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.2025-05-16.175823_2025-05-16.175823_YJjJog/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.2025-05-16.175823_2025-05-16.175823_YJjJog/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_m1_shift7 ; 23 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv2_m1_shift7 (oligos_6nt_mkv2_m1)
; oligos_6nt_mkv2_m1; m=0 (reference); ncol1=11; shift=7; ncol=18; -------csgCCTCCCcs ; Alignment reference a 0 0 0 0 0 0 0 29 27 13 2 2 3 2 5 1 40 39 c 0 0 0 0 0 0 0 60 53 34 160 155 1 160 155 161 59 51 g 0 0 0 0 0 0 0 37 44 85 1 4 6 1 5 2 25 50 t 0 0 0 0 0 0 0 39 41 33 2 4 155 2 0 1 41 25

MA1653.2_shift8 (ZNF148)
; oligos_6nt_mkv2_m1 versus MA1653.2 (ZNF148); m=1/22; ncol2=10; w=0; offset=1; strand=D; shift=8; score=0.754333; --------CCCCTCCCcc ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 113.0 200.0 136.0 66.0 10040.0 67.0 465.0 1082.0 1190.0 1180.0

MA1961.2_rc_shift7 (PATZ1_rc)
; oligos_6nt_mkv2_m1 versus MA1961.2_rc (PATZ1_rc); m=2/22; ncol2=11; w=0; offset=0; strand=R; shift=7; score=0.746318; -------sCCCCkCCCCs ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 51.0 54.0 1.0 1.0 1.0 355.0 1.0 1.0 195.0 68.0 125.0

MA1630.3_rc_shift8 (ZNF281_rc)
; oligos_6nt_mkv2_m1 versus MA1630.3_rc (ZNF281_rc); m=3/22; ncol2=10; w=0; offset=1; strand=R; shift=8; score=0.695066; --------CCCCTCCCCC ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 47.0 41.0 1.0 122.0 720.0 1.0 1.0 35.0 1.0 1.0

MA0599.1_shift7 (KLF5)
; oligos_6nt_mkv2_m1 versus MA0599.1 (KLF5); m=4/22; ncol2=10; w=0; offset=0; strand=D; shift=7; score=0.680797; -------gCCMCrCCCh- ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 2587.0 1711.0 1603.0 565.0 0.0 3378.0 0.0 0.0 476.0 4101.0 0

MA0685.2_rc_shift8 (SP4_rc)
; oligos_6nt_mkv2_m1 versus MA0685.2_rc (SP4_rc); m=5/22; ncol2=9; w=0; offset=1; strand=R; shift=8; score=0.633517; --------CyCCKCCCc- ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0.686813 289.148 0.686813 0.686813 275.412 0.686813 0.686813 0.686813 149.038 0

MA0079.5_rc_shift8 (SP1_rc)
; oligos_6nt_mkv2_m1 versus MA0079.5_rc (SP1_rc); m=6/22; ncol2=9; w=0; offset=1; strand=R; shift=8; score=0.630102; --------CyCCKCCCC- ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 161.392 254.219 1.05485 1.05485 266.878 1.05485 1.05485 1.05485 1.05485 0

MA1596.1_shift3 (ZNF460)
; oligos_6nt_mkv2_m1 versus MA1596.1 (ZNF460); m=7/22; ncol2=16; w=-4; offset=-4; strand=D; shift=3; score=0.602416; ---rCCTCmGCCTCCCrr ; cor=; Ncor= a 0 0 0 412.0 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 0 0 0 131.0 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 0 0 0 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 0 0 0 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

MA1522.2_shift8 (MAZ)
; oligos_6nt_mkv2_m1 versus MA1522.2 (MAZ); m=8/22; ncol2=8; w=0; offset=1; strand=D; shift=8; score=0.602198; --------CCCCTCCc-- ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 26.0 0.0 6.0 1.0 14927.0 4.0 0.0 2814.0 0 0

MA0516.3_rc_shift8 (SP2_rc)
; oligos_6nt_mkv2_m1 versus MA0516.3_rc (SP2_rc); m=9/22; ncol2=9; w=0; offset=1; strand=R; shift=8; score=0.594991; --------cCCCGCCCC- ; cor=; Ncor= a 0 0 0 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 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 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 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_shift8 (KLF14_rc)
; oligos_6nt_mkv2_m1 versus MA0740.2_rc (KLF14_rc); m=10/22; ncol2=9; w=0; offset=1; strand=R; shift=8; score=0.583591; --------CCMCGCCCm- ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 198.614 107.705 0.635877 0.635877 94.9046 0.635877 0.635877 0.635877 31.158 0

MA0528.3_rc_shift9 (ZNF263_rc)
; oligos_6nt_mkv2_m1 versus MA0528.3_rc (ZNF263_rc); m=11/22; ncol2=7; w=0; offset=2; strand=R; shift=9; score=0.575892; ---------TCCTCCC-- ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 52499.0 695.0 830.0 53900.0 950.0 789.0 1610.0 0 0

MA2099.1_shift7 (ZNF770)
; oligos_6nt_mkv2_m1 versus MA2099.1 (ZNF770); m=12/22; ncol2=8; w=0; offset=0; strand=D; shift=7; score=0.570729; -------CrGCCTCm--- ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 1052.0 387.0 126.0 156.0 65.0 13889.0 56.0 724.0 0 0 0

MA1587.1_shift4 (ZNF135)
; oligos_6nt_mkv2_m1 versus MA1587.1 (ZNF135); m=13/22; ncol2=14; w=-3; offset=-3; strand=D; shift=4; score=0.555226; ----cCTCGACCTCCyrr ; cor=; Ncor= a 0 0 0 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 0 0 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 0 0 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 0 0 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

MA1965.2_shift10 (SP5)
; oligos_6nt_mkv2_m1 versus MA1965.2 (SP5); m=14/22; ncol2=6; w=0; offset=3; strand=D; shift=10; score=0.545325; ----------CCTCCC-- ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 4.0 0.0 20465.0 0.0 0.0 0.0 0 0

MA1627.2_shift10 (Wt1)
; oligos_6nt_mkv2_m1 versus MA1627.2 (Wt1); m=15/22; ncol2=10; w=0; offset=3; strand=D; shift=10; score=0.541394; ----------cCTCCCCC ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 500.0 39.0 4183.0 26.0 222.0 276.0 104.0 41.0

MA0493.3_rc_shift8 (KLF1_rc)
; oligos_6nt_mkv2_m1 versus MA0493.3_rc (KLF1_rc); m=16/22; ncol2=8; w=0; offset=1; strand=R; shift=8; score=0.516717; --------CCmCrCCC-- ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 1.0 82.0 1.0 1.0 125.0 1.0 1.0 1.0 0 0

MA1959.2_rc_shift8 (KLF7_rc)
; oligos_6nt_mkv2_m1 versus MA1959.2_rc (KLF7_rc); m=17/22; ncol2=8; w=0; offset=1; strand=R; shift=8; score=0.51627; --------CcMCGCCC-- ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 1.0 150.0 1.0 1.0 45.0 1.0 1.0 1.0 0 0

MA1513.2_shift8 (KLF15)
; oligos_6nt_mkv2_m1 versus MA1513.2 (KLF15); m=18/22; ncol2=8; w=0; offset=1; strand=D; shift=8; score=0.51057; --------cCCCGCCC-- ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0 0 0

MA1723.2_rc_shift4 (PRDM9_rc)
; oligos_6nt_mkv2_m1 versus MA1723.2_rc (PRDM9_rc); m=19/22; ncol2=20; w=-3; offset=-3; strand=R; shift=4; score=0.459146; ----yTkyykCCyCCcTk ; cor=; Ncor= a 0 0 0 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 0 0 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 0 0 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 0 0 0 318.0 783.0 265.0 371.0 397.0 353.0 20.0 2.0 450.0 29.0 125.0 160.0 774.0 300.0

MA1710.2_rc_shift4 (ZNF257_rc)
; oligos_6nt_mkv2_m1 versus MA1710.2_rc (ZNF257_rc); m=20/22; ncol2=10; w=-3; offset=-3; strand=R; shift=4; score=0.450402; ----cyCTygCCTC---- ; cor=; Ncor= a 0 0 0 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 0 0 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 0 0 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 0 0 0 112.0 434.0 1.0 832.0 549.0 239.0 1.0 1.0 924.0 1.0 0 0 0 0

MA1578.2_shift10 (VEZF1)
; oligos_6nt_mkv2_m1 versus MA1578.2 (VEZF1); m=21/22; ncol2=6; w=0; offset=3; strand=D; shift=10; score=0.415111; ----------CCCCCC-- ; cor=; Ncor= a 0 0 0 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 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 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 0.0 0.0 4.0 8.0 0 0

MA1972.1_rc_shift0 (ZFP14_rc)
; oligos_6nt_mkv2_m1 versus MA1972.1_rc (ZFP14_rc); m=22/22; ncol2=15; w=-7; offset=-7; strand=R; shift=0; score=0.406016; CryTCCagkgCCTCC--- ; cor=; Ncor= a 99.5223 335.191 3.98089 0.796178 0.796178 121.815 386.146 96.3376 230.096 48.5669 0.796178 3.98089 0.796178 3.98089 16.7197 0 0 0 c 803.344 246.019 309.713 19.9045 991.242 755.573 182.325 93.1529 64.4904 172.771 691.879 994.427 0.796178 876.592 832.006 0 0 0 g 58.121 268.312 89.9682 0.796178 0.796178 0.796178 207.803 675.955 351.115 545.382 220.541 0.796178 3.98089 0.796178 13.535 0 0 0 t 39.0127 150.478 596.338 978.503 7.16561 121.815 223.726 134.554 354.299 233.28 86.7834 0.796178 994.427 118.631 137.739 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m3_shift0 ; 6 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv2_m3_shift0 (oligos_6nt_mkv2_m3)
; oligos_6nt_mkv2_m3; m=0 (reference); ncol1=11; shift=0; ncol=11; raATGAATGah ; Alignment reference a 33 41 100 2 2 94 100 0 10 41 31 c 17 16 1 1 5 4 5 1 10 19 29 g 35 25 3 1 99 8 3 6 79 27 20 t 24 27 5 105 3 3 1 102 10 22 29

MA1124.1_rc_shift0 (ZNF24_rc)
; oligos_6nt_mkv2_m3 versus MA1124.1_rc (ZNF24_rc); m=1/5; ncol2=13; w=0; offset=0; strand=R; shift=0; score=0.744145; GAATGAATGAA ; cor=; Ncor= a 2685.0 19146.0 19421.0 279.0 789.0 22610.0 22192.0 147.0 723.0 21867.0 19505.0 c 856.0 1045.0 811.0 589.0 93.0 182.0 128.0 501.0 118.0 461.0 739.0 g 17701.0 2128.0 2062.0 402.0 22068.0 330.0 887.0 219.0 22137.0 544.0 2102.0 t 2062.0 985.0 1010.0 22034.0 354.0 182.0 97.0 22437.0 326.0 432.0 958.0

MA0601.2_shift1 (Arid3b)
; oligos_6nt_mkv2_m3 versus MA0601.2 (Arid3b); m=2/5; ncol2=7; w=0; offset=1; strand=D; shift=1; score=0.449203; -waTTAAT--- ; cor=; Ncor= a 0 273.0 609.0 104.0 0.0 1000.0 911.0 89.0 0 0 0 c 0 80.0 119.0 0.0 0.0 0.0 0.0 0.0 0 0 0 g 0 80.0 34.0 0.0 0.0 0.0 0.0 0.0 0 0 0 t 0 566.0 238.0 895.0 1000.0 0.0 89.0 911.0 0 0 0

MA1499.2_rc_shift0 (HOXB4_rc)
; oligos_6nt_mkv2_m3 versus MA1499.2_rc (HOXB4_rc); m=3/5; ncol2=6; w=0; offset=0; strand=R; shift=0; score=0.41158; TAATkA----- ; cor=; Ncor= a 0.0 9080.0 9080.0 0.0 0.0 9080.0 0 0 0 0 0 c 55.0 271.0 0.0 265.0 0.0 0.0 0 0 0 0 0 g 0.0 0.0 0.0 0.0 5459.0 2103.0 0 0 0 0 0 t 9080.0 0.0 0.0 9080.0 3621.0 0.0 0 0 0 0 0

MA1504.2_rc_shift0 (HOXC4_rc)
; oligos_6nt_mkv2_m3 versus MA1504.2_rc (HOXC4_rc); m=4/5; ncol2=6; w=0; offset=0; strand=R; shift=0; score=0.405742; TAATkR----- ; cor=; Ncor= a 0.0 8759.0 8759.0 0.0 0.0 8759.0 0 0 0 0 0 c 825.0 0.0 0.0 583.0 0.0 0.0 0 0 0 0 0 g 0.0 0.0 0.0 0.0 5152.0 3111.0 0 0 0 0 0 t 8759.0 0.0 0.0 8759.0 3607.0 188.0 0 0 0 0 0

MA1114.2_shift3 (PBX3)
; oligos_6nt_mkv2_m3 versus MA1114.2 (PBX3); m=5/5; ncol2=11; w=0; offset=3; strand=D; shift=3; score=0.402183; ---TGAGTGAC ; cor=; Ncor= a 0 0 0 596.0 228.0 6426.0 335.0 247.0 146.0 6164.0 150.0 c 0 0 0 225.0 227.0 125.0 788.0 199.0 242.0 108.0 6524.0 g 0 0 0 503.0 6406.0 214.0 4929.0 285.0 6550.0 604.0 209.0 t 0 0 0 5697.0 160.0 256.0 969.0 6290.0 83.0 145.0 138.0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m1_shift1 ; 20 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=15; shift=1; ncol=16; -aaaAtAAATAAAAwa ; Alignment reference a 0 53 57 78 93 25 100 105 105 3 101 102 100 82 39 47 c 0 17 16 9 4 6 5 3 5 12 3 3 5 7 20 22 g 0 19 19 11 5 11 6 6 2 4 5 7 6 8 23 19 t 0 28 25 19 15 75 6 3 5 98 8 5 6 20 35 29

MA0041.3_shift1 (FOXD3)
; oligos_7nt_mkv2_m1 versus MA0041.3 (FOXD3); m=1/19; ncol2=14; w=0; offset=0; strand=D; shift=1; score=0.739623; -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 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 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 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 0

MA0846.2_shift1 (FOXC2)
; oligos_7nt_mkv2_m1 versus MA0846.2 (FOXC2); m=2/19; ncol2=11; w=0; offset=0; strand=D; shift=1; score=0.564087; -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 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 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 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 0

MA0032.2_shift1 (FOXC1)
; oligos_7nt_mkv2_m1 versus MA0032.2 (FOXC1); m=3/19; ncol2=11; w=0; offset=0; strand=D; shift=1; score=0.538955; -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 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 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 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 0

MA0757.2_shift0 (ONECUT3)
; oligos_7nt_mkv2_m1 versus MA0757.2 (ONECUT3); m=4/19; ncol2=12; w=-1; offset=-1; strand=D; shift=0; score=0.525123; aAAAATCrATAa---- ; cor=; Ncor= a 3851.0 6080.0 6080.0 6080.0 6080.0 32.0 23.0 3950.0 6080.0 43.0 6080.0 3620.0 0 0 0 0 c 379.0 274.0 173.0 28.0 5.0 103.0 6080.0 20.0 6.0 6.0 105.0 861.0 0 0 0 0 g 1141.0 498.0 112.0 102.0 41.0 14.0 3.0 2130.0 9.0 7.0 187.0 417.0 0 0 0 0 t 709.0 878.0 1221.0 54.0 11.0 6080.0 5.0 11.0 22.0 6080.0 345.0 1182.0 0 0 0 0

MA1487.3_shift0 (FOXE1)
; oligos_7nt_mkv2_m1 versus MA1487.3 (FOXE1); m=5/19; ncol2=12; w=-1; offset=-1; strand=D; shift=0; score=0.520716; 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 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 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 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 0

MA0847.4_shift0 (FOXD2)
; oligos_7nt_mkv2_m1 versus MA0847.4 (FOXD2); m=6/19; ncol2=11; w=-1; offset=-1; strand=D; shift=0; score=0.48117; yTAAryAAACA----- ; cor=; Ncor= a 219.0 480.0 2484.0 2484.0 2484.0 84.0 2484.0 2484.0 2484.0 0.0 2484.0 0 0 0 0 0 c 906.0 19.0 16.0 285.0 23.0 1342.0 81.0 23.0 0.0 2484.0 24.0 0 0 0 0 0 g 131.0 0.0 137.0 292.0 1615.0 3.0 0.0 18.0 5.0 0.0 34.0 0 0 0 0 0 t 1578.0 2004.0 0.0 262.0 4.0 1141.0 79.0 1.0 2.0 768.0 232.0 0 0 0 0 0

MA0679.3_shift2 (ONECUT1)
; oligos_7nt_mkv2_m1 versus MA0679.3 (ONECUT1); m=7/19; ncol2=9; w=0; offset=1; strand=D; shift=2; score=0.478267; --aAATCAATA----- ; cor=; Ncor= a 0 0 37926.0 52146.0 60015.0 482.0 1345.0 59595.0 60870.0 225.0 48524.0 0 0 0 0 0 c 0 0 7555.0 1011.0 358.0 294.0 60181.0 438.0 247.0 356.0 3451.0 0 0 0 0 0 g 0 0 6149.0 7794.0 1166.0 241.0 278.0 1226.0 366.0 162.0 6072.0 0 0 0 0 0 t 0 0 10589.0 1268.0 680.0 61202.0 415.0 960.0 736.0 61476.0 4172.0 0 0 0 0 0

MA0901.3_shift5 (HOXB13)
; oligos_7nt_mkv2_m1 versus MA0901.3 (HOXB13); m=8/19; ncol2=9; w=0; offset=4; strand=D; shift=5; score=0.471199; -----cCAATAAAA-- ; cor=; Ncor= a 0 0 0 0 0 11896.0 4212.0 66409.0 73044.0 421.0 73612.0 75997.0 76077.0 70230.0 0 0 c 0 0 0 0 0 47674.0 65312.0 4611.0 726.0 550.0 523.0 599.0 760.0 2465.0 0 0 g 0 0 0 0 0 9096.0 582.0 351.0 1913.0 586.0 1083.0 490.0 625.0 1882.0 0 0 t 0 0 0 0 0 10048.0 8608.0 7343.0 3031.0 77157.0 3496.0 1628.0 1252.0 4137.0 0 0

MA0851.2_shift4 (Foxj3)
; oligos_7nt_mkv2_m1 versus MA0851.2 (Foxj3); m=9/19; ncol2=9; w=0; offset=3; strand=D; shift=4; score=0.468042; ----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 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 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 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 0

MA1113.3_shift3 (PBX2)
; oligos_7nt_mkv2_m1 versus MA1113.3 (PBX2); m=10/19; ncol2=9; w=0; offset=2; strand=D; shift=3; score=0.460705; ---cATAAATCA---- ; cor=; Ncor= a 0 0 0 4925.0 26620.0 225.0 24368.0 27245.0 27259.0 704.0 2298.0 25945.0 0 0 0 0 c 0 0 0 19645.0 629.0 588.0 2266.0 574.0 754.0 453.0 23894.0 848.0 0 0 0 0 g 0 0 0 1585.0 1710.0 317.0 817.0 343.0 569.0 327.0 555.0 352.0 0 0 0 0 t 0 0 0 3441.0 637.0 28466.0 2145.0 1434.0 1014.0 28112.0 2849.0 2451.0 0 0 0 0

MA1640.2_rc_shift3 (MEIS2_rc)
; oligos_7nt_mkv2_m1 versus MA1640.2_rc (MEIS2_rc); m=11/19; ncol2=9; w=0; offset=2; strand=R; shift=3; score=0.448712; ---cATAAATCA---- ; cor=; Ncor= a 0 0 0 3599.0 18144.0 157.0 16167.0 18982.0 18830.0 381.0 1067.0 14420.0 0 0 0 0 c 0 0 0 12862.0 502.0 495.0 1801.0 278.0 499.0 224.0 17326.0 1400.0 0 0 0 0 g 0 0 0 1089.0 1053.0 177.0 582.0 201.0 268.0 207.0 302.0 468.0 0 0 0 0 t 0 0 0 2623.0 474.0 19344.0 1623.0 712.0 576.0 19361.0 1478.0 3885.0 0 0 0 0

MA0899.2_shift5 (HOXA10)
; oligos_7nt_mkv2_m1 versus MA0899.2 (HOXA10); m=12/19; ncol2=9; w=0; offset=4; strand=D; shift=5; score=0.442111; -----gymATWAAa-- ; cor=; Ncor= a 0 0 0 0 0 2425.0 153.0 8381.0 8381.0 367.0 5960.0 8381.0 8381.0 8381.0 0 0 c 0 0 0 0 0 1757.0 3867.0 4516.0 455.0 11.0 84.0 36.0 568.0 2082.0 0 0 g 0 0 0 0 0 8381.0 59.0 1022.0 718.0 0.0 121.0 76.0 125.0 1560.0 0 0 t 0 0 0 0 0 1341.0 4515.0 957.0 267.0 8381.0 2422.0 384.0 331.0 2058.0 0 0

MA0650.4_shift1 (Hoxa13)
; oligos_7nt_mkv2_m1 versus MA0650.4 (Hoxa13); m=13/19; ncol2=8; w=0; offset=0; strand=D; shift=1; score=0.440228; -CCAATAAA------- ; cor=; Ncor= a 0 1442.0 1273.0 14069.0 15410.0 105.0 15804.0 16813.0 16550.0 0 0 0 0 0 0 0 c 0 12600.0 14100.0 1594.0 243.0 249.0 205.0 125.0 306.0 0 0 0 0 0 0 0 g 0 1889.0 77.0 146.0 666.0 232.0 407.0 98.0 145.0 0 0 0 0 0 0 0 t 0 1317.0 1798.0 1439.0 929.0 16662.0 832.0 212.0 247.0 0 0 0 0 0 0 0

MA0465.3_shift1 (CDX2)
; oligos_7nt_mkv2_m1 versus MA0465.3 (CDX2); m=14/19; ncol2=8; w=0; offset=0; strand=D; shift=1; score=0.437374; -GCAATAAA------- ; cor=; Ncor= a 0 3157.0 1226.0 26720.0 29957.0 274.0 29221.0 30645.0 30125.0 0 0 0 0 0 0 0 c 0 2096.0 26587.0 3312.0 414.0 391.0 761.0 349.0 595.0 0 0 0 0 0 0 0 g 0 24214.0 607.0 184.0 1196.0 386.0 999.0 366.0 502.0 0 0 0 0 0 0 0 t 0 2559.0 3606.0 1810.0 459.0 30975.0 1045.0 666.0 804.0 0 0 0 0 0 0 0

MA0913.3_shift5 (HOXD9)
; oligos_7nt_mkv2_m1 versus MA0913.3 (HOXD9); m=15/19; ncol2=9; w=0; offset=4; strand=D; shift=5; score=0.431185; -----GymATAAAA-- ; cor=; Ncor= a 0 0 0 0 0 1300.0 0.0 16363.0 16363.0 215.0 16363.0 16363.0 16363.0 16363.0 0 0 c 0 0 0 0 0 872.0 9773.0 8643.0 226.0 0.0 8.0 0.0 0.0 2202.0 0 0 g 0 0 0 0 0 16363.0 42.0 675.0 439.0 0.0 0.0 0.0 0.0 1216.0 0 0 t 0 0 0 0 0 655.0 6590.0 927.0 4.0 16363.0 5445.0 123.0 0.0 2194.0 0 0

MA2124.1_rc_shift8 (Hmga1_rc)
; oligos_7nt_mkv2_m1 versus MA2124.1_rc (Hmga1_rc); m=16/19; ncol2=8; w=0; offset=7; strand=R; shift=8; score=0.427058; --------wTAAAAAT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 11340.0 542.0 24333.0 24654.0 24779.0 24269.0 24172.0 496.0 c 0 0 0 0 0 0 0 0 2438.0 358.0 294.0 237.0 138.0 303.0 421.0 188.0 g 0 0 0 0 0 0 0 0 2348.0 473.0 409.0 264.0 194.0 200.0 393.0 71.0 t 0 0 0 0 0 0 0 0 9680.0 24433.0 770.0 651.0 695.0 1034.0 820.0 25051.0

MA1125.2_shift6 (ZNF384)
; oligos_7nt_mkv2_m1 versus MA1125.2 (ZNF384); m=17/19; ncol2=8; w=0; offset=5; strand=D; shift=6; score=0.425839; ------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 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 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 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 0

MA1473.2_shift5 (CDX4)
; oligos_7nt_mkv2_m1 versus MA1473.2 (CDX4); m=18/19; ncol2=9; w=0; offset=4; strand=D; shift=5; score=0.425032; -----GymATAAAa-- ; cor=; Ncor= a 0 0 0 0 0 2533.0 0.0 12392.0 23367.0 0.0 23367.0 23367.0 23367.0 23367.0 0 0 c 0 0 0 0 0 1064.0 14682.0 10976.0 0.0 0.0 0.0 0.0 57.0 6493.0 0 0 g 0 0 0 0 0 23367.0 0.0 25.0 0.0 0.0 0.0 0.0 0.0 2168.0 0 0 t 0 0 0 0 0 98.0 8686.0 0.0 0.0 23367.0 0.0 0.0 0.0 4827.0 0 0

MA0040.2_rc_shift7 (Foxq1_rc)
; oligos_7nt_mkv2_m1 versus MA0040.2_rc (Foxq1_rc); m=19/19; ncol2=10; w=0; offset=6; strand=R; shift=7; score=0.413505; -------wATAAACAw ; cor=; Ncor= a 0 0 0 0 0 0 0 9.0 13.0 0.0 18.0 18.0 18.0 0.0 15.0 11.0 c 0 0 0 0 0 0 0 3.0 4.0 1.0 0.0 0.0 0.0 18.0 0.0 0.0 g 0 0 0 0 0 0 0 0.0 1.0 0.0 0.0 0.0 0.0 0.0 0.0 2.0 t 0 0 0 0 0 0 0 6.0 0.0 17.0 0.0 0.0 0.0 0.0 3.0 5.0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m2_shift1 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m2_shift1 (oligos_7nt_mkv2_m2)
; oligos_7nt_mkv2_m2; m=0 (reference); ncol1=14; shift=1; ncol=15; -rwtgAATGAATGra ; Alignment reference a 0 25 28 13 14 62 68 3 4 68 64 1 4 32 25 c 0 11 12 6 9 3 3 3 2 3 2 1 1 11 18 g 0 27 15 15 43 3 4 2 68 4 8 4 70 21 15 t 0 13 21 42 10 8 1 68 2 1 2 70 1 12 18

MA1124.1_rc_shift0 (ZNF24_rc)
; oligos_7nt_mkv2_m2 versus MA1124.1_rc (ZNF24_rc); m=1/2; ncol2=13; w=-1; offset=-1; strand=R; shift=0; score=0.72788; GAATGAATGAATG-- ; cor=; Ncor= a 2685.0 19146.0 19421.0 279.0 789.0 22610.0 22192.0 147.0 723.0 21867.0 19505.0 1493.0 2848.0 0 0 c 856.0 1045.0 811.0 589.0 93.0 182.0 128.0 501.0 118.0 461.0 739.0 1967.0 1345.0 0 0 g 17701.0 2128.0 2062.0 402.0 22068.0 330.0 887.0 219.0 22137.0 544.0 2102.0 1816.0 17056.0 0 0 t 2062.0 985.0 1010.0 22034.0 354.0 182.0 97.0 22437.0 326.0 432.0 958.0 18028.0 2055.0 0 0

MA1530.2_rc_shift7 (NKX6-3_rc)
; oligos_7nt_mkv2_m2 versus MA1530.2_rc (NKX6-3_rc); m=2/2; ncol2=8; w=0; offset=6; strand=R; shift=7; score= 0.4053; -------wTAATGrs ; cor=; Ncor= a 0 0 0 0 0 0 0 3753.0 0.0 6906.0 6906.0 0.0 626.0 6906.0 51.0 c 0 0 0 0 0 0 0 379.0 701.0 0.0 0.0 0.0 533.0 0.0 2723.0 g 0 0 0 0 0 0 0 789.0 0.0 467.0 0.0 0.0 6753.0 4562.0 2731.0 t 0 0 0 0 0 0 0 6906.0 6906.0 0.0 0.0 6906.0 153.0 0.0 1400.0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m2_shift2 ; 25 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv2_m2_shift2 (oligos_6nt_mkv2_m2)
; oligos_6nt_mkv2_m2; m=0 (reference); ncol1=14; shift=2; ncol=16; --wwatAAATAAAawa ; Alignment reference a 0 0 57 58 77 28 111 117 114 4 113 111 100 72 47 61 c 0 0 15 14 10 4 3 2 3 2 2 2 8 8 19 19 g 0 0 17 16 11 17 5 4 4 2 3 7 8 18 21 18 t 0 0 36 37 27 76 6 2 4 117 7 5 9 27 38 27

MA0041.3_shift1 (FOXD3)
; oligos_6nt_mkv2_m2 versus MA0041.3 (FOXD3); m=1/24; ncol2=14; w=-1; offset=-1; strand=D; shift=1; score=0.720302; -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 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 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 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 0

MA1487.3_shift4 (FOXE1)
; oligos_6nt_mkv2_m2 versus MA1487.3 (FOXE1); m=2/24; ncol2=12; w=0; offset=2; strand=D; shift=4; score=0.619221; ----yTAARyAAACAa ; cor=; Ncor= a 0 0 0 0 86.0 581.0 3126.0 2547.0 2255.0 587.0 3126.0 3126.0 3126.0 0.0 3126.0 2026.0 c 0 0 0 0 1646.0 43.0 28.0 113.0 117.0 1062.0 362.0 90.0 0.0 3126.0 32.0 392.0 g 0 0 0 0 57.0 0.0 402.0 116.0 871.0 17.0 0.0 0.0 23.0 0.0 18.0 258.0 t 0 0 0 0 1479.0 2545.0 43.0 579.0 27.0 2064.0 20.0 53.0 9.0 85.0 110.0 450.0

MA0847.4_shift4 (FOXD2)
; oligos_6nt_mkv2_m2 versus MA0847.4 (FOXD2); m=3/24; ncol2=11; w=0; offset=2; strand=D; shift=4; score=0.575534; ----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 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 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 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 0

MA0497.2_shift2 (MEF2C)
; oligos_6nt_mkv2_m2 versus MA0497.2 (MEF2C); m=4/24; ncol2=11; w=0; offset=0; strand=D; shift=2; score=0.568572; --cyAAAAATAGm--- ; cor=; Ncor= a 0 0 382.0 0.0 1616.0 1706.0 2107.0 2131.0 2135.0 56.0 2177.0 389.0 975.0 0 0 0 c 0 0 1412.0 985.0 256.0 32.0 0.0 0.0 0.0 62.0 0.0 120.0 836.0 0 0 0 g 0 0 78.0 0.0 74.0 241.0 87.0 2.0 4.0 0.0 32.0 1671.0 148.0 0 0 0 t 0 0 337.0 1224.0 263.0 230.0 15.0 76.0 70.0 2091.0 0.0 29.0 250.0 0 0 0

MA0052.5_shift2 (MEF2A)
; oligos_6nt_mkv2_m2 versus MA0052.5 (MEF2A); m=5/24; ncol2=10; w=0; offset=0; strand=D; shift=2; score=0.517437; --cTAAAAATAG---- ; cor=; Ncor= a 0 0 1984.0 627.0 12437.0 13132.0 14680.0 14453.0 14956.0 441.0 15582.0 2566.0 0 0 0 0 c 0 0 10919.0 2974.0 1013.0 253.0 141.0 231.0 173.0 349.0 50.0 1060.0 0 0 0 0 g 0 0 1007.0 236.0 1066.0 610.0 506.0 241.0 202.0 215.0 422.0 11104.0 0 0 0 0 t 0 0 2252.0 12325.0 1646.0 2167.0 835.0 1237.0 831.0 15157.0 108.0 1432.0 0 0 0 0

MA0846.2_shift1 (FOXC2)
; oligos_6nt_mkv2_m2 versus MA0846.2 (FOXC2); m=6/24; ncol2=11; w=-1; offset=-1; strand=D; shift=1; score=0.513604; -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 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 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 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 0

MA0032.2_shift1 (FOXC1)
; oligos_6nt_mkv2_m2 versus MA0032.2 (FOXC1); m=7/24; ncol2=11; w=-1; offset=-1; strand=D; shift=1; score=0.508277; -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 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 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 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 0

MA0851.2_shift4 (Foxj3)
; oligos_6nt_mkv2_m2 versus MA0851.2 (Foxj3); m=8/24; ncol2=9; w=0; offset=2; strand=D; shift=4; score=0.496573; ----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 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 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 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 0

MA0901.3_shift5 (HOXB13)
; oligos_6nt_mkv2_m2 versus MA0901.3 (HOXB13); m=9/24; ncol2=9; w=0; offset=3; strand=D; shift=5; score=0.495979; -----cCAATAAAA-- ; cor=; Ncor= a 0 0 0 0 0 11896.0 4212.0 66409.0 73044.0 421.0 73612.0 75997.0 76077.0 70230.0 0 0 c 0 0 0 0 0 47674.0 65312.0 4611.0 726.0 550.0 523.0 599.0 760.0 2465.0 0 0 g 0 0 0 0 0 9096.0 582.0 351.0 1913.0 586.0 1083.0 490.0 625.0 1882.0 0 0 t 0 0 0 0 0 10048.0 8608.0 7343.0 3031.0 77157.0 3496.0 1628.0 1252.0 4137.0 0 0

MA1113.3_shift3 (PBX2)
; oligos_6nt_mkv2_m2 versus MA1113.3 (PBX2); m=10/24; ncol2=9; w=0; offset=1; strand=D; shift=3; score=0.491522; ---cATAAATCA---- ; cor=; Ncor= a 0 0 0 4925.0 26620.0 225.0 24368.0 27245.0 27259.0 704.0 2298.0 25945.0 0 0 0 0 c 0 0 0 19645.0 629.0 588.0 2266.0 574.0 754.0 453.0 23894.0 848.0 0 0 0 0 g 0 0 0 1585.0 1710.0 317.0 817.0 343.0 569.0 327.0 555.0 352.0 0 0 0 0 t 0 0 0 3441.0 637.0 28466.0 2145.0 1434.0 1014.0 28112.0 2849.0 2451.0 0 0 0 0

MA0845.1_shift1 (FOXB1)
; oligos_6nt_mkv2_m2 versus MA0845.1 (FOXB1); m=11/24; ncol2=11; w=-1; offset=-1; strand=D; shift=1; score=0.485245; -wAwGTMAAyAt---- ; cor=; Ncor= a 0 2393.0 5343.0 1983.0 1159.0 180.0 4891.0 6841.0 6841.0 28.0 6841.0 1704.0 0 0 0 0 c 0 272.0 263.0 218.0 54.0 240.0 1950.0 213.0 47.0 2252.0 0.0 573.0 0 0 0 0 g 0 190.0 1498.0 409.0 6841.0 113.0 75.0 0.0 47.0 104.0 157.0 556.0 0 0 0 0 t 0 4448.0 561.0 4858.0 124.0 6841.0 73.0 381.0 216.0 4589.0 147.0 4008.0 0 0 0 0

MA0679.3_shift2 (ONECUT1)
; oligos_6nt_mkv2_m2 versus MA0679.3 (ONECUT1); m=12/24; ncol2=9; w=0; offset=0; strand=D; shift=2; score=0.480778; --aAATCAATA----- ; cor=; Ncor= a 0 0 37926.0 52146.0 60015.0 482.0 1345.0 59595.0 60870.0 225.0 48524.0 0 0 0 0 0 c 0 0 7555.0 1011.0 358.0 294.0 60181.0 438.0 247.0 356.0 3451.0 0 0 0 0 0 g 0 0 6149.0 7794.0 1166.0 241.0 278.0 1226.0 366.0 162.0 6072.0 0 0 0 0 0 t 0 0 10589.0 1268.0 680.0 61202.0 415.0 960.0 736.0 61476.0 4172.0 0 0 0 0 0

MA1640.2_rc_shift3 (MEIS2_rc)
; oligos_6nt_mkv2_m2 versus MA1640.2_rc (MEIS2_rc); m=13/24; ncol2=9; w=0; offset=1; strand=R; shift=3; score= 0.478; ---cATAAATCA---- ; cor=; Ncor= a 0 0 0 3599.0 18144.0 157.0 16167.0 18982.0 18830.0 381.0 1067.0 14420.0 0 0 0 0 c 0 0 0 12862.0 502.0 495.0 1801.0 278.0 499.0 224.0 17326.0 1400.0 0 0 0 0 g 0 0 0 1089.0 1053.0 177.0 582.0 201.0 268.0 207.0 302.0 468.0 0 0 0 0 t 0 0 0 2623.0 474.0 19344.0 1623.0 712.0 576.0 19361.0 1478.0 3885.0 0 0 0 0

MA0899.2_shift5 (HOXA10)
; oligos_6nt_mkv2_m2 versus MA0899.2 (HOXA10); m=14/24; ncol2=9; w=0; offset=3; strand=D; shift=5; score=0.475891; -----gymATWAAa-- ; cor=; Ncor= a 0 0 0 0 0 2425.0 153.0 8381.0 8381.0 367.0 5960.0 8381.0 8381.0 8381.0 0 0 c 0 0 0 0 0 1757.0 3867.0 4516.0 455.0 11.0 84.0 36.0 568.0 2082.0 0 0 g 0 0 0 0 0 8381.0 59.0 1022.0 718.0 0.0 121.0 76.0 125.0 1560.0 0 0 t 0 0 0 0 0 1341.0 4515.0 957.0 267.0 8381.0 2422.0 384.0 331.0 2058.0 0 0

MA0913.3_shift5 (HOXD9)
; oligos_6nt_mkv2_m2 versus MA0913.3 (HOXD9); m=15/24; ncol2=9; w=0; offset=3; strand=D; shift=5; score=0.461083; -----GymATAAAA-- ; cor=; Ncor= a 0 0 0 0 0 1300.0 0.0 16363.0 16363.0 215.0 16363.0 16363.0 16363.0 16363.0 0 0 c 0 0 0 0 0 872.0 9773.0 8643.0 226.0 0.0 8.0 0.0 0.0 2202.0 0 0 g 0 0 0 0 0 16363.0 42.0 675.0 439.0 0.0 0.0 0.0 0.0 1216.0 0 0 t 0 0 0 0 0 655.0 6590.0 927.0 4.0 16363.0 5445.0 123.0 0.0 2194.0 0 0

MA1473.2_shift5 (CDX4)
; oligos_6nt_mkv2_m2 versus MA1473.2 (CDX4); m=16/24; ncol2=9; w=0; offset=3; strand=D; shift=5; score=0.458247; -----GymATAAAa-- ; cor=; Ncor= a 0 0 0 0 0 2533.0 0.0 12392.0 23367.0 0.0 23367.0 23367.0 23367.0 23367.0 0 0 c 0 0 0 0 0 1064.0 14682.0 10976.0 0.0 0.0 0.0 0.0 57.0 6493.0 0 0 g 0 0 0 0 0 23367.0 0.0 25.0 0.0 0.0 0.0 0.0 0.0 2168.0 0 0 t 0 0 0 0 0 98.0 8686.0 0.0 0.0 23367.0 0.0 0.0 0.0 4827.0 0 0

MA0040.2_rc_shift7 (Foxq1_rc)
; oligos_6nt_mkv2_m2 versus MA0040.2_rc (Foxq1_rc); m=17/24; ncol2=10; w=0; offset=5; strand=R; shift=7; score=0.456436; -------wATAAACAw ; cor=; Ncor= a 0 0 0 0 0 0 0 9.0 13.0 0.0 18.0 18.0 18.0 0.0 15.0 11.0 c 0 0 0 0 0 0 0 3.0 4.0 1.0 0.0 0.0 0.0 18.0 0.0 0.0 g 0 0 0 0 0 0 0 0.0 1.0 0.0 0.0 0.0 0.0 0.0 0.0 2.0 t 0 0 0 0 0 0 0 6.0 0.0 17.0 0.0 0.0 0.0 0.0 3.0 5.0

MA2124.1_rc_shift2 (Hmga1_rc)
; oligos_6nt_mkv2_m2 versus MA2124.1_rc (Hmga1_rc); m=18/24; ncol2=8; w=0; offset=0; strand=R; shift=2; score=0.455697; --wTAAAAAT------ ; cor=; Ncor= a 0 0 11340.0 542.0 24333.0 24654.0 24779.0 24269.0 24172.0 496.0 0 0 0 0 0 0 c 0 0 2438.0 358.0 294.0 237.0 138.0 303.0 421.0 188.0 0 0 0 0 0 0 g 0 0 2348.0 473.0 409.0 264.0 194.0 200.0 393.0 71.0 0 0 0 0 0 0 t 0 0 9680.0 24433.0 770.0 651.0 695.0 1034.0 820.0 25051.0 0 0 0 0 0 0

MA1125.2_shift6 (ZNF384)
; oligos_6nt_mkv2_m2 versus MA1125.2 (ZNF384); m=19/24; ncol2=8; w=0; offset=4; strand=D; shift=6; score=0.452088; ------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 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 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 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 0

MA0757.2_shift0 (ONECUT3)
; oligos_6nt_mkv2_m2 versus MA0757.2 (ONECUT3); m=20/24; ncol2=12; w=-2; offset=-2; strand=D; shift=0; score=0.442725; aAAAATCrATAa---- ; cor=; Ncor= a 3851.0 6080.0 6080.0 6080.0 6080.0 32.0 23.0 3950.0 6080.0 43.0 6080.0 3620.0 0 0 0 0 c 379.0 274.0 173.0 28.0 5.0 103.0 6080.0 20.0 6.0 6.0 105.0 861.0 0 0 0 0 g 1141.0 498.0 112.0 102.0 41.0 14.0 3.0 2130.0 9.0 7.0 187.0 417.0 0 0 0 0 t 709.0 878.0 1221.0 54.0 11.0 6080.0 5.0 11.0 22.0 6080.0 345.0 1182.0 0 0 0 0

MA0465.3_shift5 (CDX2)
; oligos_6nt_mkv2_m2 versus MA0465.3 (CDX2); m=21/24; ncol2=8; w=0; offset=3; strand=D; shift=5; score=0.430475; -----GCAATAAA--- ; cor=; Ncor= a 0 0 0 0 0 3157.0 1226.0 26720.0 29957.0 274.0 29221.0 30645.0 30125.0 0 0 0 c 0 0 0 0 0 2096.0 26587.0 3312.0 414.0 391.0 761.0 349.0 595.0 0 0 0 g 0 0 0 0 0 24214.0 607.0 184.0 1196.0 386.0 999.0 366.0 502.0 0 0 0 t 0 0 0 0 0 2559.0 3606.0 1810.0 459.0 30975.0 1045.0 666.0 804.0 0 0 0

MA0650.4_shift5 (Hoxa13)
; oligos_6nt_mkv2_m2 versus MA0650.4 (Hoxa13); m=22/24; ncol2=8; w=0; offset=3; strand=D; shift=5; score=0.425786; -----CCAATAAA--- ; cor=; Ncor= a 0 0 0 0 0 1442.0 1273.0 14069.0 15410.0 105.0 15804.0 16813.0 16550.0 0 0 0 c 0 0 0 0 0 12600.0 14100.0 1594.0 243.0 249.0 205.0 125.0 306.0 0 0 0 g 0 0 0 0 0 1889.0 77.0 146.0 666.0 232.0 407.0 98.0 145.0 0 0 0 t 0 0 0 0 0 1317.0 1798.0 1439.0 929.0 16662.0 832.0 212.0 247.0 0 0 0

MA0703.3_rc_shift4 (LMX1B_rc)
; oligos_6nt_mkv2_m2 versus MA0703.3_rc (LMX1B_rc); m=23/24; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.421881; ----tTAATTAA---- ; cor=; Ncor= a 0 0 0 0 609.0 0.0 4064.0 4064.0 0.0 0.0 4064.0 3465.0 0 0 0 0 c 0 0 0 0 350.0 0.0 0.0 0.0 0.0 0.0 0.0 190.0 0 0 0 0 g 0 0 0 0 785.0 12.0 0.0 0.0 0.0 0.0 0.0 599.0 0 0 0 0 t 0 0 0 0 2319.0 4064.0 0.0 0.0 4064.0 4064.0 0.0 0.0 0 0 0 0

MA0614.1_shift4 (Foxj2)
; oligos_6nt_mkv2_m2 versus MA0614.1 (Foxj2); m=24/24; ncol2=8; w=0; offset=2; strand=D; shift=4; score=0.41215; ----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 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 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 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 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m5_shift2 ; 16 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m5_shift2 (oligos_7nt_mkv2_m5)
; oligos_7nt_mkv2_m5; m=0 (reference); ncol1=14; shift=2; ncol=16; --wwaaAAATAAAAaa ; Alignment reference a 0 0 73 78 93 115 161 162 161 22 152 153 158 117 78 81 c 0 0 29 26 19 9 2 3 2 15 7 7 4 9 27 33 g 0 0 19 22 24 18 2 4 2 5 6 9 4 21 32 23 t 0 0 50 45 35 29 6 2 6 129 6 2 5 24 34 34

MA0041.3_shift1 (FOXD3)
; oligos_7nt_mkv2_m5 versus MA0041.3 (FOXD3); m=1/15; ncol2=14; w=-1; offset=-1; strand=D; shift=1; score=0.699775; -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 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 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 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 0

MA0497.2_shift2 (MEF2C)
; oligos_7nt_mkv2_m5 versus MA0497.2 (MEF2C); m=2/15; ncol2=11; w=0; offset=0; strand=D; shift=2; score=0.602246; --cyAAAAATAGm--- ; cor=; Ncor= a 0 0 382.0 0.0 1616.0 1706.0 2107.0 2131.0 2135.0 56.0 2177.0 389.0 975.0 0 0 0 c 0 0 1412.0 985.0 256.0 32.0 0.0 0.0 0.0 62.0 0.0 120.0 836.0 0 0 0 g 0 0 78.0 0.0 74.0 241.0 87.0 2.0 4.0 0.0 32.0 1671.0 148.0 0 0 0 t 0 0 337.0 1224.0 263.0 230.0 15.0 76.0 70.0 2091.0 0.0 29.0 250.0 0 0 0

MA0052.5_shift2 (MEF2A)
; oligos_7nt_mkv2_m5 versus MA0052.5 (MEF2A); m=3/15; ncol2=10; w=0; offset=0; strand=D; shift=2; score=0.556764; --cTAAAAATAG---- ; cor=; Ncor= a 0 0 1984.0 627.0 12437.0 13132.0 14680.0 14453.0 14956.0 441.0 15582.0 2566.0 0 0 0 0 c 0 0 10919.0 2974.0 1013.0 253.0 141.0 231.0 173.0 349.0 50.0 1060.0 0 0 0 0 g 0 0 1007.0 236.0 1066.0 610.0 506.0 241.0 202.0 215.0 422.0 11104.0 0 0 0 0 t 0 0 2252.0 12325.0 1646.0 2167.0 835.0 1237.0 831.0 15157.0 108.0 1432.0 0 0 0 0

MA0847.4_shift4 (FOXD2)
; oligos_7nt_mkv2_m5 versus MA0847.4 (FOXD2); m=4/15; ncol2=11; w=0; offset=2; strand=D; shift=4; score=0.550363; ----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 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 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 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 0

MA2124.1_rc_shift2 (Hmga1_rc)
; oligos_7nt_mkv2_m5 versus MA2124.1_rc (Hmga1_rc); m=5/15; ncol2=8; w=0; offset=0; strand=R; shift=2; score=0.504447; --wTAAAAAT------ ; cor=; Ncor= a 0 0 11340.0 542.0 24333.0 24654.0 24779.0 24269.0 24172.0 496.0 0 0 0 0 0 0 c 0 0 2438.0 358.0 294.0 237.0 138.0 303.0 421.0 188.0 0 0 0 0 0 0 g 0 0 2348.0 473.0 409.0 264.0 194.0 200.0 393.0 71.0 0 0 0 0 0 0 t 0 0 9680.0 24433.0 770.0 651.0 695.0 1034.0 820.0 25051.0 0 0 0 0 0 0

MA0901.3_shift5 (HOXB13)
; oligos_7nt_mkv2_m5 versus MA0901.3 (HOXB13); m=6/15; ncol2=9; w=0; offset=3; strand=D; shift=5; score=0.492902; -----cCAATAAAA-- ; cor=; Ncor= a 0 0 0 0 0 11896.0 4212.0 66409.0 73044.0 421.0 73612.0 75997.0 76077.0 70230.0 0 0 c 0 0 0 0 0 47674.0 65312.0 4611.0 726.0 550.0 523.0 599.0 760.0 2465.0 0 0 g 0 0 0 0 0 9096.0 582.0 351.0 1913.0 586.0 1083.0 490.0 625.0 1882.0 0 0 t 0 0 0 0 0 10048.0 8608.0 7343.0 3031.0 77157.0 3496.0 1628.0 1252.0 4137.0 0 0

MA1125.2_shift7 (ZNF384)
; oligos_7nt_mkv2_m5 versus MA1125.2 (ZNF384); m=7/15; ncol2=8; w=0; offset=5; strand=D; shift=7; score=0.483047; -------AAAAAAaa- ; cor=; Ncor= a 0 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 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 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 0 59.0 188.0 314.0 153.0 191.0 21.0 4436.0 4656.0 0

MA0846.2_shift1 (FOXC2)
; oligos_7nt_mkv2_m5 versus MA0846.2 (FOXC2); m=8/15; ncol2=11; w=-1; offset=-1; strand=D; shift=1; score=0.480167; -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 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 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 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 0

MA0899.2_shift5 (HOXA10)
; oligos_7nt_mkv2_m5 versus MA0899.2 (HOXA10); m=9/15; ncol2=9; w=0; offset=3; strand=D; shift=5; score=0.465526; -----gymATWAAa-- ; cor=; Ncor= a 0 0 0 0 0 2425.0 153.0 8381.0 8381.0 367.0 5960.0 8381.0 8381.0 8381.0 0 0 c 0 0 0 0 0 1757.0 3867.0 4516.0 455.0 11.0 84.0 36.0 568.0 2082.0 0 0 g 0 0 0 0 0 8381.0 59.0 1022.0 718.0 0.0 121.0 76.0 125.0 1560.0 0 0 t 0 0 0 0 0 1341.0 4515.0 957.0 267.0 8381.0 2422.0 384.0 331.0 2058.0 0 0

MA0851.2_shift4 (Foxj3)
; oligos_7nt_mkv2_m5 versus MA0851.2 (Foxj3); m=10/15; ncol2=9; w=0; offset=2; strand=D; shift=4; score=0.457648; ----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 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 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 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 0

MA1487.3_shift0 (FOXE1)
; oligos_7nt_mkv2_m5 versus MA1487.3 (FOXE1); m=11/15; ncol2=12; w=-2; offset=-2; strand=D; shift=0; score=0.454288; 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 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 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 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 0

MA0913.3_shift5 (HOXD9)
; oligos_7nt_mkv2_m5 versus MA0913.3 (HOXD9); m=12/15; ncol2=9; w=0; offset=3; strand=D; shift=5; score=0.451724; -----GymATAAAA-- ; cor=; Ncor= a 0 0 0 0 0 1300.0 0.0 16363.0 16363.0 215.0 16363.0 16363.0 16363.0 16363.0 0 0 c 0 0 0 0 0 872.0 9773.0 8643.0 226.0 0.0 8.0 0.0 0.0 2202.0 0 0 g 0 0 0 0 0 16363.0 42.0 675.0 439.0 0.0 0.0 0.0 0.0 1216.0 0 0 t 0 0 0 0 0 655.0 6590.0 927.0 4.0 16363.0 5445.0 123.0 0.0 2194.0 0 0

MA0040.2_rc_shift7 (Foxq1_rc)
; oligos_7nt_mkv2_m5 versus MA0040.2_rc (Foxq1_rc); m=13/15; ncol2=10; w=0; offset=5; strand=R; shift=7; score=0.449716; -------wATAAACAw ; cor=; Ncor= a 0 0 0 0 0 0 0 9.0 13.0 0.0 18.0 18.0 18.0 0.0 15.0 11.0 c 0 0 0 0 0 0 0 3.0 4.0 1.0 0.0 0.0 0.0 18.0 0.0 0.0 g 0 0 0 0 0 0 0 0.0 1.0 0.0 0.0 0.0 0.0 0.0 0.0 2.0 t 0 0 0 0 0 0 0 6.0 0.0 17.0 0.0 0.0 0.0 0.0 3.0 5.0

MA0465.3_shift5 (CDX2)
; oligos_7nt_mkv2_m5 versus MA0465.3 (CDX2); m=14/15; ncol2=8; w=0; offset=3; strand=D; shift=5; score=0.416771; -----GCAATAAA--- ; cor=; Ncor= a 0 0 0 0 0 3157.0 1226.0 26720.0 29957.0 274.0 29221.0 30645.0 30125.0 0 0 0 c 0 0 0 0 0 2096.0 26587.0 3312.0 414.0 391.0 761.0 349.0 595.0 0 0 0 g 0 0 0 0 0 24214.0 607.0 184.0 1196.0 386.0 999.0 366.0 502.0 0 0 0 t 0 0 0 0 0 2559.0 3606.0 1810.0 459.0 30975.0 1045.0 666.0 804.0 0 0 0

MA0650.4_shift5 (Hoxa13)
; oligos_7nt_mkv2_m5 versus MA0650.4 (Hoxa13); m=15/15; ncol2=8; w=0; offset=3; strand=D; shift=5; score=0.416384; -----CCAATAAA--- ; cor=; Ncor= a 0 0 0 0 0 1442.0 1273.0 14069.0 15410.0 105.0 15804.0 16813.0 16550.0 0 0 0 c 0 0 0 0 0 12600.0 14100.0 1594.0 243.0 249.0 205.0 125.0 306.0 0 0 0 g 0 0 0 0 0 1889.0 77.0 146.0 666.0 232.0 407.0 98.0 145.0 0 0 0 t 0 0 0 0 0 1317.0 1798.0 1439.0 929.0 16662.0 832.0 212.0 247.0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m4_shift4 ; 16 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m4_shift4 (oligos_7nt_mkv2_m4)
; oligos_7nt_mkv2_m4; m=0 (reference); ncol1=12; shift=4; ncol=16; ----syGCCTCCCCmv ; Alignment reference a 0 0 0 0 21 28 4 6 7 7 0 5 3 20 38 38 c 0 0 0 0 61 38 10 124 124 2 132 124 124 100 51 40 g 0 0 0 0 35 34 112 4 5 7 2 6 7 10 25 35 t 0 0 0 0 21 38 12 4 2 122 4 3 4 8 24 25

MA1961.2_rc_shift4 (PATZ1_rc)
; oligos_7nt_mkv2_m4 versus MA1961.2_rc (PATZ1_rc); m=1/15; ncol2=11; w=0; offset=0; strand=R; shift=4; score=0.65429; ----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 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 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 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 0

MA1653.2_shift5 (ZNF148)
; oligos_7nt_mkv2_m4 versus MA1653.2 (ZNF148); m=2/15; ncol2=10; w=0; offset=1; strand=D; shift=5; score=0.650817; -----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 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 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 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 0

MA1596.1_shift0 (ZNF460)
; oligos_7nt_mkv2_m4 versus MA1596.1 (ZNF460); m=3/15; ncol2=16; w=-4; offset=-4; strand=D; shift=0; score=0.634781; rCCTCmGCCTCCCrrG ; 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 12.0 516.0 987.0 243.0 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 1533.0 110.0 175.0 158.0 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 1147.0 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 64.0

MA1630.3_rc_shift5 (ZNF281_rc)
; oligos_7nt_mkv2_m4 versus MA1630.3_rc (ZNF281_rc); m=4/15; ncol2=10; w=0; offset=1; strand=R; shift=5; score=0.631174; -----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 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 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 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 0

MA1627.2_shift7 (Wt1)
; oligos_7nt_mkv2_m4 versus MA1627.2 (Wt1); m=5/15; ncol2=10; w=0; offset=3; strand=D; shift=7; score=0.623547; -------cCTCCCCCA ; 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 3294.0 c 0 0 0 0 0 0 0 2948.0 4546.0 69.0 4602.0 4354.0 4252.0 3636.0 4573.0 53.0 g 0 0 0 0 0 0 0 404.0 58.0 319.0 42.0 75.0 120.0 101.0 46.0 990.0 t 0 0 0 0 0 0 0 500.0 39.0 4183.0 26.0 222.0 276.0 104.0 41.0 354.0

MA0079.5_rc_shift5 (SP1_rc)
; oligos_7nt_mkv2_m4 versus MA0079.5_rc (SP1_rc); m=6/15; ncol2=9; w=0; offset=1; strand=R; shift=5; score=0.568774; -----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 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 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 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 0

MA2099.1_shift4 (ZNF770)
; oligos_7nt_mkv2_m4 versus MA2099.1 (ZNF770); m=7/15; ncol2=8; w=0; offset=0; strand=D; shift=4; score= 0.5561; ----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 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 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 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 0

MA0685.2_rc_shift5 (SP4_rc)
; oligos_7nt_mkv2_m4 versus MA0685.2_rc (SP4_rc); m=8/15; ncol2=9; w=0; offset=1; strand=R; shift=5; score=0.542222; -----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 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 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 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 0

MA0753.3_shift7 (ZNF740)
; oligos_7nt_mkv2_m4 versus MA0753.3 (ZNF740); m=9/15; ncol2=10; w=0; offset=3; strand=D; shift=7; score=0.519494; -------CCCCCCCCA ; cor=; Ncor= a 0 0 0 0 0 0 0 60.0 110.0 18.0 22.0 23.0 10.0 2.0 115.0 1055.0 c 0 0 0 0 0 0 0 1055.0 1055.0 1055.0 1055.0 1055.0 1055.0 1055.0 1055.0 239.0 g 0 0 0 0 0 0 0 37.0 14.0 4.0 7.0 3.0 7.0 3.0 6.0 68.0 t 0 0 0 0 0 0 0 49.0 1.0 16.0 15.0 11.0 6.0 3.0 4.0 134.0

MA1522.2_shift5 (MAZ)
; oligos_7nt_mkv2_m4 versus MA1522.2 (MAZ); m=10/15; ncol2=8; w=0; offset=1; strand=D; shift=5; score=0.505497; -----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 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 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 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 0

MA1965.2_shift7 (SP5)
; oligos_7nt_mkv2_m4 versus MA1965.2 (SP5); m=11/15; ncol2=6; w=0; offset=3; strand=D; shift=7; score=0.499549; -------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 0 c 0 0 0 0 0 0 0 20683.0 20286.0 0.0 20649.0 20451.0 20604.0 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 0 t 0 0 0 0 0 0 0 4.0 0.0 20465.0 0.0 0.0 0.0 0 0 0

MA0528.3_rc_shift6 (ZNF263_rc)
; oligos_7nt_mkv2_m4 versus MA0528.3_rc (ZNF263_rc); m=12/15; ncol2=7; w=0; offset=2; strand=R; shift=6; score=0.490099; ------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 0 c 0 0 0 0 0 0 1448.0 52741.0 52875.0 163.0 53435.0 52818.0 51804.0 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 0 t 0 0 0 0 0 0 52499.0 695.0 830.0 53900.0 950.0 789.0 1610.0 0 0 0

MA1723.2_rc_shift1 (PRDM9_rc)
; oligos_7nt_mkv2_m4 versus MA1723.2_rc (PRDM9_rc); m=13/15; ncol2=20; w=-3; offset=-3; strand=R; shift=1; score=0.447116; -yTkyykCCyCCcTkc ; 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 11.0 107.0 213.0 c 0 572.0 169.0 107.0 441.0 274.0 204.0 976.0 993.0 344.0 932.0 853.0 529.0 204.0 213.0 485.0 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 11.0 379.0 169.0 t 0 318.0 783.0 265.0 371.0 397.0 353.0 20.0 2.0 450.0 29.0 125.0 160.0 774.0 300.0 134.0

MA1578.2_shift10 (VEZF1)
; oligos_7nt_mkv2_m4 versus MA1578.2 (VEZF1); m=14/15; ncol2=6; w=0; offset=6; strand=D; shift=10; score=0.413222; ----------CCCCCC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 71.0 1.0 4.0 2.0 6.0 10.0 c 0 0 0 0 0 0 0 0 0 0 790.0 997.0 995.0 997.0 989.0 977.0 g 0 0 0 0 0 0 0 0 0 0 137.0 0.0 0.0 0.0 0.0 3.0 t 0 0 0 0 0 0 0 0 0 0 0.0 0.0 0.0 0.0 4.0 8.0

MA1710.2_rc_shift1 (ZNF257_rc)
; oligos_7nt_mkv2_m4 versus MA1710.2_rc (ZNF257_rc); m=15/15; ncol2=10; w=-3; offset=-3; strand=R; shift=1; score=0.407295; -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 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 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 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 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m5_shift1 ; 8 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv2_m5_shift1 (oligos_6nt_mkv2_m5)
; oligos_6nt_mkv2_m5; m=0 (reference); ncol1=13; shift=1; ncol=14; -ssAGGCTGGGcmg ; Alignment reference a 0 15 17 76 1 1 2 3 3 1 2 10 25 23 c 0 33 40 7 7 10 84 3 1 4 6 56 25 22 g 0 31 25 6 84 79 4 5 87 83 78 16 21 26 t 0 14 11 4 1 3 3 82 2 5 7 11 22 22

MA2121.1_rc_shift0 (ZNF213_rc)
; oligos_6nt_mkv2_m5 versus MA2121.1_rc (ZNF213_rc); m=1/7; ncol2=12; w=-1; offset=-1; strand=R; shift=0; score=0.625268; ysCwGCCTGGGc-- ; cor=; Ncor= a 55.0 47.0 50.0 237.0 7.0 11.0 3.0 22.0 8.0 32.0 28.0 76.0 0 0 c 330.0 260.0 519.0 124.0 22.0 639.0 661.0 54.0 34.0 34.0 52.0 403.0 0 0 g 86.0 319.0 76.0 97.0 642.0 25.0 13.0 34.0 630.0 603.0 581.0 89.0 0 0 t 216.0 61.0 42.0 229.0 16.0 12.0 10.0 577.0 15.0 18.0 26.0 119.0 0 0

MA2341.1_rc_shift3 (FEZF2_rc)
; oligos_6nt_mkv2_m5 versus MA2341.1_rc (FEZF2_rc); m=2/7; ncol2=8; w=0; offset=2; strand=R; shift=3; score=0.609709; ---AGGCTGGG--- ; cor=; Ncor= a 0 0 0 233.0 9.0 5.0 0.0 5.0 3.0 45.0 36.0 0 0 0 c 0 0 0 8.0 2.0 28.0 251.0 14.0 0.0 9.0 10.0 0 0 0 g 0 0 0 10.0 247.0 224.0 8.0 15.0 258.0 206.0 202.0 0 0 0 t 0 0 0 14.0 7.0 8.0 6.0 231.0 4.0 5.0 17.0 0 0 0

MA1656.2_rc_shift4 (ZNF449_rc)
; oligos_6nt_mkv2_m5 versus MA1656.2_rc (ZNF449_rc); m=3/7; ncol2=10; w=0; offset=3; strand=R; shift=4; score=0.587647; ----gGTTGGGCTt ; cor=; Ncor= a 0 0 0 0 1015.0 65.0 115.0 327.0 59.0 28.0 111.0 92.0 615.0 303.0 c 0 0 0 0 473.0 167.0 829.0 182.0 54.0 28.0 322.0 7368.0 224.0 1463.0 g 0 0 0 0 5029.0 7244.0 96.0 300.0 7479.0 7540.0 7088.0 92.0 582.0 1759.0 t 0 0 0 0 1143.0 184.0 6620.0 6851.0 68.0 64.0 139.0 108.0 6239.0 4135.0

MA2125.1_rc_shift4 (Zfp809_rc)
; oligos_6nt_mkv2_m5 versus MA2125.1_rc (Zfp809_rc); m=4/7; ncol2=9; w=0; offset=3; strand=R; shift=4; score=0.579835; ----gGCTGGGAw- ; cor=; Ncor= a 0 0 0 0 242.0 61.0 26.0 37.0 18.0 21.0 25.0 1578.0 690.0 0 c 0 0 0 0 115.0 99.0 1572.0 73.0 16.0 14.0 18.0 23.0 81.0 0 g 0 0 0 0 1091.0 1218.0 35.0 26.0 1621.0 1610.0 1607.0 41.0 66.0 0 t 0 0 0 0 217.0 287.0 32.0 1529.0 10.0 20.0 15.0 23.0 828.0 0

MA1986.2_rc_shift6 (ZNF692_rc)
; oligos_6nt_mkv2_m5 versus MA1986.2_rc (ZNF692_rc); m=5/7; ncol2=8; w=0; offset=5; strand=R; shift=6; score=0.491428; ------sTGGGCCc ; cor=; Ncor= a 0 0 0 0 0 0 1192.0 0.0 21.0 17.0 22.0 26.0 13.0 1195.0 c 0 0 0 0 0 0 3703.0 210.0 176.0 241.0 7.0 10684.0 10642.0 6833.0 g 0 0 0 0 0 0 4998.0 0.0 10545.0 10446.0 10689.0 4.0 90.0 1314.0 t 0 0 0 0 0 0 852.0 10535.0 3.0 41.0 27.0 31.0 0.0 1403.0

MA2099.1_rc_shift1 (ZNF770_rc)
; oligos_6nt_mkv2_m5 versus MA2099.1_rc (ZNF770_rc); m=6/7; ncol2=8; w=0; offset=0; strand=R; shift=1; score=0.469977; -kGAGGCyG----- ; cor=; Ncor= a 0 724.0 56.0 13889.0 65.0 156.0 126.0 387.0 1052.0 0 0 0 0 0 c 0 485.0 86.0 215.0 133.0 681.0 13947.0 9119.0 374.0 0 0 0 0 0 g 0 3865.0 14154.0 140.0 14096.0 13393.0 79.0 857.0 12613.0 0 0 0 0 0 t 0 9257.0 35.0 87.0 37.0 101.0 179.0 3968.0 292.0 0 0 0 0 0

MA0039.5_rc_shift4 (KLF4_rc)
; oligos_6nt_mkv2_m5 versus MA0039.5_rc (KLF4_rc); m=7/7; ncol2=8; w=0; offset=3; strand=R; shift=4; score=0.433671; ----GGGTGGGG-- ; cor=; Ncor= a 0 0 0 0 2565.0 1218.0 1129.0 3456.0 976.0 1969.0 4633.0 2560.0 0 0 c 0 0 0 0 1005.0 1870.0 1470.0 6598.0 793.0 1422.0 1214.0 1583.0 0 0 g 0 0 0 0 51045.0 51112.0 52366.0 161.0 52875.0 45405.0 47865.0 49209.0 0 0 t 0 0 0 0 1202.0 1617.0 852.0 45602.0 1173.0 7021.0 2105.0 2465.0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m4_shift1 ; 8 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv2_m4_shift1 (oligos_6nt_mkv2_m4)
; oligos_6nt_mkv2_m4; m=0 (reference); ncol1=12; shift=1; ncol=13; -sscCGCCGCGss ; Alignment reference a 0 17 9 16 4 11 4 5 6 4 5 17 11 c 0 49 37 60 97 8 97 88 3 101 14 37 49 g 0 34 56 20 9 91 8 16 100 6 87 46 40 t 0 14 12 18 4 4 5 5 5 3 8 14 14

MA1713.2_shift3 (ZNF610)
; oligos_6nt_mkv2_m4 versus MA1713.2 (ZNF610); m=1/7; ncol2=10; w=0; offset=2; strand=D; shift=3; score=0.616738; ---scGCCGCTCC ; cor=; Ncor= a 0 0 0 176.0 354.0 68.0 37.0 18.0 18.0 4.0 18.0 6.0 123.0 c 0 0 0 1222.0 1347.0 121.0 2245.0 2312.0 45.0 2357.0 34.0 2315.0 1976.0 g 0 0 0 738.0 392.0 2118.0 84.0 41.0 2312.0 21.0 45.0 62.0 186.0 t 0 0 0 250.0 293.0 79.0 20.0 15.0 11.0 4.0 2289.0 3.0 101.0

MA2328.1_shift2 (ZBED4)
; oligos_6nt_mkv2_m4 versus MA2328.1 (ZBED4); m=2/7; ncol2=10; w=0; offset=1; strand=D; shift=2; score=0.588425; --CcCGCyCCGC- ; cor=; Ncor= a 0 0 41.0 26.0 29.0 17.0 6.0 11.0 14.0 12.0 22.0 19.0 0 c 0 0 479.0 419.0 549.0 14.0 621.0 391.0 598.0 604.0 19.0 589.0 0 g 0 0 80.0 65.0 62.0 608.0 26.0 28.0 34.0 23.0 580.0 35.0 0 t 0 0 60.0 150.0 20.0 21.0 7.0 230.0 14.0 21.0 39.0 17.0 0

MA0516.3_rc_shift1 (SP2_rc)
; oligos_6nt_mkv2_m4 versus MA0516.3_rc (SP2_rc); m=3/7; ncol2=9; w=0; offset=0; strand=R; shift=1; score=0.532693; -cCCCGCCCC--- ; cor=; Ncor= a 0 18.3284 0.733138 24.1935 0.733138 0.733138 0.733138 0.733138 0.733138 79.912 0 0 0 c 0 610.704 877.566 974.34 997.801 0.733138 997.801 997.801 830.645 766.129 0 0 0 g 0 164.956 0.733138 0.733138 0.733138 886.364 0.733138 0.733138 0.733138 0.733138 0 0 0 t 0 206.012 120.968 0.733138 0.733138 112.17 0.733138 0.733138 167.889 153.226 0 0 0

MA1721.2_rc_shift3 (ZNF93_rc)
; oligos_6nt_mkv2_m4 versus MA1721.2_rc (ZNF93_rc); m=4/7; ncol2=14; w=0; offset=2; strand=R; shift=3; score=0.453681; ---CCGCTGCyGm ; cor=; Ncor= a 0 0 0 37.0 126.0 44.0 10.0 57.0 44.0 10.0 32.0 50.0 730.0 c 0 0 0 2145.0 1784.0 33.0 2328.0 576.0 42.0 2334.0 1263.0 22.0 1483.0 g 0 0 0 134.0 138.0 2292.0 20.0 96.0 2279.0 26.0 92.0 2278.0 114.0 t 0 0 0 72.0 340.0 19.0 30.0 1659.0 23.0 18.0 1001.0 38.0 61.0

MA1727.2_rc_shift1 (ZNF417_rc)
; oligos_6nt_mkv2_m4 versus MA1727.2_rc (ZNF417_rc); m=5/7; ncol2=7; w=0; offset=0; strand=R; shift=1; score=0.413548; -TGGCGCC----- ; cor=; Ncor= a 0 1.0 13.0 7.0 1.0 55.0 1.0 1.0 0 0 0 0 0 c 0 1.0 1.0 1.0 996.0 1.0 996.0 996.0 0 0 0 0 0 g 0 13.0 954.0 990.0 1.0 936.0 1.0 1.0 0 0 0 0 0 t 0 984.0 31.0 1.0 1.0 7.0 1.0 1.0 0 0 0 0 0

MA0471.3_rc_shift0 (E2F6_rc)
; oligos_6nt_mkv2_m4 versus MA0471.3_rc (E2F6_rc); m=6/7; ncol2=8; w=-1; offset=-1; strand=R; shift=0; score=0.409607; TTCCCGCC----- ; cor=; Ncor= a 757.0 268.0 296.0 353.0 813.0 2125.0 205.0 453.0 0 0 0 0 0 c 5021.0 2322.0 31614.0 31973.0 30573.0 693.0 31790.0 29387.0 0 0 0 0 0 g 1595.0 1171.0 834.0 434.0 539.0 26424.0 837.0 1148.0 0 0 0 0 0 t 25725.0 29337.0 354.0 338.0 1173.0 3856.0 266.0 2110.0 0 0 0 0 0

MA1650.2_shift6 (ZBTB14)
; oligos_6nt_mkv2_m4 versus MA1650.2 (ZBTB14); m=7/7; ncol2=8; w=0; offset=5; strand=D; shift=6; score=0.409158; ------CCGCGCA ; cor=; Ncor= a 0 0 0 0 0 0 335.0 41.0 93.0 68.0 132.0 56.0 4500.0 c 0 0 0 0 0 0 3525.0 4292.0 294.0 4078.0 305.0 4178.0 37.0 g 0 0 0 0 0 0 614.0 155.0 4098.0 319.0 4043.0 261.0 10.0 t 0 0 0 0 0 0 73.0 59.0 62.0 82.0 67.0 52.0 0.0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m3_shift3 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m3_shift3 (oligos_7nt_mkv2_m3)
; oligos_7nt_mkv2_m3; m=0 (reference); ncol1=13; shift=3; ncol=16; ---sssAGGCTGGggb ; Alignment reference a 0 0 0 19 20 11 110 2 1 5 8 3 11 29 31 18 c 0 0 0 42 39 32 8 5 1 115 5 3 4 12 27 36 g 0 0 0 41 42 75 4 114 122 4 7 119 109 67 53 34 t 0 0 0 24 25 8 4 5 2 2 106 1 2 18 15 38

MA1596.1_rc_shift0 (ZNF460_rc)
; oligos_7nt_mkv2_m3 versus MA1596.1_rc (ZNF460_rc); m=1/6; ncol2=16; w=-3; offset=-3; strand=R; shift=0; score=0.612985; CyyGGGAGGCkGAGGy ; cor=; Ncor= a 64.0 29.0 56.0 40.0 9.0 10.0 1570.0 6.0 11.0 35.0 85.0 29.0 1284.0 66.0 114.0 46.0 c 1147.0 421.0 930.0 27.0 15.0 15.0 17.0 9.0 7.0 1493.0 181.0 47.0 83.0 67.0 185.0 1023.0 g 158.0 175.0 110.0 1533.0 1583.0 1584.0 12.0 1596.0 1588.0 23.0 495.0 1519.0 218.0 1460.0 1264.0 131.0 t 243.0 987.0 516.0 12.0 5.0 3.0 13.0 1.0 6.0 61.0 851.0 17.0 27.0 19.0 49.0 412.0

MA2341.1_rc_shift6 (FEZF2_rc)
; oligos_7nt_mkv2_m3 versus MA2341.1_rc (FEZF2_rc); m=2/6; ncol2=8; w=0; offset=3; strand=R; shift=6; score=0.606407; ------AGGCTGGG-- ; cor=; Ncor= a 0 0 0 0 0 0 233.0 9.0 5.0 0.0 5.0 3.0 45.0 36.0 0 0 c 0 0 0 0 0 0 8.0 2.0 28.0 251.0 14.0 0.0 9.0 10.0 0 0 g 0 0 0 0 0 0 10.0 247.0 224.0 8.0 15.0 258.0 206.0 202.0 0 0 t 0 0 0 0 0 0 14.0 7.0 8.0 6.0 231.0 4.0 5.0 17.0 0 0

MA2125.1_rc_shift7 (Zfp809_rc)
; oligos_7nt_mkv2_m3 versus MA2125.1_rc (Zfp809_rc); m=3/6; ncol2=9; w=0; offset=4; strand=R; shift=7; score=0.581645; -------gGCTGGGAw ; cor=; Ncor= a 0 0 0 0 0 0 0 242.0 61.0 26.0 37.0 18.0 21.0 25.0 1578.0 690.0 c 0 0 0 0 0 0 0 115.0 99.0 1572.0 73.0 16.0 14.0 18.0 23.0 81.0 g 0 0 0 0 0 0 0 1091.0 1218.0 35.0 26.0 1621.0 1610.0 1607.0 41.0 66.0 t 0 0 0 0 0 0 0 217.0 287.0 32.0 1529.0 10.0 20.0 15.0 23.0 828.0

MA2121.1_shift2 (ZNF213)
; oligos_7nt_mkv2_m3 versus MA2121.1 (ZNF213); m=4/6; ncol2=12; w=-1; offset=-1; strand=D; shift=2; score=0.574449; --gCCCAGGCwGsr-- ; cor=; Ncor= a 0 0 119.0 26.0 18.0 15.0 577.0 10.0 12.0 16.0 229.0 42.0 61.0 216.0 0 0 c 0 0 89.0 581.0 603.0 630.0 34.0 13.0 25.0 642.0 97.0 76.0 319.0 86.0 0 0 g 0 0 403.0 52.0 34.0 34.0 54.0 661.0 639.0 22.0 124.0 519.0 260.0 330.0 0 0 t 0 0 76.0 28.0 32.0 8.0 22.0 3.0 11.0 7.0 237.0 50.0 47.0 55.0 0 0

MA2099.1_rc_shift4 (ZNF770_rc)
; oligos_7nt_mkv2_m3 versus MA2099.1_rc (ZNF770_rc); m=5/6; ncol2=8; w=0; offset=1; strand=R; shift=4; score=0.524881; ----kGAGGCyG---- ; cor=; Ncor= a 0 0 0 0 724.0 56.0 13889.0 65.0 156.0 126.0 387.0 1052.0 0 0 0 0 c 0 0 0 0 485.0 86.0 215.0 133.0 681.0 13947.0 9119.0 374.0 0 0 0 0 g 0 0 0 0 3865.0 14154.0 140.0 14096.0 13393.0 79.0 857.0 12613.0 0 0 0 0 t 0 0 0 0 9257.0 35.0 87.0 37.0 101.0 179.0 3968.0 292.0 0 0 0 0

MA0039.5_rc_shift7 (KLF4_rc)
; oligos_7nt_mkv2_m3 versus MA0039.5_rc (KLF4_rc); m=6/6; ncol2=8; w=0; offset=4; strand=R; shift=7; score=0.456995; -------GGGTGGGG- ; cor=; Ncor= a 0 0 0 0 0 0 0 2565.0 1218.0 1129.0 3456.0 976.0 1969.0 4633.0 2560.0 0 c 0 0 0 0 0 0 0 1005.0 1870.0 1470.0 6598.0 793.0 1422.0 1214.0 1583.0 0 g 0 0 0 0 0 0 0 51045.0 51112.0 52366.0 161.0 52875.0 45405.0 47865.0 49209.0 0 t 0 0 0 0 0 0 0 1202.0 1617.0 852.0 45602.0 1173.0 7021.0 2105.0 2465.0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv2_m1_shift7 (oligos_6nt_mkv2_m1)				; oligos_6nt_mkv2_m1; m=0 (reference); ncol1=11; shift=7; ncol=18; -------csgCCTCCCcs ; Alignment reference a 0 0 0 0 0 0 0 29 27 13 2 2 3 2 5 1 40 39 c 0 0 0 0 0 0 0 60 53 34 160 155 1 160 155 161 59 51 g 0 0 0 0 0 0 0 37 44 85 1 4 6 1 5 2 25 50 t 0 0 0 0 0 0 0 39 41 33 2 4 155 2 0 1 41 25
MA1653.2_shift8 (ZNF148)				; oligos_6nt_mkv2_m1 versus MA1653.2 (ZNF148); m=1/22; ncol2=10; w=0; offset=1; strand=D; shift=8; score=0.754333; --------CCCCTCCCcc ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 113.0 200.0 136.0 66.0 10040.0 67.0 465.0 1082.0 1190.0 1180.0
MA1961.2_rc_shift7 (PATZ1_rc)				; oligos_6nt_mkv2_m1 versus MA1961.2_rc (PATZ1_rc); m=2/22; ncol2=11; w=0; offset=0; strand=R; shift=7; score=0.746318; -------sCCCCkCCCCs ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 51.0 54.0 1.0 1.0 1.0 355.0 1.0 1.0 195.0 68.0 125.0
MA1630.3_rc_shift8 (ZNF281_rc)				; oligos_6nt_mkv2_m1 versus MA1630.3_rc (ZNF281_rc); m=3/22; ncol2=10; w=0; offset=1; strand=R; shift=8; score=0.695066; --------CCCCTCCCCC ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 47.0 41.0 1.0 122.0 720.0 1.0 1.0 35.0 1.0 1.0
MA0599.1_shift7 (KLF5)				; oligos_6nt_mkv2_m1 versus MA0599.1 (KLF5); m=4/22; ncol2=10; w=0; offset=0; strand=D; shift=7; score=0.680797; -------gCCMCrCCCh- ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 2587.0 1711.0 1603.0 565.0 0.0 3378.0 0.0 0.0 476.0 4101.0 0
MA0685.2_rc_shift8 (SP4_rc)				; oligos_6nt_mkv2_m1 versus MA0685.2_rc (SP4_rc); m=5/22; ncol2=9; w=0; offset=1; strand=R; shift=8; score=0.633517; --------CyCCKCCCc- ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0.686813 289.148 0.686813 0.686813 275.412 0.686813 0.686813 0.686813 149.038 0
MA0079.5_rc_shift8 (SP1_rc)				; oligos_6nt_mkv2_m1 versus MA0079.5_rc (SP1_rc); m=6/22; ncol2=9; w=0; offset=1; strand=R; shift=8; score=0.630102; --------CyCCKCCCC- ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 161.392 254.219 1.05485 1.05485 266.878 1.05485 1.05485 1.05485 1.05485 0
MA1596.1_shift3 (ZNF460)				; oligos_6nt_mkv2_m1 versus MA1596.1 (ZNF460); m=7/22; ncol2=16; w=-4; offset=-4; strand=D; shift=3; score=0.602416; ---rCCTCmGCCTCCCrr ; cor=; Ncor= a 0 0 0 412.0 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 0 0 0 131.0 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 0 0 0 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 0 0 0 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
MA1522.2_shift8 (MAZ)				; oligos_6nt_mkv2_m1 versus MA1522.2 (MAZ); m=8/22; ncol2=8; w=0; offset=1; strand=D; shift=8; score=0.602198; --------CCCCTCCc-- ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 26.0 0.0 6.0 1.0 14927.0 4.0 0.0 2814.0 0 0
MA0516.3_rc_shift8 (SP2_rc)				; oligos_6nt_mkv2_m1 versus MA0516.3_rc (SP2_rc); m=9/22; ncol2=9; w=0; offset=1; strand=R; shift=8; score=0.594991; --------cCCCGCCCC- ; cor=; Ncor= a 0 0 0 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 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 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 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_shift8 (KLF14_rc)				; oligos_6nt_mkv2_m1 versus MA0740.2_rc (KLF14_rc); m=10/22; ncol2=9; w=0; offset=1; strand=R; shift=8; score=0.583591; --------CCMCGCCCm- ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 198.614 107.705 0.635877 0.635877 94.9046 0.635877 0.635877 0.635877 31.158 0
MA0528.3_rc_shift9 (ZNF263_rc)				; oligos_6nt_mkv2_m1 versus MA0528.3_rc (ZNF263_rc); m=11/22; ncol2=7; w=0; offset=2; strand=R; shift=9; score=0.575892; ---------TCCTCCC-- ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 52499.0 695.0 830.0 53900.0 950.0 789.0 1610.0 0 0
MA2099.1_shift7 (ZNF770)				; oligos_6nt_mkv2_m1 versus MA2099.1 (ZNF770); m=12/22; ncol2=8; w=0; offset=0; strand=D; shift=7; score=0.570729; -------CrGCCTCm--- ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 1052.0 387.0 126.0 156.0 65.0 13889.0 56.0 724.0 0 0 0
MA1587.1_shift4 (ZNF135)				; oligos_6nt_mkv2_m1 versus MA1587.1 (ZNF135); m=13/22; ncol2=14; w=-3; offset=-3; strand=D; shift=4; score=0.555226; ----cCTCGACCTCCyrr ; cor=; Ncor= a 0 0 0 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 0 0 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 0 0 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 0 0 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
MA1965.2_shift10 (SP5)				; oligos_6nt_mkv2_m1 versus MA1965.2 (SP5); m=14/22; ncol2=6; w=0; offset=3; strand=D; shift=10; score=0.545325; ----------CCTCCC-- ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 4.0 0.0 20465.0 0.0 0.0 0.0 0 0
MA1627.2_shift10 (Wt1)				; oligos_6nt_mkv2_m1 versus MA1627.2 (Wt1); m=15/22; ncol2=10; w=0; offset=3; strand=D; shift=10; score=0.541394; ----------cCTCCCCC ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 500.0 39.0 4183.0 26.0 222.0 276.0 104.0 41.0
MA0493.3_rc_shift8 (KLF1_rc)				; oligos_6nt_mkv2_m1 versus MA0493.3_rc (KLF1_rc); m=16/22; ncol2=8; w=0; offset=1; strand=R; shift=8; score=0.516717; --------CCmCrCCC-- ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 1.0 82.0 1.0 1.0 125.0 1.0 1.0 1.0 0 0
MA1959.2_rc_shift8 (KLF7_rc)				; oligos_6nt_mkv2_m1 versus MA1959.2_rc (KLF7_rc); m=17/22; ncol2=8; w=0; offset=1; strand=R; shift=8; score=0.51627; --------CcMCGCCC-- ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 1.0 150.0 1.0 1.0 45.0 1.0 1.0 1.0 0 0
MA1513.2_shift8 (KLF15)				; oligos_6nt_mkv2_m1 versus MA1513.2 (KLF15); m=18/22; ncol2=8; w=0; offset=1; strand=D; shift=8; score=0.51057; --------cCCCGCCC-- ; cor=; Ncor= a 0 0 0 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 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 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 0 0 0 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0 0 0
MA1723.2_rc_shift4 (PRDM9_rc)				; oligos_6nt_mkv2_m1 versus MA1723.2_rc (PRDM9_rc); m=19/22; ncol2=20; w=-3; offset=-3; strand=R; shift=4; score=0.459146; ----yTkyykCCyCCcTk ; cor=; Ncor= a 0 0 0 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 0 0 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 0 0 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 0 0 0 318.0 783.0 265.0 371.0 397.0 353.0 20.0 2.0 450.0 29.0 125.0 160.0 774.0 300.0
MA1710.2_rc_shift4 (ZNF257_rc)				; oligos_6nt_mkv2_m1 versus MA1710.2_rc (ZNF257_rc); m=20/22; ncol2=10; w=-3; offset=-3; strand=R; shift=4; score=0.450402; ----cyCTygCCTC---- ; cor=; Ncor= a 0 0 0 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 0 0 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 0 0 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 0 0 0 112.0 434.0 1.0 832.0 549.0 239.0 1.0 1.0 924.0 1.0 0 0 0 0
MA1578.2_shift10 (VEZF1)				; oligos_6nt_mkv2_m1 versus MA1578.2 (VEZF1); m=21/22; ncol2=6; w=0; offset=3; strand=D; shift=10; score=0.415111; ----------CCCCCC-- ; cor=; Ncor= a 0 0 0 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 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 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 0.0 0.0 4.0 8.0 0 0
MA1972.1_rc_shift0 (ZFP14_rc)				; oligos_6nt_mkv2_m1 versus MA1972.1_rc (ZFP14_rc); m=22/22; ncol2=15; w=-7; offset=-7; strand=R; shift=0; score=0.406016; CryTCCagkgCCTCC--- ; cor=; Ncor= a 99.5223 335.191 3.98089 0.796178 0.796178 121.815 386.146 96.3376 230.096 48.5669 0.796178 3.98089 0.796178 3.98089 16.7197 0 0 0 c 803.344 246.019 309.713 19.9045 991.242 755.573 182.325 93.1529 64.4904 172.771 691.879 994.427 0.796178 876.592 832.006 0 0 0 g 58.121 268.312 89.9682 0.796178 0.796178 0.796178 207.803 675.955 351.115 545.382 220.541 0.796178 3.98089 0.796178 13.535 0 0 0 t 39.0127 150.478 596.338 978.503 7.16561 121.815 223.726 134.554 354.299 233.28 86.7834 0.796178 994.427 118.631 137.739 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv2_m3_shift0 (oligos_6nt_mkv2_m3)				; oligos_6nt_mkv2_m3; m=0 (reference); ncol1=11; shift=0; ncol=11; raATGAATGah ; Alignment reference a 33 41 100 2 2 94 100 0 10 41 31 c 17 16 1 1 5 4 5 1 10 19 29 g 35 25 3 1 99 8 3 6 79 27 20 t 24 27 5 105 3 3 1 102 10 22 29
MA1124.1_rc_shift0 (ZNF24_rc)				; oligos_6nt_mkv2_m3 versus MA1124.1_rc (ZNF24_rc); m=1/5; ncol2=13; w=0; offset=0; strand=R; shift=0; score=0.744145; GAATGAATGAA ; cor=; Ncor= a 2685.0 19146.0 19421.0 279.0 789.0 22610.0 22192.0 147.0 723.0 21867.0 19505.0 c 856.0 1045.0 811.0 589.0 93.0 182.0 128.0 501.0 118.0 461.0 739.0 g 17701.0 2128.0 2062.0 402.0 22068.0 330.0 887.0 219.0 22137.0 544.0 2102.0 t 2062.0 985.0 1010.0 22034.0 354.0 182.0 97.0 22437.0 326.0 432.0 958.0
MA0601.2_shift1 (Arid3b)				; oligos_6nt_mkv2_m3 versus MA0601.2 (Arid3b); m=2/5; ncol2=7; w=0; offset=1; strand=D; shift=1; score=0.449203; -waTTAAT--- ; cor=; Ncor= a 0 273.0 609.0 104.0 0.0 1000.0 911.0 89.0 0 0 0 c 0 80.0 119.0 0.0 0.0 0.0 0.0 0.0 0 0 0 g 0 80.0 34.0 0.0 0.0 0.0 0.0 0.0 0 0 0 t 0 566.0 238.0 895.0 1000.0 0.0 89.0 911.0 0 0 0
MA1499.2_rc_shift0 (HOXB4_rc)				; oligos_6nt_mkv2_m3 versus MA1499.2_rc (HOXB4_rc); m=3/5; ncol2=6; w=0; offset=0; strand=R; shift=0; score=0.41158; TAATkA----- ; cor=; Ncor= a 0.0 9080.0 9080.0 0.0 0.0 9080.0 0 0 0 0 0 c 55.0 271.0 0.0 265.0 0.0 0.0 0 0 0 0 0 g 0.0 0.0 0.0 0.0 5459.0 2103.0 0 0 0 0 0 t 9080.0 0.0 0.0 9080.0 3621.0 0.0 0 0 0 0 0
MA1504.2_rc_shift0 (HOXC4_rc)				; oligos_6nt_mkv2_m3 versus MA1504.2_rc (HOXC4_rc); m=4/5; ncol2=6; w=0; offset=0; strand=R; shift=0; score=0.405742; TAATkR----- ; cor=; Ncor= a 0.0 8759.0 8759.0 0.0 0.0 8759.0 0 0 0 0 0 c 825.0 0.0 0.0 583.0 0.0 0.0 0 0 0 0 0 g 0.0 0.0 0.0 0.0 5152.0 3111.0 0 0 0 0 0 t 8759.0 0.0 0.0 8759.0 3607.0 188.0 0 0 0 0 0
MA1114.2_shift3 (PBX3)				; oligos_6nt_mkv2_m3 versus MA1114.2 (PBX3); m=5/5; ncol2=11; w=0; offset=3; strand=D; shift=3; score=0.402183; ---TGAGTGAC ; cor=; Ncor= a 0 0 0 596.0 228.0 6426.0 335.0 247.0 146.0 6164.0 150.0 c 0 0 0 225.0 227.0 125.0 788.0 199.0 242.0 108.0 6524.0 g 0 0 0 503.0 6406.0 214.0 4929.0 285.0 6550.0 604.0 209.0 t 0 0 0 5697.0 160.0 256.0 969.0 6290.0 83.0 145.0 138.0

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=15; shift=1; ncol=16; -aaaAtAAATAAAAwa ; Alignment reference a 0 53 57 78 93 25 100 105 105 3 101 102 100 82 39 47 c 0 17 16 9 4 6 5 3 5 12 3 3 5 7 20 22 g 0 19 19 11 5 11 6 6 2 4 5 7 6 8 23 19 t 0 28 25 19 15 75 6 3 5 98 8 5 6 20 35 29
MA0041.3_shift1 (FOXD3)				; oligos_7nt_mkv2_m1 versus MA0041.3 (FOXD3); m=1/19; ncol2=14; w=0; offset=0; strand=D; shift=1; score=0.739623; -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 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 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 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 0
MA0846.2_shift1 (FOXC2)				; oligos_7nt_mkv2_m1 versus MA0846.2 (FOXC2); m=2/19; ncol2=11; w=0; offset=0; strand=D; shift=1; score=0.564087; -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 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 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 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 0
MA0032.2_shift1 (FOXC1)				; oligos_7nt_mkv2_m1 versus MA0032.2 (FOXC1); m=3/19; ncol2=11; w=0; offset=0; strand=D; shift=1; score=0.538955; -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 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 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 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 0
MA0757.2_shift0 (ONECUT3)				; oligos_7nt_mkv2_m1 versus MA0757.2 (ONECUT3); m=4/19; ncol2=12; w=-1; offset=-1; strand=D; shift=0; score=0.525123; aAAAATCrATAa---- ; cor=; Ncor= a 3851.0 6080.0 6080.0 6080.0 6080.0 32.0 23.0 3950.0 6080.0 43.0 6080.0 3620.0 0 0 0 0 c 379.0 274.0 173.0 28.0 5.0 103.0 6080.0 20.0 6.0 6.0 105.0 861.0 0 0 0 0 g 1141.0 498.0 112.0 102.0 41.0 14.0 3.0 2130.0 9.0 7.0 187.0 417.0 0 0 0 0 t 709.0 878.0 1221.0 54.0 11.0 6080.0 5.0 11.0 22.0 6080.0 345.0 1182.0 0 0 0 0
MA1487.3_shift0 (FOXE1)				; oligos_7nt_mkv2_m1 versus MA1487.3 (FOXE1); m=5/19; ncol2=12; w=-1; offset=-1; strand=D; shift=0; score=0.520716; 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 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 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 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 0
MA0847.4_shift0 (FOXD2)				; oligos_7nt_mkv2_m1 versus MA0847.4 (FOXD2); m=6/19; ncol2=11; w=-1; offset=-1; strand=D; shift=0; score=0.48117; yTAAryAAACA----- ; cor=; Ncor= a 219.0 480.0 2484.0 2484.0 2484.0 84.0 2484.0 2484.0 2484.0 0.0 2484.0 0 0 0 0 0 c 906.0 19.0 16.0 285.0 23.0 1342.0 81.0 23.0 0.0 2484.0 24.0 0 0 0 0 0 g 131.0 0.0 137.0 292.0 1615.0 3.0 0.0 18.0 5.0 0.0 34.0 0 0 0 0 0 t 1578.0 2004.0 0.0 262.0 4.0 1141.0 79.0 1.0 2.0 768.0 232.0 0 0 0 0 0
MA0679.3_shift2 (ONECUT1)				; oligos_7nt_mkv2_m1 versus MA0679.3 (ONECUT1); m=7/19; ncol2=9; w=0; offset=1; strand=D; shift=2; score=0.478267; --aAATCAATA----- ; cor=; Ncor= a 0 0 37926.0 52146.0 60015.0 482.0 1345.0 59595.0 60870.0 225.0 48524.0 0 0 0 0 0 c 0 0 7555.0 1011.0 358.0 294.0 60181.0 438.0 247.0 356.0 3451.0 0 0 0 0 0 g 0 0 6149.0 7794.0 1166.0 241.0 278.0 1226.0 366.0 162.0 6072.0 0 0 0 0 0 t 0 0 10589.0 1268.0 680.0 61202.0 415.0 960.0 736.0 61476.0 4172.0 0 0 0 0 0
MA0901.3_shift5 (HOXB13)				; oligos_7nt_mkv2_m1 versus MA0901.3 (HOXB13); m=8/19; ncol2=9; w=0; offset=4; strand=D; shift=5; score=0.471199; -----cCAATAAAA-- ; cor=; Ncor= a 0 0 0 0 0 11896.0 4212.0 66409.0 73044.0 421.0 73612.0 75997.0 76077.0 70230.0 0 0 c 0 0 0 0 0 47674.0 65312.0 4611.0 726.0 550.0 523.0 599.0 760.0 2465.0 0 0 g 0 0 0 0 0 9096.0 582.0 351.0 1913.0 586.0 1083.0 490.0 625.0 1882.0 0 0 t 0 0 0 0 0 10048.0 8608.0 7343.0 3031.0 77157.0 3496.0 1628.0 1252.0 4137.0 0 0
MA0851.2_shift4 (Foxj3)				; oligos_7nt_mkv2_m1 versus MA0851.2 (Foxj3); m=9/19; ncol2=9; w=0; offset=3; strand=D; shift=4; score=0.468042; ----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 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 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 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 0
MA1113.3_shift3 (PBX2)				; oligos_7nt_mkv2_m1 versus MA1113.3 (PBX2); m=10/19; ncol2=9; w=0; offset=2; strand=D; shift=3; score=0.460705; ---cATAAATCA---- ; cor=; Ncor= a 0 0 0 4925.0 26620.0 225.0 24368.0 27245.0 27259.0 704.0 2298.0 25945.0 0 0 0 0 c 0 0 0 19645.0 629.0 588.0 2266.0 574.0 754.0 453.0 23894.0 848.0 0 0 0 0 g 0 0 0 1585.0 1710.0 317.0 817.0 343.0 569.0 327.0 555.0 352.0 0 0 0 0 t 0 0 0 3441.0 637.0 28466.0 2145.0 1434.0 1014.0 28112.0 2849.0 2451.0 0 0 0 0
MA1640.2_rc_shift3 (MEIS2_rc)				; oligos_7nt_mkv2_m1 versus MA1640.2_rc (MEIS2_rc); m=11/19; ncol2=9; w=0; offset=2; strand=R; shift=3; score=0.448712; ---cATAAATCA---- ; cor=; Ncor= a 0 0 0 3599.0 18144.0 157.0 16167.0 18982.0 18830.0 381.0 1067.0 14420.0 0 0 0 0 c 0 0 0 12862.0 502.0 495.0 1801.0 278.0 499.0 224.0 17326.0 1400.0 0 0 0 0 g 0 0 0 1089.0 1053.0 177.0 582.0 201.0 268.0 207.0 302.0 468.0 0 0 0 0 t 0 0 0 2623.0 474.0 19344.0 1623.0 712.0 576.0 19361.0 1478.0 3885.0 0 0 0 0
MA0899.2_shift5 (HOXA10)				; oligos_7nt_mkv2_m1 versus MA0899.2 (HOXA10); m=12/19; ncol2=9; w=0; offset=4; strand=D; shift=5; score=0.442111; -----gymATWAAa-- ; cor=; Ncor= a 0 0 0 0 0 2425.0 153.0 8381.0 8381.0 367.0 5960.0 8381.0 8381.0 8381.0 0 0 c 0 0 0 0 0 1757.0 3867.0 4516.0 455.0 11.0 84.0 36.0 568.0 2082.0 0 0 g 0 0 0 0 0 8381.0 59.0 1022.0 718.0 0.0 121.0 76.0 125.0 1560.0 0 0 t 0 0 0 0 0 1341.0 4515.0 957.0 267.0 8381.0 2422.0 384.0 331.0 2058.0 0 0
MA0650.4_shift1 (Hoxa13)				; oligos_7nt_mkv2_m1 versus MA0650.4 (Hoxa13); m=13/19; ncol2=8; w=0; offset=0; strand=D; shift=1; score=0.440228; -CCAATAAA------- ; cor=; Ncor= a 0 1442.0 1273.0 14069.0 15410.0 105.0 15804.0 16813.0 16550.0 0 0 0 0 0 0 0 c 0 12600.0 14100.0 1594.0 243.0 249.0 205.0 125.0 306.0 0 0 0 0 0 0 0 g 0 1889.0 77.0 146.0 666.0 232.0 407.0 98.0 145.0 0 0 0 0 0 0 0 t 0 1317.0 1798.0 1439.0 929.0 16662.0 832.0 212.0 247.0 0 0 0 0 0 0 0
MA0465.3_shift1 (CDX2)				; oligos_7nt_mkv2_m1 versus MA0465.3 (CDX2); m=14/19; ncol2=8; w=0; offset=0; strand=D; shift=1; score=0.437374; -GCAATAAA------- ; cor=; Ncor= a 0 3157.0 1226.0 26720.0 29957.0 274.0 29221.0 30645.0 30125.0 0 0 0 0 0 0 0 c 0 2096.0 26587.0 3312.0 414.0 391.0 761.0 349.0 595.0 0 0 0 0 0 0 0 g 0 24214.0 607.0 184.0 1196.0 386.0 999.0 366.0 502.0 0 0 0 0 0 0 0 t 0 2559.0 3606.0 1810.0 459.0 30975.0 1045.0 666.0 804.0 0 0 0 0 0 0 0
MA0913.3_shift5 (HOXD9)				; oligos_7nt_mkv2_m1 versus MA0913.3 (HOXD9); m=15/19; ncol2=9; w=0; offset=4; strand=D; shift=5; score=0.431185; -----GymATAAAA-- ; cor=; Ncor= a 0 0 0 0 0 1300.0 0.0 16363.0 16363.0 215.0 16363.0 16363.0 16363.0 16363.0 0 0 c 0 0 0 0 0 872.0 9773.0 8643.0 226.0 0.0 8.0 0.0 0.0 2202.0 0 0 g 0 0 0 0 0 16363.0 42.0 675.0 439.0 0.0 0.0 0.0 0.0 1216.0 0 0 t 0 0 0 0 0 655.0 6590.0 927.0 4.0 16363.0 5445.0 123.0 0.0 2194.0 0 0
MA2124.1_rc_shift8 (Hmga1_rc)				; oligos_7nt_mkv2_m1 versus MA2124.1_rc (Hmga1_rc); m=16/19; ncol2=8; w=0; offset=7; strand=R; shift=8; score=0.427058; --------wTAAAAAT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 11340.0 542.0 24333.0 24654.0 24779.0 24269.0 24172.0 496.0 c 0 0 0 0 0 0 0 0 2438.0 358.0 294.0 237.0 138.0 303.0 421.0 188.0 g 0 0 0 0 0 0 0 0 2348.0 473.0 409.0 264.0 194.0 200.0 393.0 71.0 t 0 0 0 0 0 0 0 0 9680.0 24433.0 770.0 651.0 695.0 1034.0 820.0 25051.0
MA1125.2_shift6 (ZNF384)				; oligos_7nt_mkv2_m1 versus MA1125.2 (ZNF384); m=17/19; ncol2=8; w=0; offset=5; strand=D; shift=6; score=0.425839; ------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 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 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 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 0
MA1473.2_shift5 (CDX4)				; oligos_7nt_mkv2_m1 versus MA1473.2 (CDX4); m=18/19; ncol2=9; w=0; offset=4; strand=D; shift=5; score=0.425032; -----GymATAAAa-- ; cor=; Ncor= a 0 0 0 0 0 2533.0 0.0 12392.0 23367.0 0.0 23367.0 23367.0 23367.0 23367.0 0 0 c 0 0 0 0 0 1064.0 14682.0 10976.0 0.0 0.0 0.0 0.0 57.0 6493.0 0 0 g 0 0 0 0 0 23367.0 0.0 25.0 0.0 0.0 0.0 0.0 0.0 2168.0 0 0 t 0 0 0 0 0 98.0 8686.0 0.0 0.0 23367.0 0.0 0.0 0.0 4827.0 0 0
MA0040.2_rc_shift7 (Foxq1_rc)				; oligos_7nt_mkv2_m1 versus MA0040.2_rc (Foxq1_rc); m=19/19; ncol2=10; w=0; offset=6; strand=R; shift=7; score=0.413505; -------wATAAACAw ; cor=; Ncor= a 0 0 0 0 0 0 0 9.0 13.0 0.0 18.0 18.0 18.0 0.0 15.0 11.0 c 0 0 0 0 0 0 0 3.0 4.0 1.0 0.0 0.0 0.0 18.0 0.0 0.0 g 0 0 0 0 0 0 0 0.0 1.0 0.0 0.0 0.0 0.0 0.0 0.0 2.0 t 0 0 0 0 0 0 0 6.0 0.0 17.0 0.0 0.0 0.0 0.0 3.0 5.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv2_m2_shift2 (oligos_6nt_mkv2_m2)				; oligos_6nt_mkv2_m2; m=0 (reference); ncol1=14; shift=2; ncol=16; --wwatAAATAAAawa ; Alignment reference a 0 0 57 58 77 28 111 117 114 4 113 111 100 72 47 61 c 0 0 15 14 10 4 3 2 3 2 2 2 8 8 19 19 g 0 0 17 16 11 17 5 4 4 2 3 7 8 18 21 18 t 0 0 36 37 27 76 6 2 4 117 7 5 9 27 38 27
MA0041.3_shift1 (FOXD3)				; oligos_6nt_mkv2_m2 versus MA0041.3 (FOXD3); m=1/24; ncol2=14; w=-1; offset=-1; strand=D; shift=1; score=0.720302; -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 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 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 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 0
MA1487.3_shift4 (FOXE1)				; oligos_6nt_mkv2_m2 versus MA1487.3 (FOXE1); m=2/24; ncol2=12; w=0; offset=2; strand=D; shift=4; score=0.619221; ----yTAARyAAACAa ; cor=; Ncor= a 0 0 0 0 86.0 581.0 3126.0 2547.0 2255.0 587.0 3126.0 3126.0 3126.0 0.0 3126.0 2026.0 c 0 0 0 0 1646.0 43.0 28.0 113.0 117.0 1062.0 362.0 90.0 0.0 3126.0 32.0 392.0 g 0 0 0 0 57.0 0.0 402.0 116.0 871.0 17.0 0.0 0.0 23.0 0.0 18.0 258.0 t 0 0 0 0 1479.0 2545.0 43.0 579.0 27.0 2064.0 20.0 53.0 9.0 85.0 110.0 450.0
MA0847.4_shift4 (FOXD2)				; oligos_6nt_mkv2_m2 versus MA0847.4 (FOXD2); m=3/24; ncol2=11; w=0; offset=2; strand=D; shift=4; score=0.575534; ----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 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 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 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 0
MA0497.2_shift2 (MEF2C)				; oligos_6nt_mkv2_m2 versus MA0497.2 (MEF2C); m=4/24; ncol2=11; w=0; offset=0; strand=D; shift=2; score=0.568572; --cyAAAAATAGm--- ; cor=; Ncor= a 0 0 382.0 0.0 1616.0 1706.0 2107.0 2131.0 2135.0 56.0 2177.0 389.0 975.0 0 0 0 c 0 0 1412.0 985.0 256.0 32.0 0.0 0.0 0.0 62.0 0.0 120.0 836.0 0 0 0 g 0 0 78.0 0.0 74.0 241.0 87.0 2.0 4.0 0.0 32.0 1671.0 148.0 0 0 0 t 0 0 337.0 1224.0 263.0 230.0 15.0 76.0 70.0 2091.0 0.0 29.0 250.0 0 0 0
MA0052.5_shift2 (MEF2A)				; oligos_6nt_mkv2_m2 versus MA0052.5 (MEF2A); m=5/24; ncol2=10; w=0; offset=0; strand=D; shift=2; score=0.517437; --cTAAAAATAG---- ; cor=; Ncor= a 0 0 1984.0 627.0 12437.0 13132.0 14680.0 14453.0 14956.0 441.0 15582.0 2566.0 0 0 0 0 c 0 0 10919.0 2974.0 1013.0 253.0 141.0 231.0 173.0 349.0 50.0 1060.0 0 0 0 0 g 0 0 1007.0 236.0 1066.0 610.0 506.0 241.0 202.0 215.0 422.0 11104.0 0 0 0 0 t 0 0 2252.0 12325.0 1646.0 2167.0 835.0 1237.0 831.0 15157.0 108.0 1432.0 0 0 0 0
MA0846.2_shift1 (FOXC2)				; oligos_6nt_mkv2_m2 versus MA0846.2 (FOXC2); m=6/24; ncol2=11; w=-1; offset=-1; strand=D; shift=1; score=0.513604; -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 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 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 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 0
MA0032.2_shift1 (FOXC1)				; oligos_6nt_mkv2_m2 versus MA0032.2 (FOXC1); m=7/24; ncol2=11; w=-1; offset=-1; strand=D; shift=1; score=0.508277; -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 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 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 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 0
MA0851.2_shift4 (Foxj3)				; oligos_6nt_mkv2_m2 versus MA0851.2 (Foxj3); m=8/24; ncol2=9; w=0; offset=2; strand=D; shift=4; score=0.496573; ----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 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 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 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 0
MA0901.3_shift5 (HOXB13)				; oligos_6nt_mkv2_m2 versus MA0901.3 (HOXB13); m=9/24; ncol2=9; w=0; offset=3; strand=D; shift=5; score=0.495979; -----cCAATAAAA-- ; cor=; Ncor= a 0 0 0 0 0 11896.0 4212.0 66409.0 73044.0 421.0 73612.0 75997.0 76077.0 70230.0 0 0 c 0 0 0 0 0 47674.0 65312.0 4611.0 726.0 550.0 523.0 599.0 760.0 2465.0 0 0 g 0 0 0 0 0 9096.0 582.0 351.0 1913.0 586.0 1083.0 490.0 625.0 1882.0 0 0 t 0 0 0 0 0 10048.0 8608.0 7343.0 3031.0 77157.0 3496.0 1628.0 1252.0 4137.0 0 0
MA1113.3_shift3 (PBX2)				; oligos_6nt_mkv2_m2 versus MA1113.3 (PBX2); m=10/24; ncol2=9; w=0; offset=1; strand=D; shift=3; score=0.491522; ---cATAAATCA---- ; cor=; Ncor= a 0 0 0 4925.0 26620.0 225.0 24368.0 27245.0 27259.0 704.0 2298.0 25945.0 0 0 0 0 c 0 0 0 19645.0 629.0 588.0 2266.0 574.0 754.0 453.0 23894.0 848.0 0 0 0 0 g 0 0 0 1585.0 1710.0 317.0 817.0 343.0 569.0 327.0 555.0 352.0 0 0 0 0 t 0 0 0 3441.0 637.0 28466.0 2145.0 1434.0 1014.0 28112.0 2849.0 2451.0 0 0 0 0
MA0845.1_shift1 (FOXB1)				; oligos_6nt_mkv2_m2 versus MA0845.1 (FOXB1); m=11/24; ncol2=11; w=-1; offset=-1; strand=D; shift=1; score=0.485245; -wAwGTMAAyAt---- ; cor=; Ncor= a 0 2393.0 5343.0 1983.0 1159.0 180.0 4891.0 6841.0 6841.0 28.0 6841.0 1704.0 0 0 0 0 c 0 272.0 263.0 218.0 54.0 240.0 1950.0 213.0 47.0 2252.0 0.0 573.0 0 0 0 0 g 0 190.0 1498.0 409.0 6841.0 113.0 75.0 0.0 47.0 104.0 157.0 556.0 0 0 0 0 t 0 4448.0 561.0 4858.0 124.0 6841.0 73.0 381.0 216.0 4589.0 147.0 4008.0 0 0 0 0
MA0679.3_shift2 (ONECUT1)				; oligos_6nt_mkv2_m2 versus MA0679.3 (ONECUT1); m=12/24; ncol2=9; w=0; offset=0; strand=D; shift=2; score=0.480778; --aAATCAATA----- ; cor=; Ncor= a 0 0 37926.0 52146.0 60015.0 482.0 1345.0 59595.0 60870.0 225.0 48524.0 0 0 0 0 0 c 0 0 7555.0 1011.0 358.0 294.0 60181.0 438.0 247.0 356.0 3451.0 0 0 0 0 0 g 0 0 6149.0 7794.0 1166.0 241.0 278.0 1226.0 366.0 162.0 6072.0 0 0 0 0 0 t 0 0 10589.0 1268.0 680.0 61202.0 415.0 960.0 736.0 61476.0 4172.0 0 0 0 0 0
MA1640.2_rc_shift3 (MEIS2_rc)				; oligos_6nt_mkv2_m2 versus MA1640.2_rc (MEIS2_rc); m=13/24; ncol2=9; w=0; offset=1; strand=R; shift=3; score= 0.478; ---cATAAATCA---- ; cor=; Ncor= a 0 0 0 3599.0 18144.0 157.0 16167.0 18982.0 18830.0 381.0 1067.0 14420.0 0 0 0 0 c 0 0 0 12862.0 502.0 495.0 1801.0 278.0 499.0 224.0 17326.0 1400.0 0 0 0 0 g 0 0 0 1089.0 1053.0 177.0 582.0 201.0 268.0 207.0 302.0 468.0 0 0 0 0 t 0 0 0 2623.0 474.0 19344.0 1623.0 712.0 576.0 19361.0 1478.0 3885.0 0 0 0 0
MA0899.2_shift5 (HOXA10)				; oligos_6nt_mkv2_m2 versus MA0899.2 (HOXA10); m=14/24; ncol2=9; w=0; offset=3; strand=D; shift=5; score=0.475891; -----gymATWAAa-- ; cor=; Ncor= a 0 0 0 0 0 2425.0 153.0 8381.0 8381.0 367.0 5960.0 8381.0 8381.0 8381.0 0 0 c 0 0 0 0 0 1757.0 3867.0 4516.0 455.0 11.0 84.0 36.0 568.0 2082.0 0 0 g 0 0 0 0 0 8381.0 59.0 1022.0 718.0 0.0 121.0 76.0 125.0 1560.0 0 0 t 0 0 0 0 0 1341.0 4515.0 957.0 267.0 8381.0 2422.0 384.0 331.0 2058.0 0 0
MA0913.3_shift5 (HOXD9)				; oligos_6nt_mkv2_m2 versus MA0913.3 (HOXD9); m=15/24; ncol2=9; w=0; offset=3; strand=D; shift=5; score=0.461083; -----GymATAAAA-- ; cor=; Ncor= a 0 0 0 0 0 1300.0 0.0 16363.0 16363.0 215.0 16363.0 16363.0 16363.0 16363.0 0 0 c 0 0 0 0 0 872.0 9773.0 8643.0 226.0 0.0 8.0 0.0 0.0 2202.0 0 0 g 0 0 0 0 0 16363.0 42.0 675.0 439.0 0.0 0.0 0.0 0.0 1216.0 0 0 t 0 0 0 0 0 655.0 6590.0 927.0 4.0 16363.0 5445.0 123.0 0.0 2194.0 0 0
MA1473.2_shift5 (CDX4)				; oligos_6nt_mkv2_m2 versus MA1473.2 (CDX4); m=16/24; ncol2=9; w=0; offset=3; strand=D; shift=5; score=0.458247; -----GymATAAAa-- ; cor=; Ncor= a 0 0 0 0 0 2533.0 0.0 12392.0 23367.0 0.0 23367.0 23367.0 23367.0 23367.0 0 0 c 0 0 0 0 0 1064.0 14682.0 10976.0 0.0 0.0 0.0 0.0 57.0 6493.0 0 0 g 0 0 0 0 0 23367.0 0.0 25.0 0.0 0.0 0.0 0.0 0.0 2168.0 0 0 t 0 0 0 0 0 98.0 8686.0 0.0 0.0 23367.0 0.0 0.0 0.0 4827.0 0 0
MA0040.2_rc_shift7 (Foxq1_rc)				; oligos_6nt_mkv2_m2 versus MA0040.2_rc (Foxq1_rc); m=17/24; ncol2=10; w=0; offset=5; strand=R; shift=7; score=0.456436; -------wATAAACAw ; cor=; Ncor= a 0 0 0 0 0 0 0 9.0 13.0 0.0 18.0 18.0 18.0 0.0 15.0 11.0 c 0 0 0 0 0 0 0 3.0 4.0 1.0 0.0 0.0 0.0 18.0 0.0 0.0 g 0 0 0 0 0 0 0 0.0 1.0 0.0 0.0 0.0 0.0 0.0 0.0 2.0 t 0 0 0 0 0 0 0 6.0 0.0 17.0 0.0 0.0 0.0 0.0 3.0 5.0
MA2124.1_rc_shift2 (Hmga1_rc)				; oligos_6nt_mkv2_m2 versus MA2124.1_rc (Hmga1_rc); m=18/24; ncol2=8; w=0; offset=0; strand=R; shift=2; score=0.455697; --wTAAAAAT------ ; cor=; Ncor= a 0 0 11340.0 542.0 24333.0 24654.0 24779.0 24269.0 24172.0 496.0 0 0 0 0 0 0 c 0 0 2438.0 358.0 294.0 237.0 138.0 303.0 421.0 188.0 0 0 0 0 0 0 g 0 0 2348.0 473.0 409.0 264.0 194.0 200.0 393.0 71.0 0 0 0 0 0 0 t 0 0 9680.0 24433.0 770.0 651.0 695.0 1034.0 820.0 25051.0 0 0 0 0 0 0
MA1125.2_shift6 (ZNF384)				; oligos_6nt_mkv2_m2 versus MA1125.2 (ZNF384); m=19/24; ncol2=8; w=0; offset=4; strand=D; shift=6; score=0.452088; ------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 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 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 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 0
MA0757.2_shift0 (ONECUT3)				; oligos_6nt_mkv2_m2 versus MA0757.2 (ONECUT3); m=20/24; ncol2=12; w=-2; offset=-2; strand=D; shift=0; score=0.442725; aAAAATCrATAa---- ; cor=; Ncor= a 3851.0 6080.0 6080.0 6080.0 6080.0 32.0 23.0 3950.0 6080.0 43.0 6080.0 3620.0 0 0 0 0 c 379.0 274.0 173.0 28.0 5.0 103.0 6080.0 20.0 6.0 6.0 105.0 861.0 0 0 0 0 g 1141.0 498.0 112.0 102.0 41.0 14.0 3.0 2130.0 9.0 7.0 187.0 417.0 0 0 0 0 t 709.0 878.0 1221.0 54.0 11.0 6080.0 5.0 11.0 22.0 6080.0 345.0 1182.0 0 0 0 0
MA0465.3_shift5 (CDX2)				; oligos_6nt_mkv2_m2 versus MA0465.3 (CDX2); m=21/24; ncol2=8; w=0; offset=3; strand=D; shift=5; score=0.430475; -----GCAATAAA--- ; cor=; Ncor= a 0 0 0 0 0 3157.0 1226.0 26720.0 29957.0 274.0 29221.0 30645.0 30125.0 0 0 0 c 0 0 0 0 0 2096.0 26587.0 3312.0 414.0 391.0 761.0 349.0 595.0 0 0 0 g 0 0 0 0 0 24214.0 607.0 184.0 1196.0 386.0 999.0 366.0 502.0 0 0 0 t 0 0 0 0 0 2559.0 3606.0 1810.0 459.0 30975.0 1045.0 666.0 804.0 0 0 0
MA0650.4_shift5 (Hoxa13)				; oligos_6nt_mkv2_m2 versus MA0650.4 (Hoxa13); m=22/24; ncol2=8; w=0; offset=3; strand=D; shift=5; score=0.425786; -----CCAATAAA--- ; cor=; Ncor= a 0 0 0 0 0 1442.0 1273.0 14069.0 15410.0 105.0 15804.0 16813.0 16550.0 0 0 0 c 0 0 0 0 0 12600.0 14100.0 1594.0 243.0 249.0 205.0 125.0 306.0 0 0 0 g 0 0 0 0 0 1889.0 77.0 146.0 666.0 232.0 407.0 98.0 145.0 0 0 0 t 0 0 0 0 0 1317.0 1798.0 1439.0 929.0 16662.0 832.0 212.0 247.0 0 0 0
MA0703.3_rc_shift4 (LMX1B_rc)				; oligos_6nt_mkv2_m2 versus MA0703.3_rc (LMX1B_rc); m=23/24; ncol2=8; w=0; offset=2; strand=R; shift=4; score=0.421881; ----tTAATTAA---- ; cor=; Ncor= a 0 0 0 0 609.0 0.0 4064.0 4064.0 0.0 0.0 4064.0 3465.0 0 0 0 0 c 0 0 0 0 350.0 0.0 0.0 0.0 0.0 0.0 0.0 190.0 0 0 0 0 g 0 0 0 0 785.0 12.0 0.0 0.0 0.0 0.0 0.0 599.0 0 0 0 0 t 0 0 0 0 2319.0 4064.0 0.0 0.0 4064.0 4064.0 0.0 0.0 0 0 0 0
MA0614.1_shift4 (Foxj2)				; oligos_6nt_mkv2_m2 versus MA0614.1 (Foxj2); m=24/24; ncol2=8; w=0; offset=2; strand=D; shift=4; score=0.41215; ----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 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 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 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 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv2_m5_shift2 (oligos_7nt_mkv2_m5)				; oligos_7nt_mkv2_m5; m=0 (reference); ncol1=14; shift=2; ncol=16; --wwaaAAATAAAAaa ; Alignment reference a 0 0 73 78 93 115 161 162 161 22 152 153 158 117 78 81 c 0 0 29 26 19 9 2 3 2 15 7 7 4 9 27 33 g 0 0 19 22 24 18 2 4 2 5 6 9 4 21 32 23 t 0 0 50 45 35 29 6 2 6 129 6 2 5 24 34 34
MA0041.3_shift1 (FOXD3)				; oligos_7nt_mkv2_m5 versus MA0041.3 (FOXD3); m=1/15; ncol2=14; w=-1; offset=-1; strand=D; shift=1; score=0.699775; -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 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 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 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 0
MA0497.2_shift2 (MEF2C)				; oligos_7nt_mkv2_m5 versus MA0497.2 (MEF2C); m=2/15; ncol2=11; w=0; offset=0; strand=D; shift=2; score=0.602246; --cyAAAAATAGm--- ; cor=; Ncor= a 0 0 382.0 0.0 1616.0 1706.0 2107.0 2131.0 2135.0 56.0 2177.0 389.0 975.0 0 0 0 c 0 0 1412.0 985.0 256.0 32.0 0.0 0.0 0.0 62.0 0.0 120.0 836.0 0 0 0 g 0 0 78.0 0.0 74.0 241.0 87.0 2.0 4.0 0.0 32.0 1671.0 148.0 0 0 0 t 0 0 337.0 1224.0 263.0 230.0 15.0 76.0 70.0 2091.0 0.0 29.0 250.0 0 0 0
MA0052.5_shift2 (MEF2A)				; oligos_7nt_mkv2_m5 versus MA0052.5 (MEF2A); m=3/15; ncol2=10; w=0; offset=0; strand=D; shift=2; score=0.556764; --cTAAAAATAG---- ; cor=; Ncor= a 0 0 1984.0 627.0 12437.0 13132.0 14680.0 14453.0 14956.0 441.0 15582.0 2566.0 0 0 0 0 c 0 0 10919.0 2974.0 1013.0 253.0 141.0 231.0 173.0 349.0 50.0 1060.0 0 0 0 0 g 0 0 1007.0 236.0 1066.0 610.0 506.0 241.0 202.0 215.0 422.0 11104.0 0 0 0 0 t 0 0 2252.0 12325.0 1646.0 2167.0 835.0 1237.0 831.0 15157.0 108.0 1432.0 0 0 0 0
MA0847.4_shift4 (FOXD2)				; oligos_7nt_mkv2_m5 versus MA0847.4 (FOXD2); m=4/15; ncol2=11; w=0; offset=2; strand=D; shift=4; score=0.550363; ----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 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 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 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 0
MA2124.1_rc_shift2 (Hmga1_rc)				; oligos_7nt_mkv2_m5 versus MA2124.1_rc (Hmga1_rc); m=5/15; ncol2=8; w=0; offset=0; strand=R; shift=2; score=0.504447; --wTAAAAAT------ ; cor=; Ncor= a 0 0 11340.0 542.0 24333.0 24654.0 24779.0 24269.0 24172.0 496.0 0 0 0 0 0 0 c 0 0 2438.0 358.0 294.0 237.0 138.0 303.0 421.0 188.0 0 0 0 0 0 0 g 0 0 2348.0 473.0 409.0 264.0 194.0 200.0 393.0 71.0 0 0 0 0 0 0 t 0 0 9680.0 24433.0 770.0 651.0 695.0 1034.0 820.0 25051.0 0 0 0 0 0 0
MA0901.3_shift5 (HOXB13)				; oligos_7nt_mkv2_m5 versus MA0901.3 (HOXB13); m=6/15; ncol2=9; w=0; offset=3; strand=D; shift=5; score=0.492902; -----cCAATAAAA-- ; cor=; Ncor= a 0 0 0 0 0 11896.0 4212.0 66409.0 73044.0 421.0 73612.0 75997.0 76077.0 70230.0 0 0 c 0 0 0 0 0 47674.0 65312.0 4611.0 726.0 550.0 523.0 599.0 760.0 2465.0 0 0 g 0 0 0 0 0 9096.0 582.0 351.0 1913.0 586.0 1083.0 490.0 625.0 1882.0 0 0 t 0 0 0 0 0 10048.0 8608.0 7343.0 3031.0 77157.0 3496.0 1628.0 1252.0 4137.0 0 0
MA1125.2_shift7 (ZNF384)				; oligos_7nt_mkv2_m5 versus MA1125.2 (ZNF384); m=7/15; ncol2=8; w=0; offset=5; strand=D; shift=7; score=0.483047; -------AAAAAAaa- ; cor=; Ncor= a 0 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 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 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 0 59.0 188.0 314.0 153.0 191.0 21.0 4436.0 4656.0 0
MA0846.2_shift1 (FOXC2)				; oligos_7nt_mkv2_m5 versus MA0846.2 (FOXC2); m=8/15; ncol2=11; w=-1; offset=-1; strand=D; shift=1; score=0.480167; -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 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 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 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 0
MA0899.2_shift5 (HOXA10)				; oligos_7nt_mkv2_m5 versus MA0899.2 (HOXA10); m=9/15; ncol2=9; w=0; offset=3; strand=D; shift=5; score=0.465526; -----gymATWAAa-- ; cor=; Ncor= a 0 0 0 0 0 2425.0 153.0 8381.0 8381.0 367.0 5960.0 8381.0 8381.0 8381.0 0 0 c 0 0 0 0 0 1757.0 3867.0 4516.0 455.0 11.0 84.0 36.0 568.0 2082.0 0 0 g 0 0 0 0 0 8381.0 59.0 1022.0 718.0 0.0 121.0 76.0 125.0 1560.0 0 0 t 0 0 0 0 0 1341.0 4515.0 957.0 267.0 8381.0 2422.0 384.0 331.0 2058.0 0 0
MA0851.2_shift4 (Foxj3)				; oligos_7nt_mkv2_m5 versus MA0851.2 (Foxj3); m=10/15; ncol2=9; w=0; offset=2; strand=D; shift=4; score=0.457648; ----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 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 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 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 0
MA1487.3_shift0 (FOXE1)				; oligos_7nt_mkv2_m5 versus MA1487.3 (FOXE1); m=11/15; ncol2=12; w=-2; offset=-2; strand=D; shift=0; score=0.454288; 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 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 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 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 0
MA0913.3_shift5 (HOXD9)				; oligos_7nt_mkv2_m5 versus MA0913.3 (HOXD9); m=12/15; ncol2=9; w=0; offset=3; strand=D; shift=5; score=0.451724; -----GymATAAAA-- ; cor=; Ncor= a 0 0 0 0 0 1300.0 0.0 16363.0 16363.0 215.0 16363.0 16363.0 16363.0 16363.0 0 0 c 0 0 0 0 0 872.0 9773.0 8643.0 226.0 0.0 8.0 0.0 0.0 2202.0 0 0 g 0 0 0 0 0 16363.0 42.0 675.0 439.0 0.0 0.0 0.0 0.0 1216.0 0 0 t 0 0 0 0 0 655.0 6590.0 927.0 4.0 16363.0 5445.0 123.0 0.0 2194.0 0 0
MA0040.2_rc_shift7 (Foxq1_rc)				; oligos_7nt_mkv2_m5 versus MA0040.2_rc (Foxq1_rc); m=13/15; ncol2=10; w=0; offset=5; strand=R; shift=7; score=0.449716; -------wATAAACAw ; cor=; Ncor= a 0 0 0 0 0 0 0 9.0 13.0 0.0 18.0 18.0 18.0 0.0 15.0 11.0 c 0 0 0 0 0 0 0 3.0 4.0 1.0 0.0 0.0 0.0 18.0 0.0 0.0 g 0 0 0 0 0 0 0 0.0 1.0 0.0 0.0 0.0 0.0 0.0 0.0 2.0 t 0 0 0 0 0 0 0 6.0 0.0 17.0 0.0 0.0 0.0 0.0 3.0 5.0
MA0465.3_shift5 (CDX2)				; oligos_7nt_mkv2_m5 versus MA0465.3 (CDX2); m=14/15; ncol2=8; w=0; offset=3; strand=D; shift=5; score=0.416771; -----GCAATAAA--- ; cor=; Ncor= a 0 0 0 0 0 3157.0 1226.0 26720.0 29957.0 274.0 29221.0 30645.0 30125.0 0 0 0 c 0 0 0 0 0 2096.0 26587.0 3312.0 414.0 391.0 761.0 349.0 595.0 0 0 0 g 0 0 0 0 0 24214.0 607.0 184.0 1196.0 386.0 999.0 366.0 502.0 0 0 0 t 0 0 0 0 0 2559.0 3606.0 1810.0 459.0 30975.0 1045.0 666.0 804.0 0 0 0
MA0650.4_shift5 (Hoxa13)				; oligos_7nt_mkv2_m5 versus MA0650.4 (Hoxa13); m=15/15; ncol2=8; w=0; offset=3; strand=D; shift=5; score=0.416384; -----CCAATAAA--- ; cor=; Ncor= a 0 0 0 0 0 1442.0 1273.0 14069.0 15410.0 105.0 15804.0 16813.0 16550.0 0 0 0 c 0 0 0 0 0 12600.0 14100.0 1594.0 243.0 249.0 205.0 125.0 306.0 0 0 0 g 0 0 0 0 0 1889.0 77.0 146.0 666.0 232.0 407.0 98.0 145.0 0 0 0 t 0 0 0 0 0 1317.0 1798.0 1439.0 929.0 16662.0 832.0 212.0 247.0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv2_m4_shift4 (oligos_7nt_mkv2_m4)				; oligos_7nt_mkv2_m4; m=0 (reference); ncol1=12; shift=4; ncol=16; ----syGCCTCCCCmv ; Alignment reference a 0 0 0 0 21 28 4 6 7 7 0 5 3 20 38 38 c 0 0 0 0 61 38 10 124 124 2 132 124 124 100 51 40 g 0 0 0 0 35 34 112 4 5 7 2 6 7 10 25 35 t 0 0 0 0 21 38 12 4 2 122 4 3 4 8 24 25
MA1961.2_rc_shift4 (PATZ1_rc)				; oligos_7nt_mkv2_m4 versus MA1961.2_rc (PATZ1_rc); m=1/15; ncol2=11; w=0; offset=0; strand=R; shift=4; score=0.65429; ----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 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 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 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 0
MA1653.2_shift5 (ZNF148)				; oligos_7nt_mkv2_m4 versus MA1653.2 (ZNF148); m=2/15; ncol2=10; w=0; offset=1; strand=D; shift=5; score=0.650817; -----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 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 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 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 0
MA1596.1_shift0 (ZNF460)				; oligos_7nt_mkv2_m4 versus MA1596.1 (ZNF460); m=3/15; ncol2=16; w=-4; offset=-4; strand=D; shift=0; score=0.634781; rCCTCmGCCTCCCrrG ; 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 12.0 516.0 987.0 243.0 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 1533.0 110.0 175.0 158.0 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 1147.0 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 64.0
MA1630.3_rc_shift5 (ZNF281_rc)				; oligos_7nt_mkv2_m4 versus MA1630.3_rc (ZNF281_rc); m=4/15; ncol2=10; w=0; offset=1; strand=R; shift=5; score=0.631174; -----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 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 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 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 0
MA1627.2_shift7 (Wt1)				; oligos_7nt_mkv2_m4 versus MA1627.2 (Wt1); m=5/15; ncol2=10; w=0; offset=3; strand=D; shift=7; score=0.623547; -------cCTCCCCCA ; 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 3294.0 c 0 0 0 0 0 0 0 2948.0 4546.0 69.0 4602.0 4354.0 4252.0 3636.0 4573.0 53.0 g 0 0 0 0 0 0 0 404.0 58.0 319.0 42.0 75.0 120.0 101.0 46.0 990.0 t 0 0 0 0 0 0 0 500.0 39.0 4183.0 26.0 222.0 276.0 104.0 41.0 354.0
MA0079.5_rc_shift5 (SP1_rc)				; oligos_7nt_mkv2_m4 versus MA0079.5_rc (SP1_rc); m=6/15; ncol2=9; w=0; offset=1; strand=R; shift=5; score=0.568774; -----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 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 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 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 0
MA2099.1_shift4 (ZNF770)				; oligos_7nt_mkv2_m4 versus MA2099.1 (ZNF770); m=7/15; ncol2=8; w=0; offset=0; strand=D; shift=4; score= 0.5561; ----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 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 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 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 0
MA0685.2_rc_shift5 (SP4_rc)				; oligos_7nt_mkv2_m4 versus MA0685.2_rc (SP4_rc); m=8/15; ncol2=9; w=0; offset=1; strand=R; shift=5; score=0.542222; -----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 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 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 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 0
MA0753.3_shift7 (ZNF740)				; oligos_7nt_mkv2_m4 versus MA0753.3 (ZNF740); m=9/15; ncol2=10; w=0; offset=3; strand=D; shift=7; score=0.519494; -------CCCCCCCCA ; cor=; Ncor= a 0 0 0 0 0 0 0 60.0 110.0 18.0 22.0 23.0 10.0 2.0 115.0 1055.0 c 0 0 0 0 0 0 0 1055.0 1055.0 1055.0 1055.0 1055.0 1055.0 1055.0 1055.0 239.0 g 0 0 0 0 0 0 0 37.0 14.0 4.0 7.0 3.0 7.0 3.0 6.0 68.0 t 0 0 0 0 0 0 0 49.0 1.0 16.0 15.0 11.0 6.0 3.0 4.0 134.0
MA1522.2_shift5 (MAZ)				; oligos_7nt_mkv2_m4 versus MA1522.2 (MAZ); m=10/15; ncol2=8; w=0; offset=1; strand=D; shift=5; score=0.505497; -----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 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 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 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 0
MA1965.2_shift7 (SP5)				; oligos_7nt_mkv2_m4 versus MA1965.2 (SP5); m=11/15; ncol2=6; w=0; offset=3; strand=D; shift=7; score=0.499549; -------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 0 c 0 0 0 0 0 0 0 20683.0 20286.0 0.0 20649.0 20451.0 20604.0 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 0 t 0 0 0 0 0 0 0 4.0 0.0 20465.0 0.0 0.0 0.0 0 0 0
MA0528.3_rc_shift6 (ZNF263_rc)				; oligos_7nt_mkv2_m4 versus MA0528.3_rc (ZNF263_rc); m=12/15; ncol2=7; w=0; offset=2; strand=R; shift=6; score=0.490099; ------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 0 c 0 0 0 0 0 0 1448.0 52741.0 52875.0 163.0 53435.0 52818.0 51804.0 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 0 t 0 0 0 0 0 0 52499.0 695.0 830.0 53900.0 950.0 789.0 1610.0 0 0 0
MA1723.2_rc_shift1 (PRDM9_rc)				; oligos_7nt_mkv2_m4 versus MA1723.2_rc (PRDM9_rc); m=13/15; ncol2=20; w=-3; offset=-3; strand=R; shift=1; score=0.447116; -yTkyykCCyCCcTkc ; 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 11.0 107.0 213.0 c 0 572.0 169.0 107.0 441.0 274.0 204.0 976.0 993.0 344.0 932.0 853.0 529.0 204.0 213.0 485.0 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 11.0 379.0 169.0 t 0 318.0 783.0 265.0 371.0 397.0 353.0 20.0 2.0 450.0 29.0 125.0 160.0 774.0 300.0 134.0
MA1578.2_shift10 (VEZF1)				; oligos_7nt_mkv2_m4 versus MA1578.2 (VEZF1); m=14/15; ncol2=6; w=0; offset=6; strand=D; shift=10; score=0.413222; ----------CCCCCC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 71.0 1.0 4.0 2.0 6.0 10.0 c 0 0 0 0 0 0 0 0 0 0 790.0 997.0 995.0 997.0 989.0 977.0 g 0 0 0 0 0 0 0 0 0 0 137.0 0.0 0.0 0.0 0.0 3.0 t 0 0 0 0 0 0 0 0 0 0 0.0 0.0 0.0 0.0 4.0 8.0
MA1710.2_rc_shift1 (ZNF257_rc)				; oligos_7nt_mkv2_m4 versus MA1710.2_rc (ZNF257_rc); m=15/15; ncol2=10; w=-3; offset=-3; strand=R; shift=1; score=0.407295; -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 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 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 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 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv2_m5_shift1 (oligos_6nt_mkv2_m5)				; oligos_6nt_mkv2_m5; m=0 (reference); ncol1=13; shift=1; ncol=14; -ssAGGCTGGGcmg ; Alignment reference a 0 15 17 76 1 1 2 3 3 1 2 10 25 23 c 0 33 40 7 7 10 84 3 1 4 6 56 25 22 g 0 31 25 6 84 79 4 5 87 83 78 16 21 26 t 0 14 11 4 1 3 3 82 2 5 7 11 22 22
MA2121.1_rc_shift0 (ZNF213_rc)				; oligos_6nt_mkv2_m5 versus MA2121.1_rc (ZNF213_rc); m=1/7; ncol2=12; w=-1; offset=-1; strand=R; shift=0; score=0.625268; ysCwGCCTGGGc-- ; cor=; Ncor= a 55.0 47.0 50.0 237.0 7.0 11.0 3.0 22.0 8.0 32.0 28.0 76.0 0 0 c 330.0 260.0 519.0 124.0 22.0 639.0 661.0 54.0 34.0 34.0 52.0 403.0 0 0 g 86.0 319.0 76.0 97.0 642.0 25.0 13.0 34.0 630.0 603.0 581.0 89.0 0 0 t 216.0 61.0 42.0 229.0 16.0 12.0 10.0 577.0 15.0 18.0 26.0 119.0 0 0
MA2341.1_rc_shift3 (FEZF2_rc)				; oligos_6nt_mkv2_m5 versus MA2341.1_rc (FEZF2_rc); m=2/7; ncol2=8; w=0; offset=2; strand=R; shift=3; score=0.609709; ---AGGCTGGG--- ; cor=; Ncor= a 0 0 0 233.0 9.0 5.0 0.0 5.0 3.0 45.0 36.0 0 0 0 c 0 0 0 8.0 2.0 28.0 251.0 14.0 0.0 9.0 10.0 0 0 0 g 0 0 0 10.0 247.0 224.0 8.0 15.0 258.0 206.0 202.0 0 0 0 t 0 0 0 14.0 7.0 8.0 6.0 231.0 4.0 5.0 17.0 0 0 0
MA1656.2_rc_shift4 (ZNF449_rc)				; oligos_6nt_mkv2_m5 versus MA1656.2_rc (ZNF449_rc); m=3/7; ncol2=10; w=0; offset=3; strand=R; shift=4; score=0.587647; ----gGTTGGGCTt ; cor=; Ncor= a 0 0 0 0 1015.0 65.0 115.0 327.0 59.0 28.0 111.0 92.0 615.0 303.0 c 0 0 0 0 473.0 167.0 829.0 182.0 54.0 28.0 322.0 7368.0 224.0 1463.0 g 0 0 0 0 5029.0 7244.0 96.0 300.0 7479.0 7540.0 7088.0 92.0 582.0 1759.0 t 0 0 0 0 1143.0 184.0 6620.0 6851.0 68.0 64.0 139.0 108.0 6239.0 4135.0
MA2125.1_rc_shift4 (Zfp809_rc)				; oligos_6nt_mkv2_m5 versus MA2125.1_rc (Zfp809_rc); m=4/7; ncol2=9; w=0; offset=3; strand=R; shift=4; score=0.579835; ----gGCTGGGAw- ; cor=; Ncor= a 0 0 0 0 242.0 61.0 26.0 37.0 18.0 21.0 25.0 1578.0 690.0 0 c 0 0 0 0 115.0 99.0 1572.0 73.0 16.0 14.0 18.0 23.0 81.0 0 g 0 0 0 0 1091.0 1218.0 35.0 26.0 1621.0 1610.0 1607.0 41.0 66.0 0 t 0 0 0 0 217.0 287.0 32.0 1529.0 10.0 20.0 15.0 23.0 828.0 0
MA1986.2_rc_shift6 (ZNF692_rc)				; oligos_6nt_mkv2_m5 versus MA1986.2_rc (ZNF692_rc); m=5/7; ncol2=8; w=0; offset=5; strand=R; shift=6; score=0.491428; ------sTGGGCCc ; cor=; Ncor= a 0 0 0 0 0 0 1192.0 0.0 21.0 17.0 22.0 26.0 13.0 1195.0 c 0 0 0 0 0 0 3703.0 210.0 176.0 241.0 7.0 10684.0 10642.0 6833.0 g 0 0 0 0 0 0 4998.0 0.0 10545.0 10446.0 10689.0 4.0 90.0 1314.0 t 0 0 0 0 0 0 852.0 10535.0 3.0 41.0 27.0 31.0 0.0 1403.0
MA2099.1_rc_shift1 (ZNF770_rc)				; oligos_6nt_mkv2_m5 versus MA2099.1_rc (ZNF770_rc); m=6/7; ncol2=8; w=0; offset=0; strand=R; shift=1; score=0.469977; -kGAGGCyG----- ; cor=; Ncor= a 0 724.0 56.0 13889.0 65.0 156.0 126.0 387.0 1052.0 0 0 0 0 0 c 0 485.0 86.0 215.0 133.0 681.0 13947.0 9119.0 374.0 0 0 0 0 0 g 0 3865.0 14154.0 140.0 14096.0 13393.0 79.0 857.0 12613.0 0 0 0 0 0 t 0 9257.0 35.0 87.0 37.0 101.0 179.0 3968.0 292.0 0 0 0 0 0
MA0039.5_rc_shift4 (KLF4_rc)				; oligos_6nt_mkv2_m5 versus MA0039.5_rc (KLF4_rc); m=7/7; ncol2=8; w=0; offset=3; strand=R; shift=4; score=0.433671; ----GGGTGGGG-- ; cor=; Ncor= a 0 0 0 0 2565.0 1218.0 1129.0 3456.0 976.0 1969.0 4633.0 2560.0 0 0 c 0 0 0 0 1005.0 1870.0 1470.0 6598.0 793.0 1422.0 1214.0 1583.0 0 0 g 0 0 0 0 51045.0 51112.0 52366.0 161.0 52875.0 45405.0 47865.0 49209.0 0 0 t 0 0 0 0 1202.0 1617.0 852.0 45602.0 1173.0 7021.0 2105.0 2465.0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv2_m4_shift1 (oligos_6nt_mkv2_m4)				; oligos_6nt_mkv2_m4; m=0 (reference); ncol1=12; shift=1; ncol=13; -sscCGCCGCGss ; Alignment reference a 0 17 9 16 4 11 4 5 6 4 5 17 11 c 0 49 37 60 97 8 97 88 3 101 14 37 49 g 0 34 56 20 9 91 8 16 100 6 87 46 40 t 0 14 12 18 4 4 5 5 5 3 8 14 14
MA1713.2_shift3 (ZNF610)				; oligos_6nt_mkv2_m4 versus MA1713.2 (ZNF610); m=1/7; ncol2=10; w=0; offset=2; strand=D; shift=3; score=0.616738; ---scGCCGCTCC ; cor=; Ncor= a 0 0 0 176.0 354.0 68.0 37.0 18.0 18.0 4.0 18.0 6.0 123.0 c 0 0 0 1222.0 1347.0 121.0 2245.0 2312.0 45.0 2357.0 34.0 2315.0 1976.0 g 0 0 0 738.0 392.0 2118.0 84.0 41.0 2312.0 21.0 45.0 62.0 186.0 t 0 0 0 250.0 293.0 79.0 20.0 15.0 11.0 4.0 2289.0 3.0 101.0
MA2328.1_shift2 (ZBED4)				; oligos_6nt_mkv2_m4 versus MA2328.1 (ZBED4); m=2/7; ncol2=10; w=0; offset=1; strand=D; shift=2; score=0.588425; --CcCGCyCCGC- ; cor=; Ncor= a 0 0 41.0 26.0 29.0 17.0 6.0 11.0 14.0 12.0 22.0 19.0 0 c 0 0 479.0 419.0 549.0 14.0 621.0 391.0 598.0 604.0 19.0 589.0 0 g 0 0 80.0 65.0 62.0 608.0 26.0 28.0 34.0 23.0 580.0 35.0 0 t 0 0 60.0 150.0 20.0 21.0 7.0 230.0 14.0 21.0 39.0 17.0 0
MA0516.3_rc_shift1 (SP2_rc)				; oligos_6nt_mkv2_m4 versus MA0516.3_rc (SP2_rc); m=3/7; ncol2=9; w=0; offset=0; strand=R; shift=1; score=0.532693; -cCCCGCCCC--- ; cor=; Ncor= a 0 18.3284 0.733138 24.1935 0.733138 0.733138 0.733138 0.733138 0.733138 79.912 0 0 0 c 0 610.704 877.566 974.34 997.801 0.733138 997.801 997.801 830.645 766.129 0 0 0 g 0 164.956 0.733138 0.733138 0.733138 886.364 0.733138 0.733138 0.733138 0.733138 0 0 0 t 0 206.012 120.968 0.733138 0.733138 112.17 0.733138 0.733138 167.889 153.226 0 0 0
MA1721.2_rc_shift3 (ZNF93_rc)				; oligos_6nt_mkv2_m4 versus MA1721.2_rc (ZNF93_rc); m=4/7; ncol2=14; w=0; offset=2; strand=R; shift=3; score=0.453681; ---CCGCTGCyGm ; cor=; Ncor= a 0 0 0 37.0 126.0 44.0 10.0 57.0 44.0 10.0 32.0 50.0 730.0 c 0 0 0 2145.0 1784.0 33.0 2328.0 576.0 42.0 2334.0 1263.0 22.0 1483.0 g 0 0 0 134.0 138.0 2292.0 20.0 96.0 2279.0 26.0 92.0 2278.0 114.0 t 0 0 0 72.0 340.0 19.0 30.0 1659.0 23.0 18.0 1001.0 38.0 61.0
MA1727.2_rc_shift1 (ZNF417_rc)				; oligos_6nt_mkv2_m4 versus MA1727.2_rc (ZNF417_rc); m=5/7; ncol2=7; w=0; offset=0; strand=R; shift=1; score=0.413548; -TGGCGCC----- ; cor=; Ncor= a 0 1.0 13.0 7.0 1.0 55.0 1.0 1.0 0 0 0 0 0 c 0 1.0 1.0 1.0 996.0 1.0 996.0 996.0 0 0 0 0 0 g 0 13.0 954.0 990.0 1.0 936.0 1.0 1.0 0 0 0 0 0 t 0 984.0 31.0 1.0 1.0 7.0 1.0 1.0 0 0 0 0 0
MA0471.3_rc_shift0 (E2F6_rc)				; oligos_6nt_mkv2_m4 versus MA0471.3_rc (E2F6_rc); m=6/7; ncol2=8; w=-1; offset=-1; strand=R; shift=0; score=0.409607; TTCCCGCC----- ; cor=; Ncor= a 757.0 268.0 296.0 353.0 813.0 2125.0 205.0 453.0 0 0 0 0 0 c 5021.0 2322.0 31614.0 31973.0 30573.0 693.0 31790.0 29387.0 0 0 0 0 0 g 1595.0 1171.0 834.0 434.0 539.0 26424.0 837.0 1148.0 0 0 0 0 0 t 25725.0 29337.0 354.0 338.0 1173.0 3856.0 266.0 2110.0 0 0 0 0 0
MA1650.2_shift6 (ZBTB14)				; oligos_6nt_mkv2_m4 versus MA1650.2 (ZBTB14); m=7/7; ncol2=8; w=0; offset=5; strand=D; shift=6; score=0.409158; ------CCGCGCA ; cor=; Ncor= a 0 0 0 0 0 0 335.0 41.0 93.0 68.0 132.0 56.0 4500.0 c 0 0 0 0 0 0 3525.0 4292.0 294.0 4078.0 305.0 4178.0 37.0 g 0 0 0 0 0 0 614.0 155.0 4098.0 319.0 4043.0 261.0 10.0 t 0 0 0 0 0 0 73.0 59.0 62.0 82.0 67.0 52.0 0.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv2_m3_shift3 (oligos_7nt_mkv2_m3)				; oligos_7nt_mkv2_m3; m=0 (reference); ncol1=13; shift=3; ncol=16; ---sssAGGCTGGggb ; Alignment reference a 0 0 0 19 20 11 110 2 1 5 8 3 11 29 31 18 c 0 0 0 42 39 32 8 5 1 115 5 3 4 12 27 36 g 0 0 0 41 42 75 4 114 122 4 7 119 109 67 53 34 t 0 0 0 24 25 8 4 5 2 2 106 1 2 18 15 38
MA1596.1_rc_shift0 (ZNF460_rc)				; oligos_7nt_mkv2_m3 versus MA1596.1_rc (ZNF460_rc); m=1/6; ncol2=16; w=-3; offset=-3; strand=R; shift=0; score=0.612985; CyyGGGAGGCkGAGGy ; cor=; Ncor= a 64.0 29.0 56.0 40.0 9.0 10.0 1570.0 6.0 11.0 35.0 85.0 29.0 1284.0 66.0 114.0 46.0 c 1147.0 421.0 930.0 27.0 15.0 15.0 17.0 9.0 7.0 1493.0 181.0 47.0 83.0 67.0 185.0 1023.0 g 158.0 175.0 110.0 1533.0 1583.0 1584.0 12.0 1596.0 1588.0 23.0 495.0 1519.0 218.0 1460.0 1264.0 131.0 t 243.0 987.0 516.0 12.0 5.0 3.0 13.0 1.0 6.0 61.0 851.0 17.0 27.0 19.0 49.0 412.0
MA2341.1_rc_shift6 (FEZF2_rc)				; oligos_7nt_mkv2_m3 versus MA2341.1_rc (FEZF2_rc); m=2/6; ncol2=8; w=0; offset=3; strand=R; shift=6; score=0.606407; ------AGGCTGGG-- ; cor=; Ncor= a 0 0 0 0 0 0 233.0 9.0 5.0 0.0 5.0 3.0 45.0 36.0 0 0 c 0 0 0 0 0 0 8.0 2.0 28.0 251.0 14.0 0.0 9.0 10.0 0 0 g 0 0 0 0 0 0 10.0 247.0 224.0 8.0 15.0 258.0 206.0 202.0 0 0 t 0 0 0 0 0 0 14.0 7.0 8.0 6.0 231.0 4.0 5.0 17.0 0 0
MA2125.1_rc_shift7 (Zfp809_rc)				; oligos_7nt_mkv2_m3 versus MA2125.1_rc (Zfp809_rc); m=3/6; ncol2=9; w=0; offset=4; strand=R; shift=7; score=0.581645; -------gGCTGGGAw ; cor=; Ncor= a 0 0 0 0 0 0 0 242.0 61.0 26.0 37.0 18.0 21.0 25.0 1578.0 690.0 c 0 0 0 0 0 0 0 115.0 99.0 1572.0 73.0 16.0 14.0 18.0 23.0 81.0 g 0 0 0 0 0 0 0 1091.0 1218.0 35.0 26.0 1621.0 1610.0 1607.0 41.0 66.0 t 0 0 0 0 0 0 0 217.0 287.0 32.0 1529.0 10.0 20.0 15.0 23.0 828.0
MA2121.1_shift2 (ZNF213)				; oligos_7nt_mkv2_m3 versus MA2121.1 (ZNF213); m=4/6; ncol2=12; w=-1; offset=-1; strand=D; shift=2; score=0.574449; --gCCCAGGCwGsr-- ; cor=; Ncor= a 0 0 119.0 26.0 18.0 15.0 577.0 10.0 12.0 16.0 229.0 42.0 61.0 216.0 0 0 c 0 0 89.0 581.0 603.0 630.0 34.0 13.0 25.0 642.0 97.0 76.0 319.0 86.0 0 0 g 0 0 403.0 52.0 34.0 34.0 54.0 661.0 639.0 22.0 124.0 519.0 260.0 330.0 0 0 t 0 0 76.0 28.0 32.0 8.0 22.0 3.0 11.0 7.0 237.0 50.0 47.0 55.0 0 0
MA2099.1_rc_shift4 (ZNF770_rc)				; oligos_7nt_mkv2_m3 versus MA2099.1_rc (ZNF770_rc); m=5/6; ncol2=8; w=0; offset=1; strand=R; shift=4; score=0.524881; ----kGAGGCyG---- ; cor=; Ncor= a 0 0 0 0 724.0 56.0 13889.0 65.0 156.0 126.0 387.0 1052.0 0 0 0 0 c 0 0 0 0 485.0 86.0 215.0 133.0 681.0 13947.0 9119.0 374.0 0 0 0 0 g 0 0 0 0 3865.0 14154.0 140.0 14096.0 13393.0 79.0 857.0 12613.0 0 0 0 0 t 0 0 0 0 9257.0 35.0 87.0 37.0 101.0 179.0 3968.0 292.0 0 0 0 0
MA0039.5_rc_shift7 (KLF4_rc)				; oligos_7nt_mkv2_m3 versus MA0039.5_rc (KLF4_rc); m=6/6; ncol2=8; w=0; offset=4; strand=R; shift=7; score=0.456995; -------GGGTGGGG- ; cor=; Ncor= a 0 0 0 0 0 0 0 2565.0 1218.0 1129.0 3456.0 976.0 1969.0 4633.0 2560.0 0 c 0 0 0 0 0 0 0 1005.0 1870.0 1470.0 6598.0 793.0 1422.0 1214.0 1583.0 0 g 0 0 0 0 0 0 0 51045.0 51112.0 52366.0 161.0 52875.0 45405.0 47865.0 49209.0 0 t 0 0 0 0 0 0 0 1202.0 1617.0 852.0 45602.0 1173.0 7021.0 2105.0 2465.0 0