=0.569266; --CCGCGCAC ; cor=; Ncor= a 0 0 335.0 41.0 93.0 68.0 132.0 56.0 4500.0 99.0 c 0 0 3525.0 4292.0 294.0 4078.0 305.0 4178.0 37.0 3674.0 g 0 0 614.0 155.0 4098.0 319.0 4043.0 261.0 10.0 651.0 t 0 0 73.0 59.0 62.0 82.0 67.0 52.0 0.0 123.0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m5_shift6 ; 8 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m5_shift6 (oligos_7nt_mkv2_m5)
; oligos_7nt_mkv2_m5; m=0 (reference); ncol1=12; shift=6; ncol=18; ------kmAGCCAAGAws ; Alignment reference a 0 0 0 0 0 0 18 27 58 4 6 2 71 77 5 72 22 18 c 0 0 0 0 0 0 15 25 6 3 69 73 3 1 2 3 13 24 g 0 0 0 0 0 0 24 15 7 68 4 2 5 0 70 4 17 21 t 0 0 0 0 0 0 23 13 9 5 1 3 1 2 3 1 28 17

MA1979.2_rc_shift8 (ZNF416_rc)
; oligos_7nt_mkv2_m5 versus MA1979.2_rc (ZNF416_rc); m=1/7; ncol2=10; w=0; offset=2; strand=R; shift=8; score=0.593718; --------tGCCCAGAtA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 66.0 18.0 3.0 3.0 2.0 336.0 3.0 254.0 46.0 240.0 c 0 0 0 0 0 0 0 0 29.0 3.0 341.0 335.0 335.0 1.0 7.0 15.0 77.0 26.0 g 0 0 0 0 0 0 0 0 38.0 320.0 1.0 5.0 7.0 6.0 334.0 28.0 25.0 32.0 t 0 0 0 0 0 0 0 0 212.0 4.0 0.0 2.0 1.0 2.0 1.0 48.0 197.0 47.0

MA1588.1_rc_shift5 (ZNF136_rc)
; oligos_7nt_mkv2_m5 versus MA1588.1_rc (ZNF136_rc); m=2/7; ncol2=15; w=-1; offset=-1; strand=R; shift=5; score=0.575603; -----gyCAACCaAGAAT ; cor=; Ncor= a 0 0 0 0 0 571.0 144.0 92.0 2956.0 2339.0 48.0 98.0 2164.0 3033.0 203.0 3078.0 3095.0 25.0 c 0 0 0 0 0 82.0 1048.0 2904.0 102.0 33.0 2995.0 2799.0 511.0 46.0 31.0 27.0 34.0 69.0 g 0 0 0 0 0 1973.0 120.0 40.0 60.0 672.0 48.0 17.0 93.0 83.0 2910.0 69.0 34.0 29.0 t 0 0 0 0 0 575.0 1889.0 165.0 83.0 157.0 110.0 287.0 433.0 39.0 57.0 27.0 38.0 3078.0

MA0161.3_rc_shift8 (NFIC_rc)
; oligos_7nt_mkv2_m5 versus MA0161.3_rc (NFIC_rc); m=3/7; ncol2=7; w=0; offset=2; strand=R; shift=8; score=0.505305; --------TGCCAAG--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 574.0 530.0 290.0 81.0 10745.0 10781.0 324.0 0 0 0 c 0 0 0 0 0 0 0 0 478.0 88.0 10973.0 11087.0 177.0 369.0 329.0 0 0 0 g 0 0 0 0 0 0 0 0 397.0 10725.0 121.0 129.0 333.0 303.0 10542.0 0 0 0 t 0 0 0 0 0 0 0 0 10158.0 264.0 223.0 310.0 352.0 154.0 412.0 0 0 0

MA1729.2_shift10 (ZNF680)
; oligos_7nt_mkv2_m5 versus MA1729.2 (ZNF680); m=4/7; ncol2=11; w=0; offset=4; strand=D; shift=10; score=0.448295; ----------CCAAGAAG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 418.0 1120.0 5394.0 4522.0 43.0 5681.0 5479.0 494.0 c 0 0 0 0 0 0 0 0 0 0 4870.0 4324.0 60.0 17.0 14.0 23.0 13.0 40.0 g 0 0 0 0 0 0 0 0 0 0 133.0 69.0 208.0 1116.0 5691.0 44.0 203.0 5144.0 t 0 0 0 0 0 0 0 0 0 0 345.0 253.0 104.0 111.0 18.0 18.0 71.0 88.0

MA0671.2_shift8 (NFIX)
; oligos_7nt_mkv2_m5 versus MA0671.2 (NFIX); m=5/7; ncol2=6; w=0; offset=2; strand=D; shift=8; score=0.444162; --------tGCCAr---- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 11279.0 132.0 3.0 0.0 32864.0 32864.0 0 0 0 0 c 0 0 0 0 0 0 0 0 9695.0 186.0 32864.0 32864.0 2230.0 1356.0 0 0 0 0 g 0 0 0 0 0 0 0 0 5911.0 32864.0 3257.0 0.0 180.0 12688.0 0 0 0 0 t 0 0 0 0 0 0 0 0 32864.0 2539.0 29.0 0.0 110.0 2399.0 0 0 0 0

MA0670.2_shift8 (NFIA)
; oligos_7nt_mkv2_m5 versus MA0670.2 (NFIA); m=6/7; ncol2=6; w=0; offset=2; strand=D; shift=8; score=0.414012; --------TGCCAA---- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0.0 0.0 0.0 0.0 89071.0 89418.0 0 0 0 0 c 0 0 0 0 0 0 0 0 0.0 0.0 93597.0 93394.0 0.0 0.0 0 0 0 0 g 0 0 0 0 0 0 0 0 0.0 98253.0 0.0 0.0 0.0 0.0 0 0 0 0 t 0 0 0 0 0 0 0 0 95496.0 0.0 0.0 0.0 0.0 0.0 0 0 0 0

MA0119.1_shift0 (NFIC::TLX1)
; oligos_7nt_mkv2_m5 versus MA0119.1 (NFIC::TLX1); m=7/7; ncol2=14; w=-6; offset=-6; strand=D; shift=0; score=0.402818; TGGCAssrwGCCAA---- ; cor=; Ncor= a 0.0 0.0 0.0 0.0 14.0 2.0 2.0 7.0 4.0 0.0 0.0 0.0 16.0 14.0 0 0 0 0 c 0.0 0.0 0.0 16.0 1.0 8.0 8.0 1.0 3.0 0.0 16.0 16.0 0.0 0.0 0 0 0 0 g 0.0 16.0 16.0 0.0 0.0 5.0 4.0 5.0 2.0 16.0 0.0 0.0 0.0 1.0 0 0 0 0 t 16.0 0.0 0.0 0.0 1.0 1.0 2.0 3.0 7.0 0.0 0.0 0.0 0.0 1.0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m3_shift0 ; 8 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m3_shift0 (oligos_7nt_mkv2_m3)
; oligos_7nt_mkv2_m3; m=0 (reference); ncol1=14; shift=0; ncol=14; aaAGAAAGAAAAar ; Alignment reference a 31 37 65 8 73 76 72 6 73 67 70 55 36 33 c 14 8 1 3 0 0 1 2 3 2 3 4 8 15 g 18 14 6 61 3 1 3 69 2 6 2 13 19 20 t 15 19 6 6 2 1 2 1 0 3 3 6 15 10

MA1623.2_shift1 (Stat2)
; oligos_7nt_mkv2_m3 versus MA1623.2 (Stat2); m=1/7; ncol2=10; w=0; offset=1; strand=D; shift=1; score=0.508153; -gAAACAGAAA--- ; cor=; Ncor= a 0 969.0 3554.0 3736.0 3738.0 286.0 3146.0 152.0 3700.0 3747.0 3514.0 0 0 0 c 0 306.0 76.0 75.0 72.0 2907.0 151.0 45.0 49.0 45.0 147.0 0 0 0 g 0 2287.0 168.0 71.0 87.0 524.0 74.0 3707.0 163.0 98.0 157.0 0 0 0 t 0 397.0 161.0 77.0 62.0 242.0 588.0 55.0 47.0 69.0 141.0 0 0 0

MA1125.2_shift4 (ZNF384)
; oligos_7nt_mkv2_m3 versus MA1125.2 (ZNF384); m=2/7; ncol2=8; w=0; offset=4; strand=D; shift=4; score=0.463279; ----AAAAAAaa-- ; cor=; Ncor= a 0 0 0 0 30354.0 30191.0 30072.0 30252.0 30202.0 30406.0 20322.0 18916.0 0 0 c 0 0 0 0 7.0 35.0 21.0 13.0 26.0 6.0 2908.0 3963.0 0 0 g 0 0 0 0 13.0 19.0 26.0 15.0 14.0 0.0 2767.0 2898.0 0 0 t 0 0 0 0 59.0 188.0 314.0 153.0 191.0 21.0 4436.0 4656.0 0 0

MA0508.4_rc_shift1 (PRDM1_rc)
; oligos_7nt_mkv2_m3 versus MA0508.4_rc (PRDM1_rc); m=3/7; ncol2=7; w=0; offset=1; strand=R; shift=1; score=0.444483; -GAGAAAG------ ; cor=; Ncor= a 0 660.0 49466.0 432.0 52619.0 50943.0 52905.0 829.0 0 0 0 0 0 0 c 0 290.0 1390.0 207.0 561.0 1011.0 826.0 701.0 0 0 0 0 0 0 g 0 52821.0 1076.0 53465.0 488.0 1346.0 467.0 52752.0 0 0 0 0 0 0 t 0 1710.0 3549.0 1377.0 1813.0 2181.0 1283.0 1199.0 0 0 0 0 0 0

MA0869.3_shift0 (Sox11)
; oligos_7nt_mkv2_m3 versus MA0869.3 (Sox11); m=4/7; ncol2=8; w=0; offset=0; strand=D; shift=0; score=0.43716; GAACAAAG------ ; cor=; Ncor= a 1014.0 7912.0 9856.0 119.0 10020.0 9676.0 9276.0 506.0 0 0 0 0 0 0 c 764.0 766.0 100.0 9471.0 108.0 264.0 61.0 148.0 0 0 0 0 0 0 g 8063.0 1298.0 211.0 501.0 49.0 248.0 233.0 9486.0 0 0 0 0 0 0 t 407.0 272.0 81.0 157.0 71.0 60.0 678.0 108.0 0 0 0 0 0 0

MA0037.5_rc_shift6 (Gata3_rc)
; oligos_7nt_mkv2_m3 versus MA0037.5_rc (Gata3_rc); m=5/7; ncol2=8; w=0; offset=6; strand=R; shift=6; score=0.410717; ------AGATAAGa ; cor=; Ncor= a 0 0 0 0 0 0 20257.0 480.0 23868.0 800.0 22166.0 22866.0 2055.0 16442.0 c 0 0 0 0 0 0 608.0 255.0 291.0 528.0 960.0 280.0 2165.0 2551.0 g 0 0 0 0 0 0 903.0 23839.0 282.0 566.0 758.0 928.0 19702.0 3859.0 t 0 0 0 0 0 0 3100.0 294.0 427.0 22974.0 984.0 794.0 946.0 2016.0

MA1970.2_rc_shift6 (TRPS1_rc)
; oligos_7nt_mkv2_m3 versus MA1970.2_rc (TRPS1_rc); m=6/7; ncol2=8; w=0; offset=6; strand=R; shift=6; score=0.402495; ------AGATAAGA ; cor=; Ncor= a 0 0 0 0 0 0 13985.0 622.0 17527.0 299.0 16498.0 16758.0 1654.0 12628.0 c 0 0 0 0 0 0 716.0 263.0 179.0 329.0 449.0 320.0 1426.0 1749.0 g 0 0 0 0 0 0 792.0 17146.0 265.0 215.0 462.0 560.0 14262.0 2547.0 t 0 0 0 0 0 0 2790.0 252.0 312.0 17440.0 874.0 645.0 941.0 1359.0

MA1104.3_rc_shift6 (GATA6_rc)
; oligos_7nt_mkv2_m3 versus MA1104.3_rc (GATA6_rc); m=7/7; ncol2=8; w=0; offset=6; strand=R; shift=6; score=0.401466; ------AGATAAGA ; cor=; Ncor= a 0 0 0 0 0 0 61257.0 1706.0 76629.0 1124.0 72392.0 74865.0 5514.0 54635.0 c 0 0 0 0 0 0 1810.0 712.0 456.0 819.0 615.0 580.0 6459.0 7066.0 g 0 0 0 0 0 0 3228.0 75930.0 852.0 815.0 1393.0 1439.0 62936.0 11831.0 t 0 0 0 0 0 0 13149.0 1096.0 1507.0 76686.0 5044.0 2560.0 4535.0 5912.0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m1_shift6 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv2_m1_shift6 (oligos_6nt_mkv2_m1)
; oligos_6nt_mkv2_m1; m=0 (reference); ncol1=13; shift=6; ncol=19; ------svgCCCGGCggss ; Alignment reference a 0 0 0 0 0 0 16 27 13 3 5 5 3 3 2 7 14 10 9 c 0 0 0 0 0 0 39 27 11 87 83 87 9 11 91 21 24 34 37 g 0 0 0 0 0 0 31 29 67 9 9 8 87 85 3 60 49 41 38 t 0 0 0 0 0 0 15 18 10 2 4 1 2 2 5 13 14 16 17

MA2328.1_shift5 (ZBED4)
; oligos_6nt_mkv2_m1 versus MA2328.1 (ZBED4); m=1/2; ncol2=10; w=-1; offset=-1; strand=D; shift=5; score=0.463893; -----CcCGCyCCGC---- ; cor=; Ncor= a 0 0 0 0 0 41.0 26.0 29.0 17.0 6.0 11.0 14.0 12.0 22.0 19.0 0 0 0 0 c 0 0 0 0 0 479.0 419.0 549.0 14.0 621.0 391.0 598.0 604.0 19.0 589.0 0 0 0 0 g 0 0 0 0 0 80.0 65.0 62.0 608.0 26.0 28.0 34.0 23.0 580.0 35.0 0 0 0 0 t 0 0 0 0 0 60.0 150.0 20.0 21.0 7.0 230.0 14.0 21.0 39.0 17.0 0 0 0 0

MA1722.2_shift0 (ZSCAN31)
; oligos_6nt_mkv2_m1 versus MA1722.2 (ZSCAN31); m=2/2; ncol2=18; w=-6; offset=-6; strand=D; shift=0; score=0.443256; GCATAAyTGCCCTGCkkC- ; cor=; Ncor= a 1041.0 51.0 6693.0 3.0 6722.0 7143.0 38.0 42.0 11.0 9.0 51.0 28.0 37.0 22.0 28.0 1811.0 1651.0 640.0 0 c 108.0 6741.0 1563.0 1.0 2.0 6.0 6451.0 11.0 80.0 7141.0 7066.0 7073.0 438.0 0.0 7114.0 173.0 1112.0 6344.0 0 g 6160.0 152.0 12.0 0.0 1.0 70.0 3.0 960.0 7077.0 9.0 14.0 122.0 26.0 7143.0 3.0 4197.0 3084.0 457.0 0 t 1529.0 1353.0 4.0 7148.0 1660.0 0.0 3376.0 6181.0 90.0 22.0 291.0 69.0 6989.0 10.0 120.0 2569.0 3109.0 990.0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m1_shift1 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m1_shift1 (oligos_7nt_mkv2_m1)
; oligos_7nt_mkv2_m1; m=0 (reference); ncol1=14; shift=1; ncol=15; -ssGCCCGGCgsssg ; Alignment reference a 0 18 20 7 3 5 5 5 2 2 7 11 9 7 13 c 0 31 24 3 75 71 66 7 9 76 15 22 22 30 21 g 0 25 26 73 7 7 12 72 73 3 55 40 46 33 33 t 0 12 16 3 1 3 3 2 2 5 9 13 9 16 19

MA2328.1_shift0 (ZBED4)
; oligos_7nt_mkv2_m1 versus MA2328.1 (ZBED4); m=1/4; ncol2=10; w=-1; offset=-1; strand=D; shift=0; score=0.439789; 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

MA1513.2_rc_shift6 (KLF15_rc)
; oligos_7nt_mkv2_m1 versus MA1513.2_rc (KLF15_rc); m=2/4; ncol2=8; w=0; offset=5; strand=R; shift=6; score=0.433128; ------GGGCGGGg- ; cor=; Ncor= a 0 0 0 0 0 0 3.0 1.0 11.0 0.0 0.0 3.0 9.0 1809.0 0 c 0 0 0 0 0 0 100.0 359.0 2.0 11369.0 1.0 333.0 86.0 2117.0 0 g 0 0 0 0 0 0 11254.0 10954.0 11345.0 0.0 11368.0 10940.0 11234.0 6506.0 0 t 0 0 0 0 0 0 12.0 55.0 11.0 0.0 0.0 93.0 40.0 937.0 0

MA0471.3_shift7 (E2F6)
; oligos_7nt_mkv2_m1 versus MA0471.3 (E2F6); m=3/4; ncol2=8; w=0; offset=6; strand=D; shift=7; score=0.414802; -------GGCGGGAA ; cor=; Ncor= a 0 0 0 0 0 0 0 2110.0 266.0 3856.0 1173.0 338.0 354.0 29337.0 25725.0 c 0 0 0 0 0 0 0 1148.0 837.0 26424.0 539.0 434.0 834.0 1171.0 1595.0 g 0 0 0 0 0 0 0 29387.0 31790.0 693.0 30573.0 31973.0 31614.0 2322.0 5021.0 t 0 0 0 0 0 0 0 453.0 205.0 2125.0 813.0 353.0 296.0 268.0 757.0

MA1959.2_shift6 (KLF7)
; oligos_7nt_mkv2_m1 versus MA1959.2 (KLF7); m=4/4; ncol2=8; w=0; offset=5; strand=D; shift=6; score=0.403478; ------GGGCGKgG- ; cor=; Ncor= a 0 0 0 0 0 0 1.0 1.0 1.0 45.0 1.0 1.0 150.0 1.0 0 c 0 0 0 0 0 0 1.0 1.0 1.0 788.0 1.0 25.0 42.0 1.0 0 g 0 0 0 0 0 0 997.0 997.0 997.0 1.0 997.0 720.0 642.0 997.0 0 t 0 0 0 0 0 0 1.0 1.0 1.0 167.0 1.0 254.0 167.0 1.0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv2_m4_shift5 (oligos_6nt_mkv2_m4)				; oligos_6nt_mkv2_m4; m=0 (reference); ncol1=10; shift=5; ncol=15; -----ysCCTCCCws ; Alignment reference a 0 0 0 0 0 24 15 1 0 5 4 2 0 32 30 c 0 0 0 0 0 37 50 123 123 0 120 119 124 28 43 g 0 0 0 0 0 29 41 3 2 7 1 6 3 27 32 t 0 0 0 0 0 37 21 0 2 115 2 0 0 40 22
MA1653.2_shift5 (ZNF148)				; oligos_6nt_mkv2_m4 versus MA1653.2 (ZNF148); m=1/27; ncol2=10; w=0; offset=0; strand=D; shift=5; score=0.854376; -----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
MA1630.3_rc_shift5 (ZNF281_rc)				; oligos_6nt_mkv2_m4 versus MA1630.3_rc (ZNF281_rc); m=2/27; ncol2=10; w=0; offset=0; strand=R; shift=5; score=0.780065; -----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
MA0685.2_rc_shift5 (SP4_rc)				; oligos_6nt_mkv2_m4 versus MA0685.2_rc (SP4_rc); m=3/27; ncol2=9; w=0; offset=0; strand=R; shift=5; score=0.710686; -----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
MA1961.2_rc_shift4 (PATZ1_rc)				; oligos_6nt_mkv2_m4 versus MA1961.2_rc (PATZ1_rc); m=4/27; ncol2=11; w=-1; offset=-1; strand=R; shift=4; score=0.710078; ----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
MA0079.5_rc_shift5 (SP1_rc)				; oligos_6nt_mkv2_m4 versus MA0079.5_rc (SP1_rc); m=5/27; ncol2=9; w=0; offset=0; strand=R; shift=5; score=0.697617; -----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_mkv2_m4 versus MA1522.2 (MAZ); m=6/27; ncol2=8; w=0; offset=0; strand=D; shift=5; score=0.691999; -----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
MA0516.3_rc_shift5 (SP2_rc)				; oligos_6nt_mkv2_m4 versus MA0516.3_rc (SP2_rc); m=7/27; ncol2=9; w=0; offset=0; strand=R; shift=5; score=0.677832; -----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
MA0740.2_rc_shift5 (KLF14_rc)				; oligos_6nt_mkv2_m4 versus MA0740.2_rc (KLF14_rc); m=8/27; ncol2=9; w=0; offset=0; strand=R; shift=5; score=0.668999; -----CCMCGCCCm- ; cor=; Ncor= a 0 0 0 0 0 0.635877 0.635877 280.83 0.635877 90.067 0.635877 0.635877 0.635877 348.681 0 c 0 0 0 0 0 738.662 891.023 717.898 998.092 0.635877 998.092 998.092 998.092 619.525 0 g 0 0 0 0 0 62.0884 0.635877 0.635877 0.635877 814.392 0.635877 0.635877 0.635877 0.635877 0 t 0 0 0 0 0 198.614 107.705 0.635877 0.635877 94.9046 0.635877 0.635877 0.635877 31.158 0
MA0599.1_shift4 (KLF5)				; oligos_6nt_mkv2_m4 versus MA0599.1 (KLF5); m=9/27; ncol2=10; w=-1; offset=-1; strand=D; shift=4; score=0.656292; ----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
MA1511.2_rc_shift5 (KLF10_rc)				; oligos_6nt_mkv2_m4 versus MA1511.2_rc (KLF10_rc); m=10/27; ncol2=9; w=0; offset=0; strand=R; shift=5; score=0.63259; -----CCMCGCCCC- ; cor=; Ncor= a 0 0 0 0 0 49.3528 26.699 253.236 0.809061 152.913 0.809061 0.809061 0.809061 104.369 0 c 0 0 0 0 0 884.304 906.958 693.366 997.573 0.809061 997.573 997.573 997.573 819.579 0 g 0 0 0 0 0 0.809061 0.809061 52.589 0.809061 803.398 0.809061 0.809061 0.809061 0.809061 0 t 0 0 0 0 0 65.534 65.534 0.809061 0.809061 42.8803 0.809061 0.809061 0.809061 75.2427 0
MA0528.3_rc_shift6 (ZNF263_rc)				; oligos_6nt_mkv2_m4 versus MA0528.3_rc (ZNF263_rc); m=11/27; ncol2=7; w=0; offset=1; strand=R; shift=6; score=0.631577; ------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
MA0493.3_rc_shift5 (KLF1_rc)				; oligos_6nt_mkv2_m4 versus MA0493.3_rc (KLF1_rc); m=12/27; ncol2=8; w=0; offset=0; strand=R; shift=5; score=0.603957; -----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
MA1513.2_shift5 (KLF15)				; oligos_6nt_mkv2_m4 versus MA1513.2 (KLF15); m=13/27; ncol2=8; w=0; offset=0; strand=D; shift=5; score=0.603011; -----cCCCGCCC-- ; cor=; Ncor= a 0 0 0 0 0 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 0 0 c 0 0 0 0 0 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 0 0 g 0 0 0 0 0 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 0 0 t 0 0 0 0 0 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0 0 0
MA1965.2_shift7 (SP5)				; oligos_6nt_mkv2_m4 versus MA1965.2 (SP5); m=14/27; ncol2=6; w=0; offset=2; strand=D; shift=7; score=0.59943; -------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
MA1959.2_rc_shift5 (KLF7_rc)				; oligos_6nt_mkv2_m4 versus MA1959.2_rc (KLF7_rc); m=15/27; ncol2=8; w=0; offset=0; strand=R; shift=5; score=0.594844; -----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
MA0039.5_shift5 (KLF4)				; oligos_6nt_mkv2_m4 versus MA0039.5 (KLF4); m=16/27; ncol2=8; w=0; offset=0; strand=D; shift=5; score=0.593587; -----CCCCACCC-- ; cor=; Ncor= a 0 0 0 0 0 2465.0 2105.0 7021.0 1173.0 45602.0 852.0 1617.0 1202.0 0 0 c 0 0 0 0 0 49209.0 47865.0 45405.0 52875.0 161.0 52366.0 51112.0 51045.0 0 0 g 0 0 0 0 0 1583.0 1214.0 1422.0 793.0 6598.0 1470.0 1870.0 1005.0 0 0 t 0 0 0 0 0 2560.0 4633.0 1969.0 976.0 3456.0 1129.0 1218.0 2565.0 0 0
MA1627.2_shift7 (Wt1)				; oligos_6nt_mkv2_m4 versus MA1627.2 (Wt1); m=17/27; ncol2=10; w=0; offset=2; strand=D; shift=7; score=0.575781; -------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
MA1596.1_shift0 (ZNF460)				; oligos_6nt_mkv2_m4 versus MA1596.1 (ZNF460); m=18/27; ncol2=16; w=-5; offset=-5; strand=D; shift=0; score=0.551377; 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
MA1587.1_shift1 (ZNF135)				; oligos_6nt_mkv2_m4 versus MA1587.1 (ZNF135); m=19/27; ncol2=14; w=-4; offset=-4; strand=D; shift=1; score=0.517008; -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
MA2099.1_shift4 (ZNF770)				; oligos_6nt_mkv2_m4 versus MA2099.1 (ZNF770); m=20/27; ncol2=8; w=-1; offset=-1; strand=D; shift=4; score=0.482841; ----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
MA1578.2_shift7 (VEZF1)				; oligos_6nt_mkv2_m4 versus MA1578.2 (VEZF1); m=21/27; ncol2=6; w=0; offset=2; strand=D; shift=7; score=0.459495; -------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
MA0471.3_rc_shift4 (E2F6_rc)				; oligos_6nt_mkv2_m4 versus MA0471.3_rc (E2F6_rc); m=22/27; ncol2=8; w=-1; offset=-1; strand=R; shift=4; score=0.45873; ----TTCCCGCC--- ; cor=; Ncor= a 0 0 0 0 757.0 268.0 296.0 353.0 813.0 2125.0 205.0 453.0 0 0 0 c 0 0 0 0 5021.0 2322.0 31614.0 31973.0 30573.0 693.0 31790.0 29387.0 0 0 0 g 0 0 0 0 1595.0 1171.0 834.0 434.0 539.0 26424.0 837.0 1148.0 0 0 0 t 0 0 0 0 25725.0 29337.0 354.0 338.0 1173.0 3856.0 266.0 2110.0 0 0 0
MA1652.2_rc_shift3 (ZKSCAN5_rc)				; oligos_6nt_mkv2_m4 versus MA1652.2_rc (ZKSCAN5_rc); m=23/27; ncol2=9; w=-2; offset=-2; strand=R; shift=3; score=0.438765; ---cTCACyTCC--- ; cor=; Ncor= a 0 0 0 548.0 25.0 9.0 3092.0 49.0 27.0 19.0 26.0 50.0 0 0 0 c 0 0 0 2034.0 62.0 3251.0 76.0 3149.0 1827.0 47.0 3236.0 3111.0 0 0 0 g 0 0 0 370.0 41.0 24.0 86.0 37.0 27.0 62.0 27.0 30.0 0 0 0 t 0 0 0 375.0 3199.0 43.0 73.0 92.0 1446.0 3199.0 38.0 136.0 0 0 0
MA1723.2_rc_shift1 (PRDM9_rc)				; oligos_6nt_mkv2_m4 versus MA1723.2_rc (PRDM9_rc); m=24/27; ncol2=20; w=-4; offset=-4; strand=R; shift=1; score=0.427104; -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
MA1637.2_rc_shift9 (EBF3_rc)				; oligos_6nt_mkv2_m4 versus MA1637.2_rc (EBF3_rc); m=25/27; ncol2=9; w=0; offset=4; strand=R; shift=9; score=0.407883; ---------TCCCTT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1596.0 463.0 362.0 99.0 1612.0 1903.0 c 0 0 0 0 0 0 0 0 0 1985.0 20515.0 20589.0 21188.0 3374.0 1436.0 g 0 0 0 0 0 0 0 0 0 1819.0 515.0 230.0 260.0 1150.0 3634.0 t 0 0 0 0 0 0 0 0 0 16662.0 569.0 881.0 515.0 15926.0 15089.0
MA1604.2_rc_shift9 (Ebf2_rc)				; oligos_6nt_mkv2_m4 versus MA1604.2_rc (Ebf2_rc); m=26/27; ncol2=9; w=0; offset=4; strand=R; shift=9; score=0.405365; ---------TCCCTT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1321.0 586.0 379.0 182.0 2124.0 1855.0 c 0 0 0 0 0 0 0 0 0 1701.0 24124.0 24386.0 25103.0 3635.0 1427.0 g 0 0 0 0 0 0 0 0 0 1437.0 580.0 220.0 239.0 1347.0 3744.0 t 0 0 0 0 0 0 0 0 0 21802.0 971.0 1276.0 737.0 19155.0 19235.0
MA1710.2_rc_shift1 (ZNF257_rc)				; oligos_6nt_mkv2_m4 versus MA1710.2_rc (ZNF257_rc); m=27/27; ncol2=10; w=-4; offset=-4; strand=R; shift=1; score=0.401091; -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

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv2_m5_shift4 (oligos_6nt_mkv2_m5)				; oligos_6nt_mkv2_m5; m=0 (reference); ncol1=11; shift=4; ncol=15; ----awAAACAAAam ; Alignment reference a 0 0 0 0 40 50 101 111 109 0 106 112 93 45 35 c 0 0 0 0 29 25 6 2 5 116 9 3 6 25 42 g 0 0 0 0 24 13 4 0 3 0 0 0 9 25 16 t 0 0 0 0 26 31 8 6 2 3 4 4 11 24 26
MA0847.4_shift4 (FOXD2)				; oligos_6nt_mkv2_m5 versus MA0847.4 (FOXD2); m=1/41; ncol2=11; w=0; offset=0; strand=D; shift=4; score=0.746713; ----yTAAryAAACA ; cor=; Ncor= a 0 0 0 0 219.0 480.0 2484.0 2484.0 2484.0 84.0 2484.0 2484.0 2484.0 0.0 2484.0 c 0 0 0 0 906.0 19.0 16.0 285.0 23.0 1342.0 81.0 23.0 0.0 2484.0 24.0 g 0 0 0 0 131.0 0.0 137.0 292.0 1615.0 3.0 0.0 18.0 5.0 0.0 34.0 t 0 0 0 0 1578.0 2004.0 0.0 262.0 4.0 1141.0 79.0 1.0 2.0 768.0 232.0
MA0851.2_shift4 (Foxj3)				; oligos_6nt_mkv2_m5 versus MA0851.2 (Foxj3); m=2/41; ncol2=9; w=0; offset=0; strand=D; shift=4; score=0.702769; ----RTAAACAAw-- ; cor=; Ncor= a 0 0 0 0 30.0 1.0 91.0 96.0 99.0 0.0 99.0 79.0 57.0 0 0 c 0 0 0 0 1.0 2.0 8.0 2.0 0.0 81.0 0.0 7.0 9.0 0 0 g 0 0 0 0 68.0 0.0 0.0 0.0 0.0 0.0 0.0 6.0 7.0 0 0 t 0 0 0 0 0.0 97.0 0.0 3.0 1.0 18.0 1.0 9.0 27.0 0 0
MA0515.1_rc_shift5 (Sox6_rc)				; oligos_6nt_mkv2_m5 versus MA0515.1_rc (Sox6_rc); m=3/41; ncol2=10; w=0; offset=1; strand=R; shift=5; score=0.68362; -----rrrACAAwGg ; cor=; Ncor= a 0 0 0 0 0 128.0 133.0 129.0 249.0 0.0 249.0 249.0 88.0 28.0 56.0 c 0 0 0 0 0 31.0 0.0 5.0 0.0 249.0 0.0 0.0 0.0 0.0 50.0 g 0 0 0 0 0 76.0 112.0 115.0 0.0 0.0 0.0 0.0 0.0 221.0 139.0 t 0 0 0 0 0 14.0 4.0 0.0 0.0 0.0 0.0 0.0 161.0 0.0 4.0
MA0867.3_shift7 (SOX4)				; oligos_6nt_mkv2_m5 versus MA0867.3 (SOX4); m=4/41; ncol2=8; w=0; offset=3; strand=D; shift=7; score=0.636258; -------aACAAwGr ; cor=; Ncor= a 0 0 0 0 0 0 0 5582.0 5582.0 0.0 5582.0 5582.0 5582.0 1018.0 2093.0 c 0 0 0 0 0 0 0 951.0 0.0 5582.0 1.0 6.0 120.0 64.0 1422.0 g 0 0 0 0 0 0 0 2047.0 0.0 37.0 6.0 11.0 50.0 5582.0 3489.0 t 0 0 0 0 0 0 0 431.0 9.0 33.0 0.0 0.0 2719.0 83.0 174.0
MA0614.1_shift4 (Foxj2)				; oligos_6nt_mkv2_m5 versus MA0614.1 (Foxj2); m=5/41; ncol2=8; w=0; offset=0; strand=D; shift=4; score=0.630111; ----rTAAACAa--- ; cor=; Ncor= a 0 0 0 0 461.0 50.0 795.0 977.0 999.0 0.0 999.0 593.0 0 0 0 c 0 0 0 0 0.0 25.0 205.0 0.0 0.0 954.0 0.0 125.0 0 0 0 g 0 0 0 0 538.0 0.0 0.0 0.0 0.0 0.0 0.0 125.0 0 0 0 t 0 0 0 0 0.0 924.0 0.0 22.0 0.0 46.0 0.0 156.0 0 0 0
MA1489.1_shift4 (FOXN3)				; oligos_6nt_mkv2_m5 versus MA1489.1 (FOXN3); m=6/41; ncol2=8; w=0; offset=0; strand=D; shift=4; score=0.616994; ----GTAAACAA--- ; cor=; Ncor= a 0 0 0 0 9.0 9.0 971.0 971.0 971.0 9.0 971.0 971.0 0 0 0 c 0 0 0 0 9.0 9.0 9.0 9.0 9.0 971.0 9.0 9.0 0 0 0 g 0 0 0 0 971.0 9.0 9.0 9.0 9.0 9.0 9.0 9.0 0 0 0 t 0 0 0 0 9.0 971.0 9.0 9.0 9.0 9.0 9.0 9.0 0 0 0
MA0613.1_shift4 (FOXG1)				; oligos_6nt_mkv2_m5 versus MA0613.1 (FOXG1); m=7/41; ncol2=8; w=0; offset=0; strand=D; shift=4; score=0.611709; ----rTAAACAw--- ; cor=; Ncor= a 0 0 0 0 374.0 1.0 997.0 997.0 997.0 1.0 997.0 498.0 0 0 0 c 0 0 0 0 1.0 1.0 1.0 1.0 1.0 997.0 1.0 167.0 0 0 0 g 0 0 0 0 623.0 1.0 1.0 1.0 1.0 1.0 1.0 2.0 0 0 0 t 0 0 0 0 1.0 997.0 1.0 1.0 1.0 1.0 1.0 333.0 0 0 0
MA0041.3_shift1 (FOXD3)				; oligos_6nt_mkv2_m5 versus MA0041.3 (FOXD3); m=8/41; ncol2=14; w=-3; offset=-3; strand=D; shift=1; score=0.601273; -wawrhAAAYAAACa ; cor=; Ncor= a 0 86.0 120.0 91.0 56.0 99.0 171.0 171.0 171.0 0.0 171.0 171.0 171.0 13.0 125.0 c 0 22.0 17.0 45.0 17.0 109.0 37.0 8.0 1.0 43.0 4.0 11.0 17.0 171.0 20.0 g 0 13.0 52.0 45.0 115.0 8.0 1.0 0.0 7.0 0.0 2.0 8.0 20.0 13.0 30.0 t 0 85.0 22.0 81.0 10.0 171.0 2.0 7.0 2.0 128.0 7.0 11.0 35.0 30.0 47.0
MA0040.2_rc_shift3 (Foxq1_rc)				; oligos_6nt_mkv2_m5 versus MA0040.2_rc (Foxq1_rc); m=9/41; ncol2=10; w=-1; offset=-1; strand=R; shift=3; score=0.578294; ---wATAAACAwT-- ; cor=; Ncor= a 0 0 0 9.0 13.0 0.0 18.0 18.0 18.0 0.0 15.0 11.0 1.0 0 0 c 0 0 0 3.0 4.0 1.0 0.0 0.0 0.0 18.0 0.0 0.0 3.0 0 0 g 0 0 0 0.0 1.0 0.0 0.0 0.0 0.0 0.0 0.0 2.0 1.0 0 0 t 0 0 0 6.0 0.0 17.0 0.0 0.0 0.0 0.0 3.0 5.0 13.0 0 0
MA0869.3_shift6 (Sox11)				; oligos_6nt_mkv2_m5 versus MA0869.3 (Sox11); m=10/41; ncol2=8; w=0; offset=2; strand=D; shift=6; score=0.56577; ------GAACAAAG- ; cor=; Ncor= a 0 0 0 0 0 0 1014.0 7912.0 9856.0 119.0 10020.0 9676.0 9276.0 506.0 0 c 0 0 0 0 0 0 764.0 766.0 100.0 9471.0 108.0 264.0 61.0 148.0 0 g 0 0 0 0 0 0 8063.0 1298.0 211.0 501.0 49.0 248.0 233.0 9486.0 0 t 0 0 0 0 0 0 407.0 272.0 81.0 157.0 71.0 60.0 678.0 108.0 0
MA0030.2_shift3 (FOXF2)				; oligos_6nt_mkv2_m5 versus MA0030.2 (FOXF2); m=11/41; ncol2=9; w=-1; offset=-1; strand=D; shift=3; score= 0.5618; ---sRTAAACAa--- ; cor=; Ncor= a 0 0 0 3.0 7.0 0.0 27.0 27.0 27.0 0.0 27.0 16.0 0 0 0 c 0 0 0 11.0 0.0 0.0 0.0 0.0 0.0 25.0 0.0 4.0 0 0 0 g 0 0 0 8.0 20.0 0.0 0.0 0.0 0.0 0.0 0.0 2.0 0 0 0 t 0 0 0 0.0 0.0 27.0 0.0 0.0 0.0 2.0 0.0 5.0 0 0 0
MA1606.2_shift4 (Foxf1)				; oligos_6nt_mkv2_m5 versus MA1606.2 (Foxf1); m=12/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.557236; ----rTAAACA---- ; cor=; Ncor= a 0 0 0 0 18534.0 568.0 57293.0 53942.0 57167.0 437.0 56436.0 0 0 0 0 c 0 0 0 0 3754.0 446.0 899.0 2249.0 475.0 54394.0 745.0 0 0 0 0 g 0 0 0 0 33599.0 1158.0 445.0 811.0 1067.0 522.0 443.0 0 0 0 0 t 0 0 0 0 3653.0 57368.0 903.0 2538.0 831.0 4187.0 1916.0 0 0 0 0
MA1125.2_shift6 (ZNF384)				; oligos_6nt_mkv2_m5 versus MA1125.2 (ZNF384); m=13/41; ncol2=8; w=0; offset=2; strand=D; shift=6; score=0.556785; ------AAAAAAaa- ; cor=; Ncor= a 0 0 0 0 0 0 30354.0 30191.0 30072.0 30252.0 30202.0 30406.0 20322.0 18916.0 0 c 0 0 0 0 0 0 7.0 35.0 21.0 13.0 26.0 6.0 2908.0 3963.0 0 g 0 0 0 0 0 0 13.0 19.0 26.0 15.0 14.0 0.0 2767.0 2898.0 0 t 0 0 0 0 0 0 59.0 188.0 314.0 153.0 191.0 21.0 4436.0 4656.0 0
MA0084.2_shift6 (SRY)				; oligos_6nt_mkv2_m5 versus MA0084.2 (SRY); m=14/41; ncol2=7; w=0; offset=2; strand=D; shift=6; score=0.553621; ------waACAAw-- ; cor=; Ncor= a 0 0 0 0 0 0 15.0 18.0 25.0 0.0 28.0 27.0 7.0 0 0 c 0 0 0 0 0 0 0.0 3.0 0.0 26.0 0.0 0.0 0.0 0 0 g 0 0 0 0 0 0 3.0 3.0 0.0 0.0 0.0 1.0 2.0 0 0 t 0 0 0 0 0 0 10.0 4.0 3.0 2.0 0.0 0.0 19.0 0 0
MA0033.2_shift4 (FOXL1)				; oligos_6nt_mkv2_m5 versus MA0033.2 (FOXL1); m=15/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.552182; ----rTAAACA---- ; cor=; Ncor= a 0 0 0 0 2102.0 10.0 4780.0 4780.0 4780.0 0.0 4780.0 0 0 0 0 c 0 0 0 0 13.0 416.0 628.0 38.0 82.0 3723.0 54.0 0 0 0 0 g 0 0 0 0 2678.0 0.0 57.0 0.0 50.0 0.0 0.0 0 0 0 0 t 0 0 0 0 140.0 4780.0 0.0 15.0 0.0 1057.0 17.0 0 0 0 0
MA0850.1_shift4 (FOXP3)				; oligos_6nt_mkv2_m5 versus MA0850.1 (FOXP3); m=16/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.550401; ----rTAAACA---- ; cor=; Ncor= a 0 0 0 0 74.0 20.0 211.0 211.0 211.0 0.0 211.0 0 0 0 0 c 0 0 0 0 0.0 52.0 0.0 0.0 15.0 211.0 0.0 0 0 0 0 g 0 0 0 0 137.0 0.0 0.0 9.0 49.0 32.0 18.0 0 0 0 0 t 0 0 0 0 0.0 211.0 31.0 8.0 0.0 39.0 0.0 0 0 0 0
MA1152.2_rc_shift8 (SOX15_rc)				; oligos_6nt_mkv2_m5 versus MA1152.2_rc (SOX15_rc); m=17/41; ncol2=7; w=0; offset=4; strand=R; shift=8; score=0.548235; --------ACAAwrr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 971.0 5.0 994.0 988.0 362.0 501.0 267.0 c 0 0 0 0 0 0 0 0 3.0 890.0 2.0 6.0 5.0 26.0 147.0 g 0 0 0 0 0 0 0 0 2.0 21.0 2.0 3.0 3.0 412.0 554.0 t 0 0 0 0 0 0 0 0 24.0 83.0 3.0 3.0 631.0 62.0 32.0
MA0157.4_shift4 (Foxo3)				; oligos_6nt_mkv2_m5 versus MA0157.4 (Foxo3); m=18/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.546052; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 3470.0 1546.0 22240.0 22288.0 22551.0 403.0 22141.0 0 0 0 0 c 0 0 0 0 590.0 435.0 968.0 803.0 483.0 21237.0 587.0 0 0 0 0 g 0 0 0 0 19202.0 1199.0 328.0 333.0 464.0 361.0 361.0 0 0 0 0 t 0 0 0 0 650.0 20732.0 376.0 488.0 414.0 1911.0 823.0 0 0 0 0
MA0852.3_shift4 (FOXK1)				; oligos_6nt_mkv2_m5 versus MA0852.3 (FOXK1); m=19/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.544824; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 143.0 60.0 1003.0 999.0 1022.0 10.0 1015.0 0 0 0 0 c 0 0 0 0 28.0 5.0 37.0 37.0 13.0 958.0 16.0 0 0 0 0 g 0 0 0 0 868.0 44.0 10.0 11.0 10.0 12.0 12.0 0 0 0 0 t 0 0 0 0 17.0 947.0 6.0 9.0 11.0 76.0 13.0 0 0 0 0
MA0480.3_shift4 (Foxo1)				; oligos_6nt_mkv2_m5 versus MA0480.3 (Foxo1); m=20/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.544658; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 1411.0 945.0 12408.0 12663.0 12972.0 293.0 13332.0 0 0 0 0 c 0 0 0 0 481.0 555.0 934.0 849.0 387.0 12710.0 277.0 0 0 0 0 g 0 0 0 0 11670.0 1025.0 478.0 384.0 508.0 356.0 153.0 0 0 0 0 t 0 0 0 0 554.0 11591.0 296.0 220.0 249.0 757.0 354.0 0 0 0 0
MA0593.2_shift3 (FOXP2)				; oligos_6nt_mkv2_m5 versus MA0593.2 (FOXP2); m=21/41; ncol2=9; w=-1; offset=-1; strand=D; shift=3; score=0.543715; ---wGTAAACAr--- ; cor=; Ncor= a 0 0 0 340.0 160.0 59.0 766.0 766.0 766.0 0.0 766.0 297.0 0 0 0 c 0 0 0 7.0 0.0 0.0 0.0 0.0 0.0 757.0 0.0 154.0 0 0 0 g 0 0 0 142.0 606.0 0.0 0.0 0.0 0.0 0.0 0.0 293.0 0 0 0 t 0 0 0 277.0 0.0 707.0 0.0 0.0 0.0 9.0 0.0 22.0 0 0 0
MA0848.1_shift4 (FOXO4)				; oligos_6nt_mkv2_m5 versus MA0848.1 (FOXO4); m=22/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.540535; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 1669.0 345.0 5378.0 5378.0 5378.0 58.0 5378.0 0 0 0 0 c 0 0 0 0 13.0 69.0 1259.0 146.0 0.0 5378.0 10.0 0 0 0 0 g 0 0 0 0 5378.0 123.0 32.0 19.0 90.0 33.0 10.0 0 0 0 0 t 0 0 0 0 0.0 5378.0 20.0 20.0 10.0 958.0 40.0 0 0 0 0
MA0849.1_shift4 (FOXO6)				; oligos_6nt_mkv2_m5 versus MA0849.1 (FOXO6); m=23/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.537086; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 1445.0 154.0 7025.0 7025.0 7025.0 0.0 7025.0 0 0 0 0 c 0 0 0 0 0.0 0.0 1147.0 195.0 0.0 7025.0 0.0 0 0 0 0 g 0 0 0 0 7025.0 32.0 7.0 0.0 0.0 31.0 13.0 0 0 0 0 t 0 0 0 0 0.0 7025.0 0.0 26.0 0.0 385.0 0.0 0 0 0 0
MA1103.3_shift4 (FOXK2)				; oligos_6nt_mkv2_m5 versus MA1103.3 (FOXK2); m=24/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.535651; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 2697.0 360.0 15913.0 14387.0 15593.0 499.0 15709.0 0 0 0 0 c 0 0 0 0 551.0 210.0 277.0 1291.0 330.0 14282.0 295.0 0 0 0 0 g 0 0 0 0 12737.0 327.0 148.0 436.0 391.0 426.0 170.0 0 0 0 0 t 0 0 0 0 694.0 15782.0 341.0 565.0 365.0 1472.0 505.0 0 0 0 0
MA1563.2_shift7 (SOX18)				; oligos_6nt_mkv2_m5 versus MA1563.2 (SOX18); m=25/41; ncol2=8; w=0; offset=3; strand=D; shift=7; score=0.535558; -------aACAATdv ; cor=; Ncor= a 0 0 0 0 0 0 0 424.0 424.0 0.0 424.0 424.0 0.0 203.0 382.0 c 0 0 0 0 0 0 0 81.0 0.0 424.0 0.0 35.0 0.0 0.0 551.0 g 0 0 0 0 0 0 0 170.0 0.0 91.0 0.0 17.0 0.0 221.0 424.0 t 0 0 0 0 0 0 0 34.0 0.0 2.0 0.0 0.0 447.0 228.0 0.0
MA2117.1_shift4 (FOXP4)				; oligos_6nt_mkv2_m5 versus MA2117.1 (FOXP4); m=26/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.534437; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 2224.0 543.0 19122.0 19613.0 20280.0 379.0 20230.0 0 0 0 0 c 0 0 0 0 834.0 793.0 1545.0 1330.0 419.0 18349.0 443.0 0 0 0 0 g 0 0 0 0 17315.0 539.0 534.0 368.0 550.0 493.0 218.0 0 0 0 0 t 0 0 0 0 1294.0 19792.0 466.0 356.0 418.0 2446.0 776.0 0 0 0 0
MA0868.3_shift7 (SOX8)				; oligos_6nt_mkv2_m5 versus MA0868.3 (SOX8); m=27/41; ncol2=7; w=0; offset=3; strand=D; shift=7; score=0.530399; -------AACAATr- ; cor=; Ncor= a 0 0 0 0 0 0 0 1827.0 1827.0 3.0 1827.0 1827.0 273.0 1356.0 0 c 0 0 0 0 0 0 0 151.0 0.0 1827.0 0.0 43.0 36.0 208.0 0 g 0 0 0 0 0 0 0 263.0 0.0 35.0 0.0 0.0 20.0 1827.0 0 t 0 0 0 0 0 0 0 222.0 45.0 70.0 16.0 36.0 1827.0 287.0 0
MA0087.3_shift7 (Sox5)				; oligos_6nt_mkv2_m5 versus MA0087.3 (Sox5); m=28/41; ncol2=8; w=0; offset=3; strand=D; shift=7; score=0.529706; -------AACAATGG ; cor=; Ncor= a 0 0 0 0 0 0 0 104.0 122.0 0.0 120.0 114.0 6.0 20.0 13.0 c 0 0 0 0 0 0 0 4.0 0.0 120.0 2.0 5.0 3.0 0.0 14.0 g 0 0 0 0 0 0 0 12.0 1.0 2.0 2.0 4.0 1.0 101.0 90.0 t 0 0 0 0 0 0 0 4.0 1.0 2.0 0.0 1.0 114.0 3.0 7.0
MA0031.2_shift4 (FOXD1)				; oligos_6nt_mkv2_m5 versus MA0031.2 (FOXD1); m=29/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score= 0.5287; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 1.0 0.0 19.0 20.0 18.0 1.0 20.0 0 0 0 0 c 0 0 0 0 1.0 0.0 1.0 0.0 1.0 18.0 0.0 0 0 0 0 g 0 0 0 0 17.0 0.0 0.0 0.0 1.0 0.0 0.0 0 0 0 0 t 0 0 0 0 1.0 20.0 0.0 0.0 0.0 1.0 0.0 0 0 0 0
MA0481.4_shift4 (FOXP1)				; oligos_6nt_mkv2_m5 versus MA0481.4 (FOXP1); m=30/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.526181; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 10463.0 1209.0 69603.0 65236.0 70030.0 1336.0 68456.0 0 0 0 0 c 0 0 0 0 1573.0 727.0 2095.0 5067.0 1487.0 61094.0 1904.0 0 0 0 0 g 0 0 0 0 59571.0 920.0 1073.0 1830.0 1132.0 1493.0 749.0 0 0 0 0 t 0 0 0 0 3111.0 71862.0 1947.0 2585.0 2069.0 10795.0 3609.0 0 0 0 0
MA0042.2_shift4 (FOXI1)				; oligos_6nt_mkv2_m5 versus MA0042.2 (FOXI1); m=31/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.525824; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 618.0 74.0 5175.0 5175.0 5175.0 157.0 5175.0 0 0 0 0 c 0 0 0 0 39.0 60.0 540.0 23.0 23.0 5175.0 12.0 0 0 0 0 g 0 0 0 0 5175.0 35.0 37.0 0.0 29.0 48.0 25.0 0 0 0 0 t 0 0 0 0 0.0 5175.0 0.0 0.0 66.0 810.0 0.0 0 0 0 0
MA0077.2_rc_shift7 (SOX9_rc)				; oligos_6nt_mkv2_m5 versus MA0077.2_rc (SOX9_rc); m=32/41; ncol2=8; w=0; offset=3; strand=R; shift=7; score=0.525684; -------AACAATrG ; cor=; Ncor= a 0 0 0 0 0 0 0 54.0 59.0 0.0 65.0 71.0 4.0 24.0 9.0 c 0 0 0 0 0 0 0 6.0 4.0 72.0 4.0 2.0 0.0 6.0 9.0 g 0 0 0 0 0 0 0 7.0 0.0 2.0 0.0 1.0 1.0 38.0 55.0 t 0 0 0 0 0 0 0 9.0 13.0 2.0 7.0 2.0 71.0 8.0 3.0
MA1683.2_shift4 (FOXA3)				; oligos_6nt_mkv2_m5 versus MA1683.2 (FOXA3); m=33/41; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.523642; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 4481.0 758.0 45178.0 43099.0 46046.0 951.0 45552.0 0 0 0 0 c 0 0 0 0 1464.0 903.0 1980.0 3883.0 973.0 39509.0 933.0 0 0 0 0 g 0 0 0 0 40396.0 690.0 636.0 977.0 934.0 1205.0 614.0 0 0 0 0 t 0 0 0 0 2596.0 46586.0 1143.0 978.0 984.0 7272.0 1838.0 0 0 0 0
MA0148.5_shift4 (FOXA1)				; oligos_6nt_mkv2_m5 versus MA0148.5 (FOXA1); m=34/41; ncol2=8; w=0; offset=0; strand=D; shift=4; score=0.514629; ----GTAAACAT--- ; cor=; Ncor= a 0 0 0 0 23286.0 11061.0 297679.0 294900.0 312906.0 7396.0 308904.0 42299.0 0 0 0 c 0 0 0 0 5935.0 13932.0 14648.0 13410.0 2452.0 272943.0 3674.0 23038.0 0 0 0 g 0 0 0 0 281612.0 6092.0 5243.0 3774.0 3652.0 4805.0 3226.0 27283.0 0 0 0 t 0 0 0 0 11970.0 291718.0 5233.0 10719.0 3793.0 37659.0 6999.0 230183.0 0 0 0
MA1487.3_shift0 (FOXE1)				; oligos_6nt_mkv2_m5 versus MA1487.3 (FOXE1); m=35/41; ncol2=12; w=-4; offset=-4; strand=D; shift=0; score=0.496728; yTAARyAAACAa--- ; cor=; Ncor= a 86.0 581.0 3126.0 2547.0 2255.0 587.0 3126.0 3126.0 3126.0 0.0 3126.0 2026.0 0 0 0 c 1646.0 43.0 28.0 113.0 117.0 1062.0 362.0 90.0 0.0 3126.0 32.0 392.0 0 0 0 g 57.0 0.0 402.0 116.0 871.0 17.0 0.0 0.0 23.0 0.0 18.0 258.0 0 0 0 t 1479.0 2545.0 43.0 579.0 27.0 2064.0 20.0 53.0 9.0 85.0 110.0 450.0 0 0 0
MA2118.1_shift3 (FOXS1)				; oligos_6nt_mkv2_m5 versus MA2118.1 (FOXS1); m=36/41; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.490003; ---tGTAAACA---- ; cor=; Ncor= a 0 0 0 66.0 36.0 13.0 345.0 345.0 361.0 9.0 356.0 0 0 0 0 c 0 0 0 20.0 8.0 15.0 15.0 16.0 3.0 322.0 5.0 0 0 0 0 g 0 0 0 49.0 323.0 12.0 5.0 8.0 5.0 7.0 3.0 0 0 0 0 t 0 0 0 239.0 7.0 334.0 9.0 5.0 5.0 36.0 10.0 0 0 0 0
MA0442.3_shift8 (SOX10)				; oligos_6nt_mkv2_m5 versus MA0442.3 (SOX10); m=37/41; ncol2=6; w=0; offset=4; strand=D; shift=8; score=0.486163; --------ACAAAG- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 2023.0 3.0 2029.0 1968.0 1959.0 10.0 0 c 0 0 0 0 0 0 0 0 4.0 1989.0 7.0 28.0 23.0 13.0 0 g 0 0 0 0 0 0 0 0 3.0 11.0 7.0 20.0 12.0 2012.0 0 t 0 0 0 0 0 0 0 0 25.0 52.0 12.0 39.0 61.0 20.0 0
MA0846.2_shift1 (FOXC2)				; oligos_6nt_mkv2_m5 versus MA0846.2 (FOXC2); m=38/41; ncol2=11; w=-3; offset=-3; strand=D; shift=1; score=0.480006; -wAwrTAAAYAw--- ; cor=; Ncor= a 0 8939.0 20456.0 11301.0 6418.0 2005.0 20456.0 20456.0 20456.0 31.0 20456.0 13296.0 0 0 0 c 0 1279.0 1652.0 3476.0 440.0 3773.0 6759.0 344.0 105.0 14435.0 101.0 2087.0 0 0 0 g 0 454.0 5093.0 3129.0 14038.0 321.0 87.0 81.0 279.0 68.0 328.0 1710.0 0 0 0 t 0 11517.0 2080.0 9155.0 136.0 20456.0 122.0 107.0 242.0 6021.0 215.0 7160.0 0 0 0
MA0047.4_shift3 (FOXA2)				; oligos_6nt_mkv2_m5 versus MA0047.4 (FOXA2); m=39/41; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.463749; ---wGTAAACA---- ; cor=; Ncor= a 0 0 0 93740.0 18770.0 3737.0 243805.0 223061.0 248214.0 2411.0 246665.0 0 0 0 0 c 0 0 0 12432.0 2928.0 2037.0 9424.0 22429.0 3329.0 196969.0 3086.0 0 0 0 0 g 0 0 0 38538.0 236311.0 1890.0 2641.0 6484.0 2805.0 3603.0 2984.0 0 0 0 0 t 0 0 0 117443.0 4144.0 254489.0 6283.0 10179.0 7805.0 59170.0 9418.0 0 0 0 0
MA1607.2_shift1 (Foxl2)				; oligos_6nt_mkv2_m5 versus MA1607.2 (Foxl2); m=40/41; ncol2=10; w=-3; offset=-3; strand=D; shift=1; score=0.424032; -waTGTAAACA---- ; cor=; Ncor= a 0 6433.0 11158.0 2985.0 2607.0 1097.0 17227.0 17212.0 17146.0 282.0 15623.0 0 0 0 0 c 0 1576.0 2051.0 896.0 367.0 301.0 558.0 336.0 216.0 15698.0 807.0 0 0 0 0 g 0 1599.0 2107.0 1371.0 14648.0 419.0 112.0 187.0 411.0 151.0 401.0 0 0 0 0 t 0 8493.0 2785.0 12849.0 479.0 16284.0 204.0 366.0 328.0 1970.0 1270.0 0 0 0 0
MA0032.2_shift1 (FOXC1)				; oligos_6nt_mkv2_m5 versus MA0032.2 (FOXC1); m=41/41; ncol2=11; w=-3; offset=-3; strand=D; shift=1; score=0.408712; -wAwRTMAAyAw--- ; cor=; Ncor= a 0 6452.0 14324.0 7893.0 4858.0 2496.0 13117.0 18489.0 18489.0 122.0 18489.0 6702.0 0 0 0 c 0 772.0 728.0 2008.0 336.0 1652.0 5372.0 108.0 56.0 8782.0 27.0 1558.0 0 0 0 g 0 304.0 4165.0 2422.0 13631.0 390.0 21.0 0.0 141.0 165.0 433.0 1107.0 0 0 0 t 0 12038.0 1386.0 10596.0 51.0 18489.0 45.0 57.0 112.0 9708.0 184.0 11787.0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv2_m2_shift0 (oligos_7nt_mkv2_m2)				; oligos_7nt_mkv2_m2; m=0 (reference); ncol1=12; shift=0; ncol=12; yaCACACACAca ; Alignment reference a 23 109 6 182 3 175 5 173 6 170 28 98 c 86 22 169 3 173 5 172 5 174 6 91 31 g 25 45 6 3 9 4 1 5 2 4 30 42 t 56 14 9 2 5 6 12 7 8 10 41 19
MA1107.3_shift0 (KLF9)				; oligos_7nt_mkv2_m2 versus MA1107.3 (KLF9); m=1/3; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.687284; gCCACACCCAC- ; cor=; Ncor= a 2862.0 4664.0 287.0 21899.0 221.0 19187.0 224.0 2428.0 146.0 18837.0 792.0 0 c 4342.0 17839.0 24709.0 2559.0 24863.0 1070.0 24365.0 22117.0 24682.0 4339.0 20644.0 0 g 16852.0 1660.0 291.0 708.0 353.0 4340.0 735.0 605.0 205.0 852.0 1778.0 0 t 1523.0 1416.0 292.0 413.0 142.0 982.0 255.0 429.0 546.0 1551.0 2365.0 0
MA1155.1_shift0 (ZSCAN4)				; oligos_7nt_mkv2_m2 versus MA1155.1 (ZSCAN4); m=2/3; ncol2=15; w=0; offset=0; strand=D; shift=0; score=0.567915; tGCACACmCTGa ; cor=; Ncor= a 257.0 290.0 0.0 1292.0 0.0 1281.0 3.0 772.0 7.0 8.0 3.0 1118.0 c 383.0 2.0 1676.0 0.0 1665.0 0.0 1702.0 374.0 1684.0 11.0 50.0 107.0 g 112.0 1737.0 1.0 0.0 0.0 2.0 0.0 320.0 0.0 75.0 1873.0 230.0 t 1373.0 0.0 0.0 2.0 0.0 2.0 73.0 8.0 2.0 1699.0 218.0 362.0
MA1523.2_shift2 (MSANTD3)				; oligos_7nt_mkv2_m2 versus MA1523.2 (MSANTD3); m=3/3; ncol2=7; w=0; offset=2; strand=D; shift=2; score=0.436949; --CACTCAm--- ; cor=; Ncor= a 0 0 64.0 980.0 31.0 37.0 47.0 775.0 271.0 0 0 0 c 0 0 723.0 0.0 896.0 7.0 862.0 140.0 568.0 0 0 0 g 0 0 31.0 2.0 27.0 0.0 29.0 24.0 63.0 0 0 0 t 0 0 180.0 16.0 45.0 954.0 60.0 59.0 96.0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv2_m3_shift1 (oligos_6nt_mkv2_m3)				; oligos_6nt_mkv2_m3; m=0 (reference); ncol1=11; shift=1; ncol=12; -rgcCCCAGCys ; Alignment reference a 0 36 34 16 3 3 5 123 8 1 32 26 c 0 34 33 86 131 124 124 6 2 133 44 51 g 0 46 41 16 3 9 4 8 124 1 21 35 t 0 21 29 19 0 1 4 0 3 2 40 25
MA2125.1_shift2 (Zfp809)				; oligos_6nt_mkv2_m3 versus MA2125.1 (Zfp809); m=1/15; ncol2=9; w=0; offset=1; strand=D; shift=2; score=0.676867; --wTCCCAGCc- ; cor=; Ncor= a 0 0 828.0 23.0 15.0 20.0 10.0 1529.0 32.0 287.0 217.0 0 c 0 0 66.0 41.0 1607.0 1610.0 1621.0 26.0 35.0 1218.0 1091.0 0 g 0 0 81.0 23.0 18.0 14.0 16.0 73.0 1572.0 99.0 115.0 0 t 0 0 690.0 1578.0 25.0 21.0 18.0 37.0 26.0 61.0 242.0 0
MA2341.1_shift4 (FEZF2)				; oligos_6nt_mkv2_m3 versus MA2341.1 (FEZF2); m=2/15; ncol2=8; w=0; offset=3; strand=D; shift=4; score=0.608258; ----CCCAGCCT ; cor=; Ncor= a 0 0 0 0 17.0 5.0 4.0 231.0 6.0 8.0 7.0 14.0 c 0 0 0 0 202.0 206.0 258.0 15.0 8.0 224.0 247.0 10.0 g 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 36.0 45.0 3.0 5.0 0.0 5.0 9.0 233.0
MA0039.5_shift3 (KLF4)				; oligos_6nt_mkv2_m3 versus MA0039.5 (KLF4); m=3/15; ncol2=8; w=0; offset=2; strand=D; shift=3; score=0.528666; ---CCCCACCC- ; cor=; Ncor= a 0 0 0 2465.0 2105.0 7021.0 1173.0 45602.0 852.0 1617.0 1202.0 0 c 0 0 0 49209.0 47865.0 45405.0 52875.0 161.0 52366.0 51112.0 51045.0 0 g 0 0 0 1583.0 1214.0 1422.0 793.0 6598.0 1470.0 1870.0 1005.0 0 t 0 0 0 2560.0 4633.0 1969.0 976.0 3456.0 1129.0 1218.0 2565.0 0
MA1615.2_rc_shift0 (Plagl1_rc)				; oligos_6nt_mkv2_m3 versus MA1615.2_rc (Plagl1_rc); m=4/15; ncol2=8; w=-1; offset=-1; strand=R; shift=0; score=0.486745; TGGCCCCa---- ; cor=; Ncor= a 371.0 398.0 321.0 142.0 183.0 323.0 118.0 9425.0 0 0 0 0 c 1032.0 422.0 313.0 13495.0 13517.0 12261.0 13595.0 1338.0 0 0 0 0 g 686.0 13152.0 12737.0 336.0 266.0 356.0 243.0 1471.0 0 0 0 0 t 12064.0 181.0 782.0 180.0 187.0 1213.0 197.0 1919.0 0 0 0 0
MA1629.2_shift4 (Zic2)				; oligos_6nt_mkv2_m3 versus MA1629.2 (Zic2); m=5/15; ncol2=9; w=0; offset=3; strand=D; shift=4; score=0.486492; ----CaCAGCAG ; cor=; Ncor= a 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 9933.0 1765.0 11476.0 391.0 228.0 11272.0 118.0 133.0 g 0 0 0 0 585.0 829.0 188.0 186.0 11484.0 269.0 735.0 11184.0 t 0 0 0 0 240.0 2437.0 120.0 268.0 67.0 298.0 441.0 410.0
MA0056.3_shift0 (MZF1)				; oligos_6nt_mkv2_m3 versus MA0056.3 (MZF1); m=6/15; ncol2=8; w=-1; offset=-1; strand=D; shift=0; score=0.468842; AATCCCCA---- ; cor=; Ncor= a 5855.0 7149.0 106.0 100.0 135.0 111.0 117.0 6036.0 0 0 0 0 c 1016.0 426.0 56.0 7949.0 7939.0 7919.0 7673.0 611.0 0 0 0 0 g 999.0 385.0 98.0 100.0 54.0 58.0 83.0 484.0 0 0 0 0 t 372.0 282.0 7982.0 93.0 114.0 154.0 369.0 1111.0 0 0 0 0
MA1997.2_shift6 (Olig2)				; oligos_6nt_mkv2_m3 versus MA1997.2 (Olig2); m=7/15; ncol2=6; w=0; offset=5; strand=D; shift=6; score=0.450051; ------CAGCTG ; cor=; Ncor= a 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 60968.0 668.0 18.0 61069.0 741.0 114.0 g 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 50.0 0.0 41.0 14.0 59733.0 10.0
MA0633.3_rc_shift6 (Twist2_rc)				; oligos_6nt_mkv2_m3 versus MA0633.3_rc (Twist2_rc); m=8/15; ncol2=6; w=0; offset=5; strand=R; shift=6; score=0.449658; ------CAGCTG ; cor=; Ncor= a 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 49473.0 342.0 16.0 49583.0 369.0 81.0 g 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 60.0 0.0 21.0 9.0 48915.0 15.0
MA1993.2_shift6 (Neurod2)				; oligos_6nt_mkv2_m3 versus MA1993.2 (Neurod2); m=9/15; ncol2=6; w=0; offset=5; strand=D; shift=6; score=0.449605; ------CAGCTG ; cor=; Ncor= a 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 53913.0 310.0 15.0 53984.0 434.0 58.0 g 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 39.0 0.0 17.0 8.0 53280.0 14.0
MA1578.2_shift1 (VEZF1)				; oligos_6nt_mkv2_m3 versus MA1578.2 (VEZF1); m=10/15; ncol2=6; w=0; offset=0; strand=D; shift=1; score=0.449296; -CCCCCC----- ; cor=; Ncor= a 0 71.0 1.0 4.0 2.0 6.0 10.0 0 0 0 0 0 c 0 790.0 997.0 995.0 997.0 989.0 977.0 0 0 0 0 0 g 0 137.0 0.0 0.0 0.0 0.0 3.0 0 0 0 0 0 t 0 0.0 0.0 0.0 0.0 4.0 8.0 0 0 0 0 0
MA1635.2_shift6 (BHLHE22)				; oligos_6nt_mkv2_m3 versus MA1635.2 (BHLHE22); m=11/15; ncol2=6; w=0; offset=5; strand=D; shift=6; score=0.448804; ------CAGCTG ; cor=; Ncor= a 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 18331.0 37.0 53.0 18288.0 52.0 15.0 g 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 14.0 0.0 14.0 1.0 18267.0 0.0
MA0521.3_shift6 (Tcf12)				; oligos_6nt_mkv2_m3 versus MA0521.3 (Tcf12); m=12/15; ncol2=6; w=0; offset=5; strand=D; shift=6; score=0.444692; ------CAGCTG ; cor=; Ncor= a 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 72674.0 739.0 1814.0 69780.0 632.0 402.0 g 0 0 0 0 0 0 404.0 632.0 69780.0 1814.0 738.0 72670.0 t 0 0 0 0 0 0 550.0 341.0 1565.0 836.0 72284.0 374.0
MA0500.3_shift5 (MYOG)				; oligos_6nt_mkv2_m3 versus MA0500.3 (MYOG); m=13/15; ncol2=8; w=0; offset=4; strand=D; shift=5; score=0.410842; -----rCAGCTG ; cor=; Ncor= a 0 0 0 0 0 7159.0 86.0 21782.0 95.0 167.0 163.0 182.0 c 0 0 0 0 0 2730.0 21988.0 176.0 130.0 21964.0 238.0 102.0 g 0 0 0 0 0 10790.0 101.0 236.0 21963.0 131.0 179.0 21985.0 t 0 0 0 0 0 1678.0 182.0 163.0 169.0 95.0 21777.0 88.0
MA1628.2_shift6 (Zic1::Zic2)				; oligos_6nt_mkv2_m3 versus MA1628.2 (Zic1::Zic2); m=14/15; ncol2=7; w=0; offset=5; strand=D; shift=6; score=0.408393; ------CAGCAG ; cor=; Ncor= a 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 9594.0 384.0 195.0 9293.0 311.0 512.0 g 0 0 0 0 0 0 106.0 266.0 9527.0 96.0 627.0 9279.0 t 0 0 0 0 0 0 163.0 4.0 74.0 428.0 4.0 90.0
MA0697.3_shift6 (Zic3)				; oligos_6nt_mkv2_m3 versus MA0697.3 (Zic3); m=15/15; ncol2=7; w=0; offset=5; strand=D; shift=6; score=0.408228; ------CAGCAG ; cor=; Ncor= a 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 25035.0 872.0 670.0 24272.0 568.0 500.0 g 0 0 0 0 0 0 460.0 759.0 24907.0 756.0 1768.0 24314.0 t 0 0 0 0 0 0 334.0 596.0 266.0 792.0 858.0 967.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv2_m4_shift3 (oligos_7nt_mkv2_m4)				; oligos_7nt_mkv2_m4; m=0 (reference); ncol1=12; shift=3; ncol=15; ---amAAAACAAAam ; Alignment reference a 0 0 0 40 42 100 106 102 100 0 104 103 99 51 37 c 0 0 0 26 31 4 4 4 6 103 7 5 6 25 35 g 0 0 0 27 23 5 4 3 7 1 1 2 4 20 19 t 0 0 0 21 18 5 0 5 1 10 2 4 5 18 23
MA0847.4_shift4 (FOXD2)				; oligos_7nt_mkv2_m4 versus MA0847.4 (FOXD2); m=1/35; ncol2=11; w=0; offset=1; strand=D; shift=4; score=0.649496; ----yTAAryAAACA ; cor=; Ncor= a 0 0 0 0 219.0 480.0 2484.0 2484.0 2484.0 84.0 2484.0 2484.0 2484.0 0.0 2484.0 c 0 0 0 0 906.0 19.0 16.0 285.0 23.0 1342.0 81.0 23.0 0.0 2484.0 24.0 g 0 0 0 0 131.0 0.0 137.0 292.0 1615.0 3.0 0.0 18.0 5.0 0.0 34.0 t 0 0 0 0 1578.0 2004.0 0.0 262.0 4.0 1141.0 79.0 1.0 2.0 768.0 232.0
MA0041.3_shift1 (FOXD3)				; oligos_7nt_mkv2_m4 versus MA0041.3 (FOXD3); m=2/35; ncol2=14; w=-2; offset=-2; strand=D; shift=1; score=0.629721; -wawrhAAAYAAACa ; cor=; Ncor= a 0 86.0 120.0 91.0 56.0 99.0 171.0 171.0 171.0 0.0 171.0 171.0 171.0 13.0 125.0 c 0 22.0 17.0 45.0 17.0 109.0 37.0 8.0 1.0 43.0 4.0 11.0 17.0 171.0 20.0 g 0 13.0 52.0 45.0 115.0 8.0 1.0 0.0 7.0 0.0 2.0 8.0 20.0 13.0 30.0 t 0 85.0 22.0 81.0 10.0 171.0 2.0 7.0 2.0 128.0 7.0 11.0 35.0 30.0 47.0
MA0515.1_rc_shift5 (Sox6_rc)				; oligos_7nt_mkv2_m4 versus MA0515.1_rc (Sox6_rc); m=3/35; ncol2=10; w=0; offset=2; strand=R; shift=5; score=0.607879; -----rrrACAAwGg ; cor=; Ncor= a 0 0 0 0 0 128.0 133.0 129.0 249.0 0.0 249.0 249.0 88.0 28.0 56.0 c 0 0 0 0 0 31.0 0.0 5.0 0.0 249.0 0.0 0.0 0.0 0.0 50.0 g 0 0 0 0 0 76.0 112.0 115.0 0.0 0.0 0.0 0.0 0.0 221.0 139.0 t 0 0 0 0 0 14.0 4.0 0.0 0.0 0.0 0.0 0.0 161.0 0.0 4.0
MA0867.3_shift7 (SOX4)				; oligos_7nt_mkv2_m4 versus MA0867.3 (SOX4); m=4/35; ncol2=8; w=0; offset=4; strand=D; shift=7; score=0.576312; -------aACAAwGr ; cor=; Ncor= a 0 0 0 0 0 0 0 5582.0 5582.0 0.0 5582.0 5582.0 5582.0 1018.0 2093.0 c 0 0 0 0 0 0 0 951.0 0.0 5582.0 1.0 6.0 120.0 64.0 1422.0 g 0 0 0 0 0 0 0 2047.0 0.0 37.0 6.0 11.0 50.0 5582.0 3489.0 t 0 0 0 0 0 0 0 431.0 9.0 33.0 0.0 0.0 2719.0 83.0 174.0
MA0851.2_shift4 (Foxj3)				; oligos_7nt_mkv2_m4 versus MA0851.2 (Foxj3); m=5/35; ncol2=9; w=0; offset=1; strand=D; shift=4; score=0.574023; ----RTAAACAAw-- ; cor=; Ncor= a 0 0 0 0 30.0 1.0 91.0 96.0 99.0 0.0 99.0 79.0 57.0 0 0 c 0 0 0 0 1.0 2.0 8.0 2.0 0.0 81.0 0.0 7.0 9.0 0 0 g 0 0 0 0 68.0 0.0 0.0 0.0 0.0 0.0 0.0 6.0 7.0 0 0 t 0 0 0 0 0.0 97.0 0.0 3.0 1.0 18.0 1.0 9.0 27.0 0 0
MA0030.2_shift3 (FOXF2)				; oligos_7nt_mkv2_m4 versus MA0030.2 (FOXF2); m=6/35; ncol2=9; w=0; offset=0; strand=D; shift=3; score=0.550525; ---sRTAAACAa--- ; cor=; Ncor= a 0 0 0 3.0 7.0 0.0 27.0 27.0 27.0 0.0 27.0 16.0 0 0 0 c 0 0 0 11.0 0.0 0.0 0.0 0.0 0.0 25.0 0.0 4.0 0 0 0 g 0 0 0 8.0 20.0 0.0 0.0 0.0 0.0 0.0 0.0 2.0 0 0 0 t 0 0 0 0.0 0.0 27.0 0.0 0.0 0.0 2.0 0.0 5.0 0 0 0
MA0593.2_shift3 (FOXP2)				; oligos_7nt_mkv2_m4 versus MA0593.2 (FOXP2); m=7/35; ncol2=9; w=0; offset=0; strand=D; shift=3; score=0.545982; ---wGTAAACAr--- ; cor=; Ncor= a 0 0 0 340.0 160.0 59.0 766.0 766.0 766.0 0.0 766.0 297.0 0 0 0 c 0 0 0 7.0 0.0 0.0 0.0 0.0 0.0 757.0 0.0 154.0 0 0 0 g 0 0 0 142.0 606.0 0.0 0.0 0.0 0.0 0.0 0.0 293.0 0 0 0 t 0 0 0 277.0 0.0 707.0 0.0 0.0 0.0 9.0 0.0 22.0 0 0 0
MA1125.2_shift5 (ZNF384)				; oligos_7nt_mkv2_m4 versus MA1125.2 (ZNF384); m=8/35; ncol2=8; w=0; offset=2; strand=D; shift=5; score=0.521476; -----AAAAAAaa-- ; cor=; Ncor= a 0 0 0 0 0 30354.0 30191.0 30072.0 30252.0 30202.0 30406.0 20322.0 18916.0 0 0 c 0 0 0 0 0 7.0 35.0 21.0 13.0 26.0 6.0 2908.0 3963.0 0 0 g 0 0 0 0 0 13.0 19.0 26.0 15.0 14.0 0.0 2767.0 2898.0 0 0 t 0 0 0 0 0 59.0 188.0 314.0 153.0 191.0 21.0 4436.0 4656.0 0 0
MA0614.1_shift4 (Foxj2)				; oligos_7nt_mkv2_m4 versus MA0614.1 (Foxj2); m=9/35; ncol2=8; w=0; offset=1; strand=D; shift=4; score=0.513672; ----rTAAACAa--- ; cor=; Ncor= a 0 0 0 0 461.0 50.0 795.0 977.0 999.0 0.0 999.0 593.0 0 0 0 c 0 0 0 0 0.0 25.0 205.0 0.0 0.0 954.0 0.0 125.0 0 0 0 g 0 0 0 0 538.0 0.0 0.0 0.0 0.0 0.0 0.0 125.0 0 0 0 t 0 0 0 0 0.0 924.0 0.0 22.0 0.0 46.0 0.0 156.0 0 0 0
MA0869.3_shift6 (Sox11)				; oligos_7nt_mkv2_m4 versus MA0869.3 (Sox11); m=10/35; ncol2=8; w=0; offset=3; strand=D; shift=6; score=0.504091; ------GAACAAAG- ; cor=; Ncor= a 0 0 0 0 0 0 1014.0 7912.0 9856.0 119.0 10020.0 9676.0 9276.0 506.0 0 c 0 0 0 0 0 0 764.0 766.0 100.0 9471.0 108.0 264.0 61.0 148.0 0 g 0 0 0 0 0 0 8063.0 1298.0 211.0 501.0 49.0 248.0 233.0 9486.0 0 t 0 0 0 0 0 0 407.0 272.0 81.0 157.0 71.0 60.0 678.0 108.0 0
MA1489.1_shift4 (FOXN3)				; oligos_7nt_mkv2_m4 versus MA1489.1 (FOXN3); m=11/35; ncol2=8; w=0; offset=1; strand=D; shift=4; score=0.500368; ----GTAAACAA--- ; cor=; Ncor= a 0 0 0 0 9.0 9.0 971.0 971.0 971.0 9.0 971.0 971.0 0 0 0 c 0 0 0 0 9.0 9.0 9.0 9.0 9.0 971.0 9.0 9.0 0 0 0 g 0 0 0 0 971.0 9.0 9.0 9.0 9.0 9.0 9.0 9.0 0 0 0 t 0 0 0 0 9.0 971.0 9.0 9.0 9.0 9.0 9.0 9.0 0 0 0
MA1487.3_shift0 (FOXE1)				; oligos_7nt_mkv2_m4 versus MA1487.3 (FOXE1); m=12/35; ncol2=12; w=-3; offset=-3; strand=D; shift=0; score=0.499225; yTAARyAAACAa--- ; cor=; Ncor= a 86.0 581.0 3126.0 2547.0 2255.0 587.0 3126.0 3126.0 3126.0 0.0 3126.0 2026.0 0 0 0 c 1646.0 43.0 28.0 113.0 117.0 1062.0 362.0 90.0 0.0 3126.0 32.0 392.0 0 0 0 g 57.0 0.0 402.0 116.0 871.0 17.0 0.0 0.0 23.0 0.0 18.0 258.0 0 0 0 t 1479.0 2545.0 43.0 579.0 27.0 2064.0 20.0 53.0 9.0 85.0 110.0 450.0 0 0 0
MA0613.1_shift4 (FOXG1)				; oligos_7nt_mkv2_m4 versus MA0613.1 (FOXG1); m=13/35; ncol2=8; w=0; offset=1; strand=D; shift=4; score=0.496671; ----rTAAACAw--- ; cor=; Ncor= a 0 0 0 0 374.0 1.0 997.0 997.0 997.0 1.0 997.0 498.0 0 0 0 c 0 0 0 0 1.0 1.0 1.0 1.0 1.0 997.0 1.0 167.0 0 0 0 g 0 0 0 0 623.0 1.0 1.0 1.0 1.0 1.0 1.0 2.0 0 0 0 t 0 0 0 0 1.0 997.0 1.0 1.0 1.0 1.0 1.0 333.0 0 0 0
MA1152.2_rc_shift8 (SOX15_rc)				; oligos_7nt_mkv2_m4 versus MA1152.2_rc (SOX15_rc); m=14/35; ncol2=7; w=0; offset=5; strand=R; shift=8; score=0.494421; --------ACAAwrr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 971.0 5.0 994.0 988.0 362.0 501.0 267.0 c 0 0 0 0 0 0 0 0 3.0 890.0 2.0 6.0 5.0 26.0 147.0 g 0 0 0 0 0 0 0 0 2.0 21.0 2.0 3.0 3.0 412.0 554.0 t 0 0 0 0 0 0 0 0 24.0 83.0 3.0 3.0 631.0 62.0 32.0
MA0084.2_shift6 (SRY)				; oligos_7nt_mkv2_m4 versus MA0084.2 (SRY); m=15/35; ncol2=7; w=0; offset=3; strand=D; shift=6; score=0.488295; ------waACAAw-- ; cor=; Ncor= a 0 0 0 0 0 0 15.0 18.0 25.0 0.0 28.0 27.0 7.0 0 0 c 0 0 0 0 0 0 0.0 3.0 0.0 26.0 0.0 0.0 0.0 0 0 g 0 0 0 0 0 0 3.0 3.0 0.0 0.0 0.0 1.0 2.0 0 0 t 0 0 0 0 0 0 10.0 4.0 3.0 2.0 0.0 0.0 19.0 0 0
MA0846.2_shift1 (FOXC2)				; oligos_7nt_mkv2_m4 versus MA0846.2 (FOXC2); m=16/35; ncol2=11; w=-2; offset=-2; strand=D; shift=1; score=0.480959; -wAwrTAAAYAw--- ; cor=; Ncor= a 0 8939.0 20456.0 11301.0 6418.0 2005.0 20456.0 20456.0 20456.0 31.0 20456.0 13296.0 0 0 0 c 0 1279.0 1652.0 3476.0 440.0 3773.0 6759.0 344.0 105.0 14435.0 101.0 2087.0 0 0 0 g 0 454.0 5093.0 3129.0 14038.0 321.0 87.0 81.0 279.0 68.0 328.0 1710.0 0 0 0 t 0 11517.0 2080.0 9155.0 136.0 20456.0 122.0 107.0 242.0 6021.0 215.0 7160.0 0 0 0
MA2118.1_shift3 (FOXS1)				; oligos_7nt_mkv2_m4 versus MA2118.1 (FOXS1); m=17/35; ncol2=8; w=0; offset=0; strand=D; shift=3; score=0.469394; ---tGTAAACA---- ; cor=; Ncor= a 0 0 0 66.0 36.0 13.0 345.0 345.0 361.0 9.0 356.0 0 0 0 0 c 0 0 0 20.0 8.0 15.0 15.0 16.0 3.0 322.0 5.0 0 0 0 0 g 0 0 0 49.0 323.0 12.0 5.0 8.0 5.0 7.0 3.0 0 0 0 0 t 0 0 0 239.0 7.0 334.0 9.0 5.0 5.0 36.0 10.0 0 0 0 0
MA0868.3_shift7 (SOX8)				; oligos_7nt_mkv2_m4 versus MA0868.3 (SOX8); m=18/35; ncol2=7; w=0; offset=4; strand=D; shift=7; score=0.467705; -------AACAATr- ; cor=; Ncor= a 0 0 0 0 0 0 0 1827.0 1827.0 3.0 1827.0 1827.0 273.0 1356.0 0 c 0 0 0 0 0 0 0 151.0 0.0 1827.0 0.0 43.0 36.0 208.0 0 g 0 0 0 0 0 0 0 263.0 0.0 35.0 0.0 0.0 20.0 1827.0 0 t 0 0 0 0 0 0 0 222.0 45.0 70.0 16.0 36.0 1827.0 287.0 0
MA1563.2_shift7 (SOX18)				; oligos_7nt_mkv2_m4 versus MA1563.2 (SOX18); m=19/35; ncol2=8; w=0; offset=4; strand=D; shift=7; score=0.467538; -------aACAATdv ; cor=; Ncor= a 0 0 0 0 0 0 0 424.0 424.0 0.0 424.0 424.0 0.0 203.0 382.0 c 0 0 0 0 0 0 0 81.0 0.0 424.0 0.0 35.0 0.0 0.0 551.0 g 0 0 0 0 0 0 0 170.0 0.0 91.0 0.0 17.0 0.0 221.0 424.0 t 0 0 0 0 0 0 0 34.0 0.0 2.0 0.0 0.0 447.0 228.0 0.0
MA0850.1_shift4 (FOXP3)				; oligos_7nt_mkv2_m4 versus MA0850.1 (FOXP3); m=20/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.443603; ----rTAAACA---- ; cor=; Ncor= a 0 0 0 0 74.0 20.0 211.0 211.0 211.0 0.0 211.0 0 0 0 0 c 0 0 0 0 0.0 52.0 0.0 0.0 15.0 211.0 0.0 0 0 0 0 g 0 0 0 0 137.0 0.0 0.0 9.0 49.0 32.0 18.0 0 0 0 0 t 0 0 0 0 0.0 211.0 31.0 8.0 0.0 39.0 0.0 0 0 0 0
MA1606.2_shift4 (Foxf1)				; oligos_7nt_mkv2_m4 versus MA1606.2 (Foxf1); m=21/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.442921; ----rTAAACA---- ; cor=; Ncor= a 0 0 0 0 18534.0 568.0 57293.0 53942.0 57167.0 437.0 56436.0 0 0 0 0 c 0 0 0 0 3754.0 446.0 899.0 2249.0 475.0 54394.0 745.0 0 0 0 0 g 0 0 0 0 33599.0 1158.0 445.0 811.0 1067.0 522.0 443.0 0 0 0 0 t 0 0 0 0 3653.0 57368.0 903.0 2538.0 831.0 4187.0 1916.0 0 0 0 0
MA0442.3_shift8 (SOX10)				; oligos_7nt_mkv2_m4 versus MA0442.3 (SOX10); m=22/35; ncol2=6; w=0; offset=5; strand=D; shift=8; score=0.43971; --------ACAAAG- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 2023.0 3.0 2029.0 1968.0 1959.0 10.0 0 c 0 0 0 0 0 0 0 0 4.0 1989.0 7.0 28.0 23.0 13.0 0 g 0 0 0 0 0 0 0 0 3.0 11.0 7.0 20.0 12.0 2012.0 0 t 0 0 0 0 0 0 0 0 25.0 52.0 12.0 39.0 61.0 20.0 0
MA0033.2_shift4 (FOXL1)				; oligos_7nt_mkv2_m4 versus MA0033.2 (FOXL1); m=23/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.439206; ----rTAAACA---- ; cor=; Ncor= a 0 0 0 0 2102.0 10.0 4780.0 4780.0 4780.0 0.0 4780.0 0 0 0 0 c 0 0 0 0 13.0 416.0 628.0 38.0 82.0 3723.0 54.0 0 0 0 0 g 0 0 0 0 2678.0 0.0 57.0 0.0 50.0 0.0 0.0 0 0 0 0 t 0 0 0 0 140.0 4780.0 0.0 15.0 0.0 1057.0 17.0 0 0 0 0
MA0157.4_shift4 (Foxo3)				; oligos_7nt_mkv2_m4 versus MA0157.4 (Foxo3); m=24/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.438847; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 3470.0 1546.0 22240.0 22288.0 22551.0 403.0 22141.0 0 0 0 0 c 0 0 0 0 590.0 435.0 968.0 803.0 483.0 21237.0 587.0 0 0 0 0 g 0 0 0 0 19202.0 1199.0 328.0 333.0 464.0 361.0 361.0 0 0 0 0 t 0 0 0 0 650.0 20732.0 376.0 488.0 414.0 1911.0 823.0 0 0 0 0
MA0852.3_shift4 (FOXK1)				; oligos_7nt_mkv2_m4 versus MA0852.3 (FOXK1); m=25/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.437797; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 143.0 60.0 1003.0 999.0 1022.0 10.0 1015.0 0 0 0 0 c 0 0 0 0 28.0 5.0 37.0 37.0 13.0 958.0 16.0 0 0 0 0 g 0 0 0 0 868.0 44.0 10.0 11.0 10.0 12.0 12.0 0 0 0 0 t 0 0 0 0 17.0 947.0 6.0 9.0 11.0 76.0 13.0 0 0 0 0
MA0480.3_shift4 (Foxo1)				; oligos_7nt_mkv2_m4 versus MA0480.3 (Foxo1); m=26/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.437054; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 1411.0 945.0 12408.0 12663.0 12972.0 293.0 13332.0 0 0 0 0 c 0 0 0 0 481.0 555.0 934.0 849.0 387.0 12710.0 277.0 0 0 0 0 g 0 0 0 0 11670.0 1025.0 478.0 384.0 508.0 356.0 153.0 0 0 0 0 t 0 0 0 0 554.0 11591.0 296.0 220.0 249.0 757.0 354.0 0 0 0 0
MA0848.1_shift4 (FOXO4)				; oligos_7nt_mkv2_m4 versus MA0848.1 (FOXO4); m=27/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.432658; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 1669.0 345.0 5378.0 5378.0 5378.0 58.0 5378.0 0 0 0 0 c 0 0 0 0 13.0 69.0 1259.0 146.0 0.0 5378.0 10.0 0 0 0 0 g 0 0 0 0 5378.0 123.0 32.0 19.0 90.0 33.0 10.0 0 0 0 0 t 0 0 0 0 0.0 5378.0 20.0 20.0 10.0 958.0 40.0 0 0 0 0
MA1103.3_shift4 (FOXK2)				; oligos_7nt_mkv2_m4 versus MA1103.3 (FOXK2); m=28/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.425856; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 2697.0 360.0 15913.0 14387.0 15593.0 499.0 15709.0 0 0 0 0 c 0 0 0 0 551.0 210.0 277.0 1291.0 330.0 14282.0 295.0 0 0 0 0 g 0 0 0 0 12737.0 327.0 148.0 436.0 391.0 426.0 170.0 0 0 0 0 t 0 0 0 0 694.0 15782.0 341.0 565.0 365.0 1472.0 505.0 0 0 0 0
MA0849.1_shift4 (FOXO6)				; oligos_7nt_mkv2_m4 versus MA0849.1 (FOXO6); m=29/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.425694; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 1445.0 154.0 7025.0 7025.0 7025.0 0.0 7025.0 0 0 0 0 c 0 0 0 0 0.0 0.0 1147.0 195.0 0.0 7025.0 0.0 0 0 0 0 g 0 0 0 0 7025.0 32.0 7.0 0.0 0.0 31.0 13.0 0 0 0 0 t 0 0 0 0 0.0 7025.0 0.0 26.0 0.0 385.0 0.0 0 0 0 0
MA2117.1_shift4 (FOXP4)				; oligos_7nt_mkv2_m4 versus MA2117.1 (FOXP4); m=30/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.423482; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 2224.0 543.0 19122.0 19613.0 20280.0 379.0 20230.0 0 0 0 0 c 0 0 0 0 834.0 793.0 1545.0 1330.0 419.0 18349.0 443.0 0 0 0 0 g 0 0 0 0 17315.0 539.0 534.0 368.0 550.0 493.0 218.0 0 0 0 0 t 0 0 0 0 1294.0 19792.0 466.0 356.0 418.0 2446.0 776.0 0 0 0 0
MA0031.2_shift4 (FOXD1)				; oligos_7nt_mkv2_m4 versus MA0031.2 (FOXD1); m=31/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.417893; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 1.0 0.0 19.0 20.0 18.0 1.0 20.0 0 0 0 0 c 0 0 0 0 1.0 0.0 1.0 0.0 1.0 18.0 0.0 0 0 0 0 g 0 0 0 0 17.0 0.0 0.0 0.0 1.0 0.0 0.0 0 0 0 0 t 0 0 0 0 1.0 20.0 0.0 0.0 0.0 1.0 0.0 0 0 0 0
MA0042.2_shift4 (FOXI1)				; oligos_7nt_mkv2_m4 versus MA0042.2 (FOXI1); m=32/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.417299; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 618.0 74.0 5175.0 5175.0 5175.0 157.0 5175.0 0 0 0 0 c 0 0 0 0 39.0 60.0 540.0 23.0 23.0 5175.0 12.0 0 0 0 0 g 0 0 0 0 5175.0 35.0 37.0 0.0 29.0 48.0 25.0 0 0 0 0 t 0 0 0 0 0.0 5175.0 0.0 0.0 66.0 810.0 0.0 0 0 0 0
MA0481.4_shift4 (FOXP1)				; oligos_7nt_mkv2_m4 versus MA0481.4 (FOXP1); m=33/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.416852; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 10463.0 1209.0 69603.0 65236.0 70030.0 1336.0 68456.0 0 0 0 0 c 0 0 0 0 1573.0 727.0 2095.0 5067.0 1487.0 61094.0 1904.0 0 0 0 0 g 0 0 0 0 59571.0 920.0 1073.0 1830.0 1132.0 1493.0 749.0 0 0 0 0 t 0 0 0 0 3111.0 71862.0 1947.0 2585.0 2069.0 10795.0 3609.0 0 0 0 0
MA1683.2_shift4 (FOXA3)				; oligos_7nt_mkv2_m4 versus MA1683.2 (FOXA3); m=34/35; ncol2=7; w=0; offset=1; strand=D; shift=4; score=0.414675; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 4481.0 758.0 45178.0 43099.0 46046.0 951.0 45552.0 0 0 0 0 c 0 0 0 0 1464.0 903.0 1980.0 3883.0 973.0 39509.0 933.0 0 0 0 0 g 0 0 0 0 40396.0 690.0 636.0 977.0 934.0 1205.0 614.0 0 0 0 0 t 0 0 0 0 2596.0 46586.0 1143.0 978.0 984.0 7272.0 1838.0 0 0 0 0
MA1607.2_shift1 (Foxl2)				; oligos_7nt_mkv2_m4 versus MA1607.2 (Foxl2); m=35/35; ncol2=10; w=-2; offset=-2; strand=D; shift=1; score=0.403407; -waTGTAAACA---- ; cor=; Ncor= a 0 6433.0 11158.0 2985.0 2607.0 1097.0 17227.0 17212.0 17146.0 282.0 15623.0 0 0 0 0 c 0 1576.0 2051.0 896.0 367.0 301.0 558.0 336.0 216.0 15698.0 807.0 0 0 0 0 g 0 1599.0 2107.0 1371.0 14648.0 419.0 112.0 187.0 411.0 151.0 401.0 0 0 0 0 t 0 8493.0 2785.0 12849.0 479.0 16284.0 204.0 366.0 328.0 1970.0 1270.0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv2_m5_shift6 (oligos_7nt_mkv2_m5)				; oligos_7nt_mkv2_m5; m=0 (reference); ncol1=12; shift=6; ncol=18; ------kmAGCCAAGAws ; Alignment reference a 0 0 0 0 0 0 18 27 58 4 6 2 71 77 5 72 22 18 c 0 0 0 0 0 0 15 25 6 3 69 73 3 1 2 3 13 24 g 0 0 0 0 0 0 24 15 7 68 4 2 5 0 70 4 17 21 t 0 0 0 0 0 0 23 13 9 5 1 3 1 2 3 1 28 17
MA1979.2_rc_shift8 (ZNF416_rc)				; oligos_7nt_mkv2_m5 versus MA1979.2_rc (ZNF416_rc); m=1/7; ncol2=10; w=0; offset=2; strand=R; shift=8; score=0.593718; --------tGCCCAGAtA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 66.0 18.0 3.0 3.0 2.0 336.0 3.0 254.0 46.0 240.0 c 0 0 0 0 0 0 0 0 29.0 3.0 341.0 335.0 335.0 1.0 7.0 15.0 77.0 26.0 g 0 0 0 0 0 0 0 0 38.0 320.0 1.0 5.0 7.0 6.0 334.0 28.0 25.0 32.0 t 0 0 0 0 0 0 0 0 212.0 4.0 0.0 2.0 1.0 2.0 1.0 48.0 197.0 47.0
MA1588.1_rc_shift5 (ZNF136_rc)				; oligos_7nt_mkv2_m5 versus MA1588.1_rc (ZNF136_rc); m=2/7; ncol2=15; w=-1; offset=-1; strand=R; shift=5; score=0.575603; -----gyCAACCaAGAAT ; cor=; Ncor= a 0 0 0 0 0 571.0 144.0 92.0 2956.0 2339.0 48.0 98.0 2164.0 3033.0 203.0 3078.0 3095.0 25.0 c 0 0 0 0 0 82.0 1048.0 2904.0 102.0 33.0 2995.0 2799.0 511.0 46.0 31.0 27.0 34.0 69.0 g 0 0 0 0 0 1973.0 120.0 40.0 60.0 672.0 48.0 17.0 93.0 83.0 2910.0 69.0 34.0 29.0 t 0 0 0 0 0 575.0 1889.0 165.0 83.0 157.0 110.0 287.0 433.0 39.0 57.0 27.0 38.0 3078.0
MA0161.3_rc_shift8 (NFIC_rc)				; oligos_7nt_mkv2_m5 versus MA0161.3_rc (NFIC_rc); m=3/7; ncol2=7; w=0; offset=2; strand=R; shift=8; score=0.505305; --------TGCCAAG--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 574.0 530.0 290.0 81.0 10745.0 10781.0 324.0 0 0 0 c 0 0 0 0 0 0 0 0 478.0 88.0 10973.0 11087.0 177.0 369.0 329.0 0 0 0 g 0 0 0 0 0 0 0 0 397.0 10725.0 121.0 129.0 333.0 303.0 10542.0 0 0 0 t 0 0 0 0 0 0 0 0 10158.0 264.0 223.0 310.0 352.0 154.0 412.0 0 0 0
MA1729.2_shift10 (ZNF680)				; oligos_7nt_mkv2_m5 versus MA1729.2 (ZNF680); m=4/7; ncol2=11; w=0; offset=4; strand=D; shift=10; score=0.448295; ----------CCAAGAAG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 418.0 1120.0 5394.0 4522.0 43.0 5681.0 5479.0 494.0 c 0 0 0 0 0 0 0 0 0 0 4870.0 4324.0 60.0 17.0 14.0 23.0 13.0 40.0 g 0 0 0 0 0 0 0 0 0 0 133.0 69.0 208.0 1116.0 5691.0 44.0 203.0 5144.0 t 0 0 0 0 0 0 0 0 0 0 345.0 253.0 104.0 111.0 18.0 18.0 71.0 88.0
MA0671.2_shift8 (NFIX)				; oligos_7nt_mkv2_m5 versus MA0671.2 (NFIX); m=5/7; ncol2=6; w=0; offset=2; strand=D; shift=8; score=0.444162; --------tGCCAr---- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 11279.0 132.0 3.0 0.0 32864.0 32864.0 0 0 0 0 c 0 0 0 0 0 0 0 0 9695.0 186.0 32864.0 32864.0 2230.0 1356.0 0 0 0 0 g 0 0 0 0 0 0 0 0 5911.0 32864.0 3257.0 0.0 180.0 12688.0 0 0 0 0 t 0 0 0 0 0 0 0 0 32864.0 2539.0 29.0 0.0 110.0 2399.0 0 0 0 0
MA0670.2_shift8 (NFIA)				; oligos_7nt_mkv2_m5 versus MA0670.2 (NFIA); m=6/7; ncol2=6; w=0; offset=2; strand=D; shift=8; score=0.414012; --------TGCCAA---- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0.0 0.0 0.0 0.0 89071.0 89418.0 0 0 0 0 c 0 0 0 0 0 0 0 0 0.0 0.0 93597.0 93394.0 0.0 0.0 0 0 0 0 g 0 0 0 0 0 0 0 0 0.0 98253.0 0.0 0.0 0.0 0.0 0 0 0 0 t 0 0 0 0 0 0 0 0 95496.0 0.0 0.0 0.0 0.0 0.0 0 0 0 0
MA0119.1_shift0 (NFIC::TLX1)				; oligos_7nt_mkv2_m5 versus MA0119.1 (NFIC::TLX1); m=7/7; ncol2=14; w=-6; offset=-6; strand=D; shift=0; score=0.402818; TGGCAssrwGCCAA---- ; cor=; Ncor= a 0.0 0.0 0.0 0.0 14.0 2.0 2.0 7.0 4.0 0.0 0.0 0.0 16.0 14.0 0 0 0 0 c 0.0 0.0 0.0 16.0 1.0 8.0 8.0 1.0 3.0 0.0 16.0 16.0 0.0 0.0 0 0 0 0 g 0.0 16.0 16.0 0.0 0.0 5.0 4.0 5.0 2.0 16.0 0.0 0.0 0.0 1.0 0 0 0 0 t 16.0 0.0 0.0 0.0 1.0 1.0 2.0 3.0 7.0 0.0 0.0 0.0 0.0 1.0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv2_m3_shift0 (oligos_7nt_mkv2_m3)				; oligos_7nt_mkv2_m3; m=0 (reference); ncol1=14; shift=0; ncol=14; aaAGAAAGAAAAar ; Alignment reference a 31 37 65 8 73 76 72 6 73 67 70 55 36 33 c 14 8 1 3 0 0 1 2 3 2 3 4 8 15 g 18 14 6 61 3 1 3 69 2 6 2 13 19 20 t 15 19 6 6 2 1 2 1 0 3 3 6 15 10
MA1623.2_shift1 (Stat2)				; oligos_7nt_mkv2_m3 versus MA1623.2 (Stat2); m=1/7; ncol2=10; w=0; offset=1; strand=D; shift=1; score=0.508153; -gAAACAGAAA--- ; cor=; Ncor= a 0 969.0 3554.0 3736.0 3738.0 286.0 3146.0 152.0 3700.0 3747.0 3514.0 0 0 0 c 0 306.0 76.0 75.0 72.0 2907.0 151.0 45.0 49.0 45.0 147.0 0 0 0 g 0 2287.0 168.0 71.0 87.0 524.0 74.0 3707.0 163.0 98.0 157.0 0 0 0 t 0 397.0 161.0 77.0 62.0 242.0 588.0 55.0 47.0 69.0 141.0 0 0 0
MA1125.2_shift4 (ZNF384)				; oligos_7nt_mkv2_m3 versus MA1125.2 (ZNF384); m=2/7; ncol2=8; w=0; offset=4; strand=D; shift=4; score=0.463279; ----AAAAAAaa-- ; cor=; Ncor= a 0 0 0 0 30354.0 30191.0 30072.0 30252.0 30202.0 30406.0 20322.0 18916.0 0 0 c 0 0 0 0 7.0 35.0 21.0 13.0 26.0 6.0 2908.0 3963.0 0 0 g 0 0 0 0 13.0 19.0 26.0 15.0 14.0 0.0 2767.0 2898.0 0 0 t 0 0 0 0 59.0 188.0 314.0 153.0 191.0 21.0 4436.0 4656.0 0 0
MA0508.4_rc_shift1 (PRDM1_rc)				; oligos_7nt_mkv2_m3 versus MA0508.4_rc (PRDM1_rc); m=3/7; ncol2=7; w=0; offset=1; strand=R; shift=1; score=0.444483; -GAGAAAG------ ; cor=; Ncor= a 0 660.0 49466.0 432.0 52619.0 50943.0 52905.0 829.0 0 0 0 0 0 0 c 0 290.0 1390.0 207.0 561.0 1011.0 826.0 701.0 0 0 0 0 0 0 g 0 52821.0 1076.0 53465.0 488.0 1346.0 467.0 52752.0 0 0 0 0 0 0 t 0 1710.0 3549.0 1377.0 1813.0 2181.0 1283.0 1199.0 0 0 0 0 0 0
MA0869.3_shift0 (Sox11)				; oligos_7nt_mkv2_m3 versus MA0869.3 (Sox11); m=4/7; ncol2=8; w=0; offset=0; strand=D; shift=0; score=0.43716; GAACAAAG------ ; cor=; Ncor= a 1014.0 7912.0 9856.0 119.0 10020.0 9676.0 9276.0 506.0 0 0 0 0 0 0 c 764.0 766.0 100.0 9471.0 108.0 264.0 61.0 148.0 0 0 0 0 0 0 g 8063.0 1298.0 211.0 501.0 49.0 248.0 233.0 9486.0 0 0 0 0 0 0 t 407.0 272.0 81.0 157.0 71.0 60.0 678.0 108.0 0 0 0 0 0 0
MA0037.5_rc_shift6 (Gata3_rc)				; oligos_7nt_mkv2_m3 versus MA0037.5_rc (Gata3_rc); m=5/7; ncol2=8; w=0; offset=6; strand=R; shift=6; score=0.410717; ------AGATAAGa ; cor=; Ncor= a 0 0 0 0 0 0 20257.0 480.0 23868.0 800.0 22166.0 22866.0 2055.0 16442.0 c 0 0 0 0 0 0 608.0 255.0 291.0 528.0 960.0 280.0 2165.0 2551.0 g 0 0 0 0 0 0 903.0 23839.0 282.0 566.0 758.0 928.0 19702.0 3859.0 t 0 0 0 0 0 0 3100.0 294.0 427.0 22974.0 984.0 794.0 946.0 2016.0
MA1970.2_rc_shift6 (TRPS1_rc)				; oligos_7nt_mkv2_m3 versus MA1970.2_rc (TRPS1_rc); m=6/7; ncol2=8; w=0; offset=6; strand=R; shift=6; score=0.402495; ------AGATAAGA ; cor=; Ncor= a 0 0 0 0 0 0 13985.0 622.0 17527.0 299.0 16498.0 16758.0 1654.0 12628.0 c 0 0 0 0 0 0 716.0 263.0 179.0 329.0 449.0 320.0 1426.0 1749.0 g 0 0 0 0 0 0 792.0 17146.0 265.0 215.0 462.0 560.0 14262.0 2547.0 t 0 0 0 0 0 0 2790.0 252.0 312.0 17440.0 874.0 645.0 941.0 1359.0
MA1104.3_rc_shift6 (GATA6_rc)				; oligos_7nt_mkv2_m3 versus MA1104.3_rc (GATA6_rc); m=7/7; ncol2=8; w=0; offset=6; strand=R; shift=6; score=0.401466; ------AGATAAGA ; cor=; Ncor= a 0 0 0 0 0 0 61257.0 1706.0 76629.0 1124.0 72392.0 74865.0 5514.0 54635.0 c 0 0 0 0 0 0 1810.0 712.0 456.0 819.0 615.0 580.0 6459.0 7066.0 g 0 0 0 0 0 0 3228.0 75930.0 852.0 815.0 1393.0 1439.0 62936.0 11831.0 t 0 0 0 0 0 0 13149.0 1096.0 1507.0 76686.0 5044.0 2560.0 4535.0 5912.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv2_m1_shift1 (oligos_7nt_mkv2_m1)				; oligos_7nt_mkv2_m1; m=0 (reference); ncol1=14; shift=1; ncol=15; -ssGCCCGGCgsssg ; Alignment reference a 0 18 20 7 3 5 5 5 2 2 7 11 9 7 13 c 0 31 24 3 75 71 66 7 9 76 15 22 22 30 21 g 0 25 26 73 7 7 12 72 73 3 55 40 46 33 33 t 0 12 16 3 1 3 3 2 2 5 9 13 9 16 19
MA2328.1_shift0 (ZBED4)				; oligos_7nt_mkv2_m1 versus MA2328.1 (ZBED4); m=1/4; ncol2=10; w=-1; offset=-1; strand=D; shift=0; score=0.439789; 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
MA1513.2_rc_shift6 (KLF15_rc)				; oligos_7nt_mkv2_m1 versus MA1513.2_rc (KLF15_rc); m=2/4; ncol2=8; w=0; offset=5; strand=R; shift=6; score=0.433128; ------GGGCGGGg- ; cor=; Ncor= a 0 0 0 0 0 0 3.0 1.0 11.0 0.0 0.0 3.0 9.0 1809.0 0 c 0 0 0 0 0 0 100.0 359.0 2.0 11369.0 1.0 333.0 86.0 2117.0 0 g 0 0 0 0 0 0 11254.0 10954.0 11345.0 0.0 11368.0 10940.0 11234.0 6506.0 0 t 0 0 0 0 0 0 12.0 55.0 11.0 0.0 0.0 93.0 40.0 937.0 0
MA0471.3_shift7 (E2F6)				; oligos_7nt_mkv2_m1 versus MA0471.3 (E2F6); m=3/4; ncol2=8; w=0; offset=6; strand=D; shift=7; score=0.414802; -------GGCGGGAA ; cor=; Ncor= a 0 0 0 0 0 0 0 2110.0 266.0 3856.0 1173.0 338.0 354.0 29337.0 25725.0 c 0 0 0 0 0 0 0 1148.0 837.0 26424.0 539.0 434.0 834.0 1171.0 1595.0 g 0 0 0 0 0 0 0 29387.0 31790.0 693.0 30573.0 31973.0 31614.0 2322.0 5021.0 t 0 0 0 0 0 0 0 453.0 205.0 2125.0 813.0 353.0 296.0 268.0 757.0
MA1959.2_shift6 (KLF7)				; oligos_7nt_mkv2_m1 versus MA1959.2 (KLF7); m=4/4; ncol2=8; w=0; offset=5; strand=D; shift=6; score=0.403478; ------GGGCGKgG- ; cor=; Ncor= a 0 0 0 0 0 0 1.0 1.0 1.0 45.0 1.0 1.0 150.0 1.0 0 c 0 0 0 0 0 0 1.0 1.0 1.0 788.0 1.0 25.0 42.0 1.0 0 g 0 0 0 0 0 0 997.0 997.0 997.0 1.0 997.0 720.0 642.0 997.0 0 t 0 0 0 0 0 0 1.0 1.0 1.0 167.0 1.0 254.0 167.0 1.0 0