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.2025-05-16.174600_2025-05-16.174600_au3zWU/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.2025-05-16.174600_2025-05-16.174600_au3zWU/results/discovered_vs_db/peak-motifs_motifs_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.tab

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m2_shift4 ; 37 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m2_shift4 (oligos_7nt_mkv2_m2)
; oligos_7nt_mkv2_m2; m=0 (reference); ncol1=11; shift=4; ncol=15; ----mwAAACAAAwh ; Alignment reference a 0 0 0 0 9 17 31 30 29 0 32 34 30 14 10 c 0 0 0 0 14 3 0 1 2 34 2 0 4 3 13 g 0 0 0 0 7 5 0 1 1 0 0 0 0 3 2 t 0 0 0 0 4 9 3 2 2 0 0 0 0 14 9

MA0847.4_shift4 (FOXD2)
; oligos_7nt_mkv2_m2 versus MA0847.4 (FOXD2); m=1/36; ncol2=11; w=0; offset=0; strand=D; shift=4; score=0.736369; ----yTAAryAAACA ; cor=; Ncor= a 0 0 0 0 219.0 480.0 2484.0 2484.0 2484.0 84.0 2484.0 2484.0 2484.0 0.0 2484.0 c 0 0 0 0 906.0 19.0 16.0 285.0 23.0 1342.0 81.0 23.0 0.0 2484.0 24.0 g 0 0 0 0 131.0 0.0 137.0 292.0 1615.0 3.0 0.0 18.0 5.0 0.0 34.0 t 0 0 0 0 1578.0 2004.0 0.0 262.0 4.0 1141.0 79.0 1.0 2.0 768.0 232.0

MA0851.2_shift4 (Foxj3)
; oligos_7nt_mkv2_m2 versus MA0851.2 (Foxj3); m=2/36; ncol2=9; w=0; offset=0; strand=D; shift=4; score=0.681655; ----RTAAACAAw-- ; cor=; Ncor= a 0 0 0 0 30.0 1.0 91.0 96.0 99.0 0.0 99.0 79.0 57.0 0 0 c 0 0 0 0 1.0 2.0 8.0 2.0 0.0 81.0 0.0 7.0 9.0 0 0 g 0 0 0 0 68.0 0.0 0.0 0.0 0.0 0.0 0.0 6.0 7.0 0 0 t 0 0 0 0 0.0 97.0 0.0 3.0 1.0 18.0 1.0 9.0 27.0 0 0

MA1489.1_shift4 (FOXN3)
; oligos_7nt_mkv2_m2 versus MA1489.1 (FOXN3); m=3/36; ncol2=8; w=0; offset=0; strand=D; shift=4; score=0.610794; ----GTAAACAA--- ; cor=; Ncor= a 0 0 0 0 9.0 9.0 971.0 971.0 971.0 9.0 971.0 971.0 0 0 0 c 0 0 0 0 9.0 9.0 9.0 9.0 9.0 971.0 9.0 9.0 0 0 0 g 0 0 0 0 971.0 9.0 9.0 9.0 9.0 9.0 9.0 9.0 0 0 0 t 0 0 0 0 9.0 971.0 9.0 9.0 9.0 9.0 9.0 9.0 0 0 0

MA0614.1_shift4 (Foxj2)
; oligos_7nt_mkv2_m2 versus MA0614.1 (Foxj2); m=4/36; ncol2=8; w=0; offset=0; strand=D; shift=4; score=0.609853; ----rTAAACAa--- ; cor=; Ncor= a 0 0 0 0 461.0 50.0 795.0 977.0 999.0 0.0 999.0 593.0 0 0 0 c 0 0 0 0 0.0 25.0 205.0 0.0 0.0 954.0 0.0 125.0 0 0 0 g 0 0 0 0 538.0 0.0 0.0 0.0 0.0 0.0 0.0 125.0 0 0 0 t 0 0 0 0 0.0 924.0 0.0 22.0 0.0 46.0 0.0 156.0 0 0 0

MA0867.3_shift7 (SOX4)
; oligos_7nt_mkv2_m2 versus MA0867.3 (SOX4); m=5/36; ncol2=8; w=0; offset=3; strand=D; shift=7; score=0.601139; -------aACAAwGr ; cor=; Ncor= a 0 0 0 0 0 0 0 5582.0 5582.0 0.0 5582.0 5582.0 5582.0 1018.0 2093.0 c 0 0 0 0 0 0 0 951.0 0.0 5582.0 1.0 6.0 120.0 64.0 1422.0 g 0 0 0 0 0 0 0 2047.0 0.0 37.0 6.0 11.0 50.0 5582.0 3489.0 t 0 0 0 0 0 0 0 431.0 9.0 33.0 0.0 0.0 2719.0 83.0 174.0

MA0613.1_shift4 (FOXG1)
; oligos_7nt_mkv2_m2 versus MA0613.1 (FOXG1); m=6/36; ncol2=8; w=0; offset=0; strand=D; shift=4; score=0.594963; ----rTAAACAw--- ; cor=; Ncor= a 0 0 0 0 374.0 1.0 997.0 997.0 997.0 1.0 997.0 498.0 0 0 0 c 0 0 0 0 1.0 1.0 1.0 1.0 1.0 997.0 1.0 167.0 0 0 0 g 0 0 0 0 623.0 1.0 1.0 1.0 1.0 1.0 1.0 2.0 0 0 0 t 0 0 0 0 1.0 997.0 1.0 1.0 1.0 1.0 1.0 333.0 0 0 0

MA0041.3_shift1 (FOXD3)
; oligos_7nt_mkv2_m2 versus MA0041.3 (FOXD3); m=7/36; ncol2=14; w=-3; offset=-3; strand=D; shift=1; score=0.563461; -wawrhAAAYAAACa ; cor=; Ncor= a 0 86.0 120.0 91.0 56.0 99.0 171.0 171.0 171.0 0.0 171.0 171.0 171.0 13.0 125.0 c 0 22.0 17.0 45.0 17.0 109.0 37.0 8.0 1.0 43.0 4.0 11.0 17.0 171.0 20.0 g 0 13.0 52.0 45.0 115.0 8.0 1.0 0.0 7.0 0.0 2.0 8.0 20.0 13.0 30.0 t 0 85.0 22.0 81.0 10.0 171.0 2.0 7.0 2.0 128.0 7.0 11.0 35.0 30.0 47.0

MA1125.2_shift6 (ZNF384)
; oligos_7nt_mkv2_m2 versus MA1125.2 (ZNF384); m=8/36; ncol2=8; w=0; offset=2; strand=D; shift=6; score=0.551798; ------AAAAAAaa- ; cor=; Ncor= a 0 0 0 0 0 0 30354.0 30191.0 30072.0 30252.0 30202.0 30406.0 20322.0 18916.0 0 c 0 0 0 0 0 0 7.0 35.0 21.0 13.0 26.0 6.0 2908.0 3963.0 0 g 0 0 0 0 0 0 13.0 19.0 26.0 15.0 14.0 0.0 2767.0 2898.0 0 t 0 0 0 0 0 0 59.0 188.0 314.0 153.0 191.0 21.0 4436.0 4656.0 0

MA0030.2_shift3 (FOXF2)
; oligos_7nt_mkv2_m2 versus MA0030.2 (FOXF2); m=9/36; ncol2=9; w=-1; offset=-1; strand=D; shift=3; score=0.548861; ---sRTAAACAa--- ; cor=; Ncor= a 0 0 0 3.0 7.0 0.0 27.0 27.0 27.0 0.0 27.0 16.0 0 0 0 c 0 0 0 11.0 0.0 0.0 0.0 0.0 0.0 25.0 0.0 4.0 0 0 0 g 0 0 0 8.0 20.0 0.0 0.0 0.0 0.0 0.0 0.0 2.0 0 0 0 t 0 0 0 0.0 0.0 27.0 0.0 0.0 0.0 2.0 0.0 5.0 0 0 0

MA1606.2_shift4 (Foxf1)
; oligos_7nt_mkv2_m2 versus MA1606.2 (Foxf1); m=10/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.547217; ----rTAAACA---- ; cor=; Ncor= a 0 0 0 0 18534.0 568.0 57293.0 53942.0 57167.0 437.0 56436.0 0 0 0 0 c 0 0 0 0 3754.0 446.0 899.0 2249.0 475.0 54394.0 745.0 0 0 0 0 g 0 0 0 0 33599.0 1158.0 445.0 811.0 1067.0 522.0 443.0 0 0 0 0 t 0 0 0 0 3653.0 57368.0 903.0 2538.0 831.0 4187.0 1916.0 0 0 0 0

MA0040.2_rc_shift3 (Foxq1_rc)
; oligos_7nt_mkv2_m2 versus MA0040.2_rc (Foxq1_rc); m=11/36; ncol2=10; w=-1; offset=-1; strand=R; shift=3; score=0.545311; ---wATAAACAwT-- ; cor=; Ncor= a 0 0 0 9.0 13.0 0.0 18.0 18.0 18.0 0.0 15.0 11.0 1.0 0 0 c 0 0 0 3.0 4.0 1.0 0.0 0.0 0.0 18.0 0.0 0.0 3.0 0 0 g 0 0 0 0.0 1.0 0.0 0.0 0.0 0.0 0.0 0.0 2.0 1.0 0 0 t 0 0 0 6.0 0.0 17.0 0.0 0.0 0.0 0.0 3.0 5.0 13.0 0 0

MA0084.2_shift6 (SRY)
; oligos_7nt_mkv2_m2 versus MA0084.2 (SRY); m=12/36; ncol2=7; w=0; offset=2; strand=D; shift=6; score=0.539527; ------waACAAw-- ; cor=; Ncor= a 0 0 0 0 0 0 15.0 18.0 25.0 0.0 28.0 27.0 7.0 0 0 c 0 0 0 0 0 0 0.0 3.0 0.0 26.0 0.0 0.0 0.0 0 0 g 0 0 0 0 0 0 3.0 3.0 0.0 0.0 0.0 1.0 2.0 0 0 t 0 0 0 0 0 0 10.0 4.0 3.0 2.0 0.0 0.0 19.0 0 0

MA0157.4_shift4 (Foxo3)
; oligos_7nt_mkv2_m2 versus MA0157.4 (Foxo3); m=13/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.537707; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 3470.0 1546.0 22240.0 22288.0 22551.0 403.0 22141.0 0 0 0 0 c 0 0 0 0 590.0 435.0 968.0 803.0 483.0 21237.0 587.0 0 0 0 0 g 0 0 0 0 19202.0 1199.0 328.0 333.0 464.0 361.0 361.0 0 0 0 0 t 0 0 0 0 650.0 20732.0 376.0 488.0 414.0 1911.0 823.0 0 0 0 0

MA0852.3_shift4 (FOXK1)
; oligos_7nt_mkv2_m2 versus MA0852.3 (FOXK1); m=14/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.537236; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 143.0 60.0 1003.0 999.0 1022.0 10.0 1015.0 0 0 0 0 c 0 0 0 0 28.0 5.0 37.0 37.0 13.0 958.0 16.0 0 0 0 0 g 0 0 0 0 868.0 44.0 10.0 11.0 10.0 12.0 12.0 0 0 0 0 t 0 0 0 0 17.0 947.0 6.0 9.0 11.0 76.0 13.0 0 0 0 0

MA0480.3_shift4 (Foxo1)
; oligos_7nt_mkv2_m2 versus MA0480.3 (Foxo1); m=15/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.537053; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 1411.0 945.0 12408.0 12663.0 12972.0 293.0 13332.0 0 0 0 0 c 0 0 0 0 481.0 555.0 934.0 849.0 387.0 12710.0 277.0 0 0 0 0 g 0 0 0 0 11670.0 1025.0 478.0 384.0 508.0 356.0 153.0 0 0 0 0 t 0 0 0 0 554.0 11591.0 296.0 220.0 249.0 757.0 354.0 0 0 0 0

MA0850.1_shift4 (FOXP3)
; oligos_7nt_mkv2_m2 versus MA0850.1 (FOXP3); m=16/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.536547; ----rTAAACA---- ; cor=; Ncor= a 0 0 0 0 74.0 20.0 211.0 211.0 211.0 0.0 211.0 0 0 0 0 c 0 0 0 0 0.0 52.0 0.0 0.0 15.0 211.0 0.0 0 0 0 0 g 0 0 0 0 137.0 0.0 0.0 9.0 49.0 32.0 18.0 0 0 0 0 t 0 0 0 0 0.0 211.0 31.0 8.0 0.0 39.0 0.0 0 0 0 0

MA0869.3_shift6 (Sox11)
; oligos_7nt_mkv2_m2 versus MA0869.3 (Sox11); m=17/36; ncol2=8; w=0; offset=2; strand=D; shift=6; score=0.535674; ------GAACAAAG- ; cor=; Ncor= a 0 0 0 0 0 0 1014.0 7912.0 9856.0 119.0 10020.0 9676.0 9276.0 506.0 0 c 0 0 0 0 0 0 764.0 766.0 100.0 9471.0 108.0 264.0 61.0 148.0 0 g 0 0 0 0 0 0 8063.0 1298.0 211.0 501.0 49.0 248.0 233.0 9486.0 0 t 0 0 0 0 0 0 407.0 272.0 81.0 157.0 71.0 60.0 678.0 108.0 0

MA0033.2_shift4 (FOXL1)
; oligos_7nt_mkv2_m2 versus MA0033.2 (FOXL1); m=18/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.533705; ----rTAAACA---- ; cor=; Ncor= a 0 0 0 0 2102.0 10.0 4780.0 4780.0 4780.0 0.0 4780.0 0 0 0 0 c 0 0 0 0 13.0 416.0 628.0 38.0 82.0 3723.0 54.0 0 0 0 0 g 0 0 0 0 2678.0 0.0 57.0 0.0 50.0 0.0 0.0 0 0 0 0 t 0 0 0 0 140.0 4780.0 0.0 15.0 0.0 1057.0 17.0 0 0 0 0

MA0593.2_shift3 (FOXP2)
; oligos_7nt_mkv2_m2 versus MA0593.2 (FOXP2); m=19/36; ncol2=9; w=-1; offset=-1; strand=D; shift=3; score=0.532108; ---wGTAAACAr--- ; cor=; Ncor= a 0 0 0 340.0 160.0 59.0 766.0 766.0 766.0 0.0 766.0 297.0 0 0 0 c 0 0 0 7.0 0.0 0.0 0.0 0.0 0.0 757.0 0.0 154.0 0 0 0 g 0 0 0 142.0 606.0 0.0 0.0 0.0 0.0 0.0 0.0 293.0 0 0 0 t 0 0 0 277.0 0.0 707.0 0.0 0.0 0.0 9.0 0.0 22.0 0 0 0

MA1103.3_shift4 (FOXK2)
; oligos_7nt_mkv2_m2 versus MA1103.3 (FOXK2); m=20/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.528147; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 2697.0 360.0 15913.0 14387.0 15593.0 499.0 15709.0 0 0 0 0 c 0 0 0 0 551.0 210.0 277.0 1291.0 330.0 14282.0 295.0 0 0 0 0 g 0 0 0 0 12737.0 327.0 148.0 436.0 391.0 426.0 170.0 0 0 0 0 t 0 0 0 0 694.0 15782.0 341.0 565.0 365.0 1472.0 505.0 0 0 0 0

MA0848.1_shift4 (FOXO4)
; oligos_7nt_mkv2_m2 versus MA0848.1 (FOXO4); m=21/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.527251; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 1669.0 345.0 5378.0 5378.0 5378.0 58.0 5378.0 0 0 0 0 c 0 0 0 0 13.0 69.0 1259.0 146.0 0.0 5378.0 10.0 0 0 0 0 g 0 0 0 0 5378.0 123.0 32.0 19.0 90.0 33.0 10.0 0 0 0 0 t 0 0 0 0 0.0 5378.0 20.0 20.0 10.0 958.0 40.0 0 0 0 0

MA0849.1_shift4 (FOXO6)
; oligos_7nt_mkv2_m2 versus MA0849.1 (FOXO6); m=22/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.526175; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 1445.0 154.0 7025.0 7025.0 7025.0 0.0 7025.0 0 0 0 0 c 0 0 0 0 0.0 0.0 1147.0 195.0 0.0 7025.0 0.0 0 0 0 0 g 0 0 0 0 7025.0 32.0 7.0 0.0 0.0 31.0 13.0 0 0 0 0 t 0 0 0 0 0.0 7025.0 0.0 26.0 0.0 385.0 0.0 0 0 0 0

MA2117.1_shift4 (FOXP4)
; oligos_7nt_mkv2_m2 versus MA2117.1 (FOXP4); m=23/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.524932; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 2224.0 543.0 19122.0 19613.0 20280.0 379.0 20230.0 0 0 0 0 c 0 0 0 0 834.0 793.0 1545.0 1330.0 419.0 18349.0 443.0 0 0 0 0 g 0 0 0 0 17315.0 539.0 534.0 368.0 550.0 493.0 218.0 0 0 0 0 t 0 0 0 0 1294.0 19792.0 466.0 356.0 418.0 2446.0 776.0 0 0 0 0

MA0031.2_shift4 (FOXD1)
; oligos_7nt_mkv2_m2 versus MA0031.2 (FOXD1); m=24/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.522212; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 1.0 0.0 19.0 20.0 18.0 1.0 20.0 0 0 0 0 c 0 0 0 0 1.0 0.0 1.0 0.0 1.0 18.0 0.0 0 0 0 0 g 0 0 0 0 17.0 0.0 0.0 0.0 1.0 0.0 0.0 0 0 0 0 t 0 0 0 0 1.0 20.0 0.0 0.0 0.0 1.0 0.0 0 0 0 0

MA0481.4_shift4 (FOXP1)
; oligos_7nt_mkv2_m2 versus MA0481.4 (FOXP1); m=25/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.517501; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 10463.0 1209.0 69603.0 65236.0 70030.0 1336.0 68456.0 0 0 0 0 c 0 0 0 0 1573.0 727.0 2095.0 5067.0 1487.0 61094.0 1904.0 0 0 0 0 g 0 0 0 0 59571.0 920.0 1073.0 1830.0 1132.0 1493.0 749.0 0 0 0 0 t 0 0 0 0 3111.0 71862.0 1947.0 2585.0 2069.0 10795.0 3609.0 0 0 0 0

MA0042.2_shift4 (FOXI1)
; oligos_7nt_mkv2_m2 versus MA0042.2 (FOXI1); m=26/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.515876; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 618.0 74.0 5175.0 5175.0 5175.0 157.0 5175.0 0 0 0 0 c 0 0 0 0 39.0 60.0 540.0 23.0 23.0 5175.0 12.0 0 0 0 0 g 0 0 0 0 5175.0 35.0 37.0 0.0 29.0 48.0 25.0 0 0 0 0 t 0 0 0 0 0.0 5175.0 0.0 0.0 66.0 810.0 0.0 0 0 0 0

MA1683.2_shift4 (FOXA3)
; oligos_7nt_mkv2_m2 versus MA1683.2 (FOXA3); m=27/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.515274; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 4481.0 758.0 45178.0 43099.0 46046.0 951.0 45552.0 0 0 0 0 c 0 0 0 0 1464.0 903.0 1980.0 3883.0 973.0 39509.0 933.0 0 0 0 0 g 0 0 0 0 40396.0 690.0 636.0 977.0 934.0 1205.0 614.0 0 0 0 0 t 0 0 0 0 2596.0 46586.0 1143.0 978.0 984.0 7272.0 1838.0 0 0 0 0

MA1152.2_rc_shift8 (SOX15_rc)
; oligos_7nt_mkv2_m2 versus MA1152.2_rc (SOX15_rc); m=28/36; ncol2=7; w=0; offset=4; strand=R; shift=8; score=0.509842; --------ACAAwrr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 971.0 5.0 994.0 988.0 362.0 501.0 267.0 c 0 0 0 0 0 0 0 0 3.0 890.0 2.0 6.0 5.0 26.0 147.0 g 0 0 0 0 0 0 0 0 2.0 21.0 2.0 3.0 3.0 412.0 554.0 t 0 0 0 0 0 0 0 0 24.0 83.0 3.0 3.0 631.0 62.0 32.0

MA0868.3_shift7 (SOX8)
; oligos_7nt_mkv2_m2 versus MA0868.3 (SOX8); m=29/36; ncol2=7; w=0; offset=3; strand=D; shift=7; score=0.497133; -------AACAATr- ; cor=; Ncor= a 0 0 0 0 0 0 0 1827.0 1827.0 3.0 1827.0 1827.0 273.0 1356.0 0 c 0 0 0 0 0 0 0 151.0 0.0 1827.0 0.0 43.0 36.0 208.0 0 g 0 0 0 0 0 0 0 263.0 0.0 35.0 0.0 0.0 20.0 1827.0 0 t 0 0 0 0 0 0 0 222.0 45.0 70.0 16.0 36.0 1827.0 287.0 0

MA2118.1_shift3 (FOXS1)
; oligos_7nt_mkv2_m2 versus MA2118.1 (FOXS1); m=30/36; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.482163; ---tGTAAACA---- ; cor=; Ncor= a 0 0 0 66.0 36.0 13.0 345.0 345.0 361.0 9.0 356.0 0 0 0 0 c 0 0 0 20.0 8.0 15.0 15.0 16.0 3.0 322.0 5.0 0 0 0 0 g 0 0 0 49.0 323.0 12.0 5.0 8.0 5.0 7.0 3.0 0 0 0 0 t 0 0 0 239.0 7.0 334.0 9.0 5.0 5.0 36.0 10.0 0 0 0 0

MA1487.3_shift0 (FOXE1)
; oligos_7nt_mkv2_m2 versus MA1487.3 (FOXE1); m=31/36; ncol2=12; w=-4; offset=-4; strand=D; shift=0; score=0.477718; yTAARyAAACAa--- ; cor=; Ncor= a 86.0 581.0 3126.0 2547.0 2255.0 587.0 3126.0 3126.0 3126.0 0.0 3126.0 2026.0 0 0 0 c 1646.0 43.0 28.0 113.0 117.0 1062.0 362.0 90.0 0.0 3126.0 32.0 392.0 0 0 0 g 57.0 0.0 402.0 116.0 871.0 17.0 0.0 0.0 23.0 0.0 18.0 258.0 0 0 0 t 1479.0 2545.0 43.0 579.0 27.0 2064.0 20.0 53.0 9.0 85.0 110.0 450.0 0 0 0

MA0442.3_shift8 (SOX10)
; oligos_7nt_mkv2_m2 versus MA0442.3 (SOX10); m=32/36; ncol2=6; w=0; offset=4; strand=D; shift=8; score=0.46248; --------ACAAAG- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 2023.0 3.0 2029.0 1968.0 1959.0 10.0 0 c 0 0 0 0 0 0 0 0 4.0 1989.0 7.0 28.0 23.0 13.0 0 g 0 0 0 0 0 0 0 0 3.0 11.0 7.0 20.0 12.0 2012.0 0 t 0 0 0 0 0 0 0 0 25.0 52.0 12.0 39.0 61.0 20.0 0

MA0846.2_shift1 (FOXC2)
; oligos_7nt_mkv2_m2 versus MA0846.2 (FOXC2); m=33/36; ncol2=11; w=-3; offset=-3; strand=D; shift=1; score=0.461374; -wAwrTAAAYAw--- ; cor=; Ncor= a 0 8939.0 20456.0 11301.0 6418.0 2005.0 20456.0 20456.0 20456.0 31.0 20456.0 13296.0 0 0 0 c 0 1279.0 1652.0 3476.0 440.0 3773.0 6759.0 344.0 105.0 14435.0 101.0 2087.0 0 0 0 g 0 454.0 5093.0 3129.0 14038.0 321.0 87.0 81.0 279.0 68.0 328.0 1710.0 0 0 0 t 0 11517.0 2080.0 9155.0 136.0 20456.0 122.0 107.0 242.0 6021.0 215.0 7160.0 0 0 0

MA0047.4_shift3 (FOXA2)
; oligos_7nt_mkv2_m2 versus MA0047.4 (FOXA2); m=34/36; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.456933; ---wGTAAACA---- ; cor=; Ncor= a 0 0 0 93740.0 18770.0 3737.0 243805.0 223061.0 248214.0 2411.0 246665.0 0 0 0 0 c 0 0 0 12432.0 2928.0 2037.0 9424.0 22429.0 3329.0 196969.0 3086.0 0 0 0 0 g 0 0 0 38538.0 236311.0 1890.0 2641.0 6484.0 2805.0 3603.0 2984.0 0 0 0 0 t 0 0 0 117443.0 4144.0 254489.0 6283.0 10179.0 7805.0 59170.0 9418.0 0 0 0 0

MA1524.3_shift7 (Msgn1)
; oligos_7nt_mkv2_m2 versus MA1524.3 (Msgn1); m=35/36; ncol2=10; w=0; offset=3; strand=D; shift=7; score=0.446906; -------raCAAATG ; cor=; Ncor= a 0 0 0 0 0 0 0 193.0 363.0 0.0 537.0 460.0 537.0 18.0 1.0 c 0 0 0 0 0 0 0 21.0 128.0 539.0 3.0 8.0 4.0 6.0 2.0 g 0 0 0 0 0 0 0 324.0 46.0 2.0 0.0 52.0 0.0 3.0 531.0 t 0 0 0 0 0 0 0 4.0 5.0 1.0 2.0 22.0 1.0 515.0 8.0

MA1607.2_shift1 (Foxl2)
; oligos_7nt_mkv2_m2 versus MA1607.2 (Foxl2); m=36/36; ncol2=10; w=-3; offset=-3; strand=D; shift=1; score=0.416573; -waTGTAAACA---- ; cor=; Ncor= a 0 6433.0 11158.0 2985.0 2607.0 1097.0 17227.0 17212.0 17146.0 282.0 15623.0 0 0 0 0 c 0 1576.0 2051.0 896.0 367.0 301.0 558.0 336.0 216.0 15698.0 807.0 0 0 0 0 g 0 1599.0 2107.0 1371.0 14648.0 419.0 112.0 187.0 411.0 151.0 401.0 0 0 0 0 t 0 8493.0 2785.0 12849.0 479.0 16284.0 204.0 366.0 328.0 1970.0 1270.0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m1_shift2 ; 9 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m1_shift2 (oligos_7nt_mkv2_m1)
; oligos_7nt_mkv2_m1; m=0 (reference); ncol1=11; shift=2; ncol=13; --mtCCCAGCAas ; Alignment reference a 0 0 17 8 5 1 0 40 1 0 44 19 8 c 0 0 13 8 40 40 41 2 1 41 0 8 12 g 0 0 8 7 0 1 0 1 41 2 0 8 17 t 0 0 7 22 0 3 4 2 2 2 1 10 8

MA2125.1_shift2 (Zfp809)
; oligos_7nt_mkv2_m1 versus MA2125.1 (Zfp809); m=1/8; ncol2=9; w=0; offset=0; strand=D; shift=2; score=0.661382; --wTCCCAGCc-- ; cor=; Ncor= a 0 0 828.0 23.0 15.0 20.0 10.0 1529.0 32.0 287.0 217.0 0 0 c 0 0 66.0 41.0 1607.0 1610.0 1621.0 26.0 35.0 1218.0 1091.0 0 0 g 0 0 81.0 23.0 18.0 14.0 16.0 73.0 1572.0 99.0 115.0 0 0 t 0 0 690.0 1578.0 25.0 21.0 18.0 37.0 26.0 61.0 242.0 0 0

MA1724.2_shift4 (Rfx6)
; oligos_7nt_mkv2_m1 versus MA1724.2 (Rfx6); m=2/8; ncol2=9; w=0; offset=2; strand=D; shift=4; score=0.639745; ----CCTAGCAAC ; cor=; Ncor= a 0 0 0 0 187.0 1093.0 344.0 7215.0 179.0 378.0 8085.0 7740.0 552.0 c 0 0 0 0 7859.0 6405.0 1066.0 64.0 102.0 7474.0 117.0 258.0 6811.0 g 0 0 0 0 232.0 242.0 146.0 1205.0 8215.0 359.0 132.0 339.0 552.0 t 0 0 0 0 272.0 810.0 6994.0 66.0 54.0 339.0 216.0 213.0 635.0

MA1629.2_shift4 (Zic2)
; oligos_7nt_mkv2_m1 versus MA1629.2 (Zic2); m=3/8; ncol2=9; w=0; offset=2; strand=D; shift=4; score=0.628515; ----CaCAGCAGG ; cor=; Ncor= a 0 0 0 0 1161.0 6888.0 135.0 11074.0 140.0 80.0 10625.0 192.0 96.0 c 0 0 0 0 9933.0 1765.0 11476.0 391.0 228.0 11272.0 118.0 133.0 204.0 g 0 0 0 0 585.0 829.0 188.0 186.0 11484.0 269.0 735.0 11184.0 11465.0 t 0 0 0 0 240.0 2437.0 120.0 268.0 67.0 298.0 441.0 410.0 154.0

MA0697.3_shift6 (Zic3)
; oligos_7nt_mkv2_m1 versus MA0697.3 (Zic3); m=4/8; ncol2=7; w=0; offset=4; strand=D; shift=6; score=0.537437; ------CAGCAGG ; cor=; Ncor= a 0 0 0 0 0 0 345.0 23947.0 331.0 354.0 22980.0 393.0 347.0 c 0 0 0 0 0 0 25035.0 872.0 670.0 24272.0 568.0 500.0 955.0 g 0 0 0 0 0 0 460.0 759.0 24907.0 756.0 1768.0 24314.0 24340.0 t 0 0 0 0 0 0 334.0 596.0 266.0 792.0 858.0 967.0 532.0

MA1628.2_shift6 (Zic1::Zic2)
; oligos_7nt_mkv2_m1 versus MA1628.2 (Zic1::Zic2); m=5/8; ncol2=7; w=0; offset=4; strand=D; shift=6; score=0.535437; ------CAGCAGG ; cor=; Ncor= a 0 0 0 0 0 0 29.0 9238.0 96.0 75.0 8950.0 11.0 46.0 c 0 0 0 0 0 0 9594.0 384.0 195.0 9293.0 311.0 512.0 91.0 g 0 0 0 0 0 0 106.0 266.0 9527.0 96.0 627.0 9279.0 9631.0 t 0 0 0 0 0 0 163.0 4.0 74.0 428.0 4.0 90.0 124.0

MA2341.1_shift4 (FEZF2)
; oligos_7nt_mkv2_m1 versus MA2341.1 (FEZF2); m=6/8; ncol2=8; w=0; offset=2; strand=D; shift=4; score=0.512765; ----CCCAGCCT- ; cor=; Ncor= a 0 0 0 0 17.0 5.0 4.0 231.0 6.0 8.0 7.0 14.0 0 c 0 0 0 0 202.0 206.0 258.0 15.0 8.0 224.0 247.0 10.0 0 g 0 0 0 0 10.0 9.0 0.0 14.0 251.0 28.0 2.0 8.0 0 t 0 0 0 0 36.0 45.0 3.0 5.0 0.0 5.0 9.0 233.0 0

MA1116.2_rc_shift2 (RBPJ_rc)
; oligos_7nt_mkv2_m1 versus MA1116.2_rc (RBPJ_rc); m=7/8; ncol2=6; w=0; offset=0; strand=R; shift=2; score=0.454872; --TTCCCA----- ; cor=; Ncor= a 0 0 4.0 29.0 78.0 60.0 1.0 2386.0 0 0 0 0 0 c 0 0 1.0 4.0 2309.0 2313.0 2341.0 2.0 0 0 0 0 0 g 0 0 15.0 0.0 8.0 20.0 25.0 12.0 0 0 0 0 0 t 0 0 2382.0 2369.0 7.0 9.0 35.0 2.0 0 0 0 0 0

MA0483.2_shift0 (Gfi1B)
; oligos_7nt_mkv2_m1 versus MA0483.2 (Gfi1B); m=8/8; ncol2=10; w=-2; offset=-2; strand=D; shift=0; score=0.431551; aAATCwCwGC--- ; cor=; Ncor= a 1124.0 1761.0 1759.0 0.0 0.0 1033.0 61.0 1116.0 57.0 142.0 0 0 0 c 438.0 0.0 0.0 338.0 1761.0 21.0 1312.0 0.0 1.0 1328.0 0 0 0 g 104.0 0.0 2.0 28.0 0.0 0.0 388.0 1.0 1676.0 76.0 0 0 0 t 95.0 0.0 0.0 1395.0 0.0 707.0 0.0 644.0 27.0 215.0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m3_shift0 ; 35 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m3_shift0 (oligos_7nt_mkv2_m3)
; oligos_7nt_mkv2_m3; m=0 (reference); ncol1=11; shift=0; ncol=11; myAGCCAATww ; Alignment reference a 11 4 26 1 2 2 25 26 4 9 8 c 7 8 1 1 22 24 0 1 0 5 6 g 3 4 0 25 1 0 1 0 0 5 3 t 6 11 0 0 2 1 1 0 23 8 10

MA0502.3_rc_shift2 (NFYB_rc)
; oligos_7nt_mkv2_m3 versus MA0502.3_rc (NFYB_rc); m=1/34; ncol2=9; w=0; offset=2; strand=R; shift=2; score=0.636717; --GGCCAATGr ; cor=; Ncor= a 0 0 1338.0 639.0 61.0 110.0 7231.0 6852.0 233.0 333.0 3410.0 c 0 0 139.0 173.0 7272.0 7250.0 102.0 227.0 57.0 1481.0 901.0 g 0 0 5823.0 6488.0 58.0 41.0 37.0 241.0 181.0 5447.0 2705.0 t 0 0 154.0 154.0 63.0 53.0 84.0 134.0 6983.0 193.0 438.0

MA1644.2_shift4 (NFYC)
; oligos_7nt_mkv2_m3 versus MA1644.2 (NFYC); m=2/34; ncol2=7; w=0; offset=4; strand=D; shift=4; score=0.541999; ----CCAATCA ; cor=; Ncor= a 0 0 0 0 287.0 380.0 12776.0 12317.0 259.0 532.0 11826.0 c 0 0 0 0 12507.0 12880.0 325.0 376.0 374.0 11224.0 711.0 g 0 0 0 0 394.0 111.0 103.0 549.0 71.0 1464.0 891.0 t 0 0 0 0 428.0 245.0 412.0 374.0 12912.0 396.0 188.0

MA0060.4_shift4 (NFYA)
; oligos_7nt_mkv2_m3 versus MA0060.4 (NFYA); m=3/34; ncol2=8; w=0; offset=4; strand=D; shift=4; score=0.498829; ----CCAATCA ; cor=; Ncor= a 0 0 0 0 23.0 31.0 4683.0 4584.0 37.0 166.0 4088.0 c 0 0 0 0 4657.0 4713.0 29.0 94.0 132.0 4215.0 213.0 g 0 0 0 0 34.0 28.0 17.0 124.0 11.0 319.0 489.0 t 0 0 0 0 111.0 53.0 96.0 23.0 4645.0 125.0 35.0

MA0650.4_shift4 (Hoxa13)
; oligos_7nt_mkv2_m3 versus MA0650.4 (Hoxa13); m=4/34; ncol2=8; w=0; offset=4; strand=D; shift=4; score=0.481101; ----CCAATAA ; cor=; Ncor= a 0 0 0 0 1442.0 1273.0 14069.0 15410.0 105.0 15804.0 16813.0 c 0 0 0 0 12600.0 14100.0 1594.0 243.0 249.0 205.0 125.0 g 0 0 0 0 1889.0 77.0 146.0 666.0 232.0 407.0 98.0 t 0 0 0 0 1317.0 1798.0 1439.0 929.0 16662.0 832.0 212.0

MA0642.3_shift4 (EN2)
; oligos_7nt_mkv2_m3 versus MA0642.3 (EN2); m=5/34; ncol2=7; w=0; offset=4; strand=D; shift=4; score=0.477618; ----syAATTA ; cor=; Ncor= a 0 0 0 0 115.0 0.0 898.0 898.0 0.0 28.0 898.0 c 0 0 0 0 898.0 577.0 198.0 0.0 0.0 0.0 4.0 g 0 0 0 0 474.0 0.0 44.0 31.0 0.0 0.0 168.0 t 0 0 0 0 313.0 321.0 103.0 0.0 898.0 898.0 0.0

MA0889.2_shift4 (GBX1)
; oligos_7nt_mkv2_m3 versus MA0889.2 (GBX1); m=6/34; ncol2=7; w=0; offset=4; strand=D; shift=4; score=0.470008; ----syAATTA ; cor=; Ncor= a 0 0 0 0 1674.0 243.0 27339.0 27339.0 45.0 312.0 27339.0 c 0 0 0 0 14978.0 13543.0 589.0 172.0 128.0 438.0 50.0 g 0 0 0 0 6964.0 15.0 758.0 29.0 1.0 246.0 8.0 t 0 0 0 0 3723.0 13796.0 157.0 23.0 27339.0 27339.0 321.0

MA0701.3_shift4 (LHX9)
; oligos_7nt_mkv2_m3 versus MA0701.3 (LHX9); m=7/34; ncol2=7; w=0; offset=4; strand=D; shift=4; score=0.456163; ----CyAATTA ; cor=; Ncor= a 0 0 0 0 390.0 0.0 6075.0 6075.0 0.0 0.0 6075.0 c 0 0 0 0 6075.0 2093.0 505.0 0.0 0.0 0.0 0.0 g 0 0 0 0 1056.0 0.0 0.0 0.0 0.0 170.0 305.0 t 0 0 0 0 1219.0 3983.0 20.0 0.0 6075.0 6075.0 0.0

MA0644.3_shift4 (ESX1)
; oligos_7nt_mkv2_m3 versus MA0644.3 (ESX1); m=8/34; ncol2=7; w=0; offset=4; strand=D; shift=4; score=0.453691; ----yyAATTA ; cor=; Ncor= a 0 0 0 0 1070.0 589.0 19670.0 19670.0 0.0 47.0 19670.0 c 0 0 0 0 11980.0 7595.0 634.0 95.0 0.0 1009.0 0.0 g 0 0 0 0 2110.0 0.0 821.0 0.0 0.0 225.0 925.0 t 0 0 0 0 7690.0 12075.0 181.0 0.0 19670.0 19670.0 557.0

MA0671.2_shift2 (NFIX)
; oligos_7nt_mkv2_m3 versus MA0671.2 (NFIX); m=9/34; ncol2=6; w=0; offset=2; strand=D; shift=2; score=0.451743; --tGCCAr--- ; cor=; Ncor= a 0 0 11279.0 132.0 3.0 0.0 32864.0 32864.0 0 0 0 c 0 0 9695.0 186.0 32864.0 32864.0 2230.0 1356.0 0 0 0 g 0 0 5911.0 32864.0 3257.0 0.0 180.0 12688.0 0 0 0 t 0 0 32864.0 2539.0 29.0 0.0 110.0 2399.0 0 0 0

MA0901.3_shift4 (HOXB13)
; oligos_7nt_mkv2_m3 versus MA0901.3 (HOXB13); m=10/34; ncol2=9; w=0; offset=4; strand=D; shift=4; score=0.440985; ----cCAATAA ; cor=; Ncor= a 0 0 0 0 11896.0 4212.0 66409.0 73044.0 421.0 73612.0 75997.0 c 0 0 0 0 47674.0 65312.0 4611.0 726.0 550.0 523.0 599.0 g 0 0 0 0 9096.0 582.0 351.0 1913.0 586.0 1083.0 490.0 t 0 0 0 0 10048.0 8608.0 7343.0 3031.0 77157.0 3496.0 1628.0

MA0700.3_shift5 (LHX2)
; oligos_7nt_mkv2_m3 versus MA0700.3 (LHX2); m=11/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.440572; -----CAATTA ; cor=; Ncor= a 0 0 0 0 0 44.0 5790.0 6022.0 129.0 67.0 6275.0 c 0 0 0 0 0 5612.0 71.0 101.0 58.0 5.0 13.0 g 0 0 0 0 0 37.0 52.0 77.0 64.0 5.0 6.0 t 0 0 0 0 0 640.0 420.0 133.0 6082.0 6256.0 39.0

MA0708.3_shift5 (MSX2)
; oligos_7nt_mkv2_m3 versus MA0708.3 (MSX2); m=12/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.436355; -----YAATTA ; cor=; Ncor= a 0 0 0 0 0 220.0 6353.0 6353.0 0.0 62.0 6353.0 c 0 0 0 0 0 6353.0 175.0 112.0 0.0 600.0 0.0 g 0 0 0 0 0 0.0 259.0 0.0 0.0 0.0 243.0 t 0 0 0 0 0 2737.0 0.0 0.0 6353.0 6353.0 0.0

MA0709.2_shift5 (Msx3)
; oligos_7nt_mkv2_m3 versus MA0709.2 (Msx3); m=13/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.433822; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 312.0 8380.0 8380.0 0.0 121.0 8380.0 c 0 0 0 0 0 5798.0 160.0 89.0 0.0 215.0 59.0 g 0 0 0 0 0 29.0 237.0 38.0 0.0 105.0 88.0 t 0 0 0 0 0 2582.0 94.0 5.0 8380.0 8380.0 213.0

MA0666.3_shift5 (MSX1)
; oligos_7nt_mkv2_m3 versus MA0666.3 (MSX1); m=14/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.430842; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 227.0 5064.0 5064.0 0.0 0.0 5064.0 c 0 0 0 0 0 5064.0 125.0 42.0 0.0 280.0 0.0 g 0 0 0 0 0 0.0 146.0 0.0 0.0 0.0 159.0 t 0 0 0 0 0 2415.0 0.0 0.0 5064.0 5064.0 0.0

MA0879.3_shift5 (DLX1)
; oligos_7nt_mkv2_m3 versus MA0879.3 (DLX1); m=15/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.42198; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 265.0 6231.0 6231.0 0.0 0.0 6231.0 c 0 0 0 0 0 4059.0 1212.0 222.0 0.0 639.0 0.0 g 0 0 0 0 0 0.0 954.0 0.0 0.0 155.0 168.0 t 0 0 0 0 0 2171.0 540.0 0.0 6231.0 6231.0 614.0

MA0909.4_shift5 (Hoxd13)
; oligos_7nt_mkv2_m3 versus MA0909.4 (Hoxd13); m=16/34; ncol2=7; w=0; offset=5; strand=D; shift=5; score=0.419281; -----CAATAA ; cor=; Ncor= a 0 0 0 0 0 16.0 5775.0 5923.0 0.0 5955.0 5923.0 c 0 0 0 0 0 5866.0 5.0 13.0 2.0 4.0 37.0 g 0 0 0 0 0 34.0 148.0 11.0 3.0 7.0 2.0 t 0 0 0 0 0 61.0 49.0 30.0 5972.0 11.0 15.0

MA0717.2_shift5 (RAX2)
; oligos_7nt_mkv2_m3 versus MA0717.2 (RAX2); m=17/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.41769; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 3558.0 38860.0 38860.0 270.0 2167.0 38860.0 c 0 0 0 0 0 19645.0 3060.0 1523.0 738.0 4232.0 2644.0 g 0 0 0 0 0 1688.0 4490.0 757.0 125.0 2513.0 360.0 t 0 0 0 0 0 19215.0 2421.0 1030.0 38860.0 38860.0 4258.0

MA0881.2_shift5 (Dlx4)
; oligos_7nt_mkv2_m3 versus MA0881.2 (Dlx4); m=18/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.417678; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 724.0 12054.0 12054.0 88.0 440.0 12054.0 c 0 0 0 0 0 6841.0 1500.0 744.0 85.0 868.0 316.0 g 0 0 0 0 0 145.0 739.0 55.0 38.0 542.0 134.0 t 0 0 0 0 0 5213.0 883.0 499.0 12054.0 12054.0 1127.0

MA0890.2_shift5 (GBX2)
; oligos_7nt_mkv2_m3 versus MA0890.2 (GBX2); m=19/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.417072; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 699.0 27366.0 27366.0 0.0 318.0 27366.0 c 0 0 0 0 0 15511.0 570.0 250.0 61.0 570.0 73.0 g 0 0 0 0 0 106.0 1113.0 114.0 65.0 673.0 30.0 t 0 0 0 0 0 11855.0 227.0 25.0 27366.0 27366.0 650.0

MA0894.2_rc_shift5 (HESX1_rc)
; oligos_7nt_mkv2_m3 versus MA0894.2_rc (HESX1_rc); m=20/34; ncol2=6; w=0; offset=5; strand=R; shift=5; score=0.416604; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 97.0 4072.0 4072.0 0.0 31.0 4072.0 c 0 0 0 0 0 2180.0 0.0 15.0 9.0 53.0 34.0 g 0 0 0 0 0 38.0 15.0 0.0 7.0 0.0 0.0 t 0 0 0 0 0 1892.0 0.0 0.0 4072.0 4072.0 187.0

MA0718.2_shift5 (RAX)
; oligos_7nt_mkv2_m3 versus MA0718.2 (RAX); m=21/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.416302; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 214.0 2412.0 2412.0 123.0 71.0 2412.0 c 0 0 0 0 0 1281.0 17.0 38.0 0.0 71.0 0.0 g 0 0 0 0 0 25.0 3.0 12.0 0.0 49.0 20.0 t 0 0 0 0 0 1131.0 40.0 24.0 2412.0 2412.0 126.0

MA0880.2_shift5 (Dlx3)
; oligos_7nt_mkv2_m3 versus MA0880.2 (Dlx3); m=22/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.416197; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 572.0 7323.0 7323.0 173.0 399.0 7323.0 c 0 0 0 0 0 4133.0 995.0 536.0 66.0 535.0 202.0 g 0 0 0 0 0 164.0 587.0 62.0 60.0 452.0 101.0 t 0 0 0 0 0 3190.0 643.0 299.0 7323.0 7323.0 691.0

MA0027.3_shift5 (EN1)
; oligos_7nt_mkv2_m3 versus MA0027.3 (EN1); m=23/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.415118; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 104.0 2891.0 2891.0 0.0 57.0 2891.0 c 0 0 0 0 0 1328.0 99.0 28.0 0.0 483.0 0.0 g 0 0 0 0 0 5.0 71.0 0.0 0.0 162.0 30.0 t 0 0 0 0 0 1562.0 0.0 0.0 2891.0 2891.0 132.0

MA0720.2_shift5 (Shox2)
; oligos_7nt_mkv2_m3 versus MA0720.2 (Shox2); m=24/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.412461; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 979.0 18179.0 18179.0 29.0 597.0 18179.0 c 0 0 0 0 0 9027.0 626.0 138.0 12.0 545.0 193.0 g 0 0 0 0 0 228.0 426.0 3.0 0.0 870.0 36.0 t 0 0 0 0 0 9152.0 766.0 79.0 18179.0 18179.0 895.0

MA0670.2_shift2 (NFIA)
; oligos_7nt_mkv2_m3 versus MA0670.2 (NFIA); m=25/34; ncol2=6; w=0; offset=2; strand=D; shift=2; score=0.411894; --TGCCAA--- ; cor=; Ncor= a 0 0 0.0 0.0 0.0 0.0 89071.0 89418.0 0 0 0 c 0 0 0.0 0.0 93597.0 93394.0 0.0 0.0 0 0 0 g 0 0 0.0 98253.0 0.0 0.0 0.0 0.0 0 0 0 t 0 0 95496.0 0.0 0.0 0.0 0.0 0.0 0 0 0

MA0699.2_shift5 (LBX2)
; oligos_7nt_mkv2_m3 versus MA0699.2 (LBX2); m=26/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.410228; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 157.0 2996.0 2996.0 0.0 150.0 2996.0 c 0 0 0 0 0 1634.0 338.0 290.0 29.0 258.0 34.0 g 0 0 0 0 0 109.0 325.0 130.0 118.0 293.0 106.0 t 0 0 0 0 0 1362.0 57.0 89.0 2996.0 2996.0 148.0

MA0721.2_shift5 (UNCX)
; oligos_7nt_mkv2_m3 versus MA0721.2 (UNCX); m=27/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.410058; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 3975.0 36926.0 36926.0 481.0 3111.0 36926.0 c 0 0 0 0 0 16800.0 2540.0 1302.0 806.0 3958.0 2211.0 g 0 0 0 0 0 2086.0 4582.0 420.0 117.0 1782.0 731.0 t 0 0 0 0 0 20126.0 2629.0 890.0 36926.0 36926.0 3885.0

MA0882.2_shift5 (DLX6)
; oligos_7nt_mkv2_m3 versus MA0882.2 (DLX6); m=28/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.409874; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 137.0 2623.0 2623.0 12.0 48.0 2623.0 c 0 0 0 0 0 1410.0 273.0 124.0 0.0 140.0 30.0 g 0 0 0 0 0 21.0 143.0 0.0 0.0 68.0 16.0 t 0 0 0 0 0 1212.0 184.0 56.0 2623.0 2623.0 193.0

MA0716.2_shift5 (PRRX1)
; oligos_7nt_mkv2_m3 versus MA0716.2 (PRRX1); m=29/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.408552; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 2373.0 23897.0 23897.0 0.0 1264.0 23897.0 c 0 0 0 0 0 11122.0 1088.0 503.0 3.0 2302.0 644.0 g 0 0 0 0 0 1121.0 1776.0 202.0 0.0 1004.0 136.0 t 0 0 0 0 0 12775.0 810.0 209.0 23897.0 23897.0 1229.0

MA0662.2_shift5 (MIXL1)
; oligos_7nt_mkv2_m3 versus MA0662.2 (MIXL1); m=30/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.40831; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 2635.0 27042.0 27042.0 0.0 1385.0 27042.0 c 0 0 0 0 0 11639.0 1911.0 662.0 510.0 4270.0 1903.0 g 0 0 0 0 0 1245.0 3660.0 556.0 181.0 2031.0 115.0 t 0 0 0 0 0 15403.0 1038.0 736.0 27042.0 27042.0 2895.0

MA0125.2_rc_shift5 (Nobox_rc)
; oligos_7nt_mkv2_m3 versus MA0125.2_rc (Nobox_rc); m=31/34; ncol2=6; w=0; offset=5; strand=R; shift=5; score=0.407366; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 1.0 32.0 34.0 0.0 2.0 37.0 c 0 0 0 0 0 22.0 4.0 2.0 0.0 0.0 0.0 g 0 0 0 0 0 0.0 0.0 1.0 0.0 0.0 1.0 t 0 0 0 0 0 15.0 2.0 1.0 38.0 36.0 0.0

MA0630.2_rc_shift5 (SHOX_rc)
; oligos_7nt_mkv2_m3 versus MA0630.2_rc (SHOX_rc); m=32/34; ncol2=6; w=0; offset=5; strand=R; shift=5; score=0.406559; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 111.0 768.0 943.0 2.0 45.0 886.0 c 0 0 0 0 0 424.0 84.0 27.0 5.0 55.0 9.0 g 0 0 0 0 0 48.0 50.0 15.0 2.0 48.0 30.0 t 0 0 0 0 0 416.0 98.0 15.0 991.0 852.0 74.0

MA0634.2_shift5 (ALX3)
; oligos_7nt_mkv2_m3 versus MA0634.2 (ALX3); m=33/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.405277; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 794.0 7877.0 7877.0 76.0 697.0 7877.0 c 0 0 0 0 0 3367.0 506.0 317.0 72.0 729.0 449.0 g 0 0 0 0 0 345.0 885.0 141.0 8.0 239.0 87.0 t 0 0 0 0 0 4510.0 629.0 231.0 7877.0 7877.0 977.0

MA0654.2_shift5 (ISX)
; oligos_7nt_mkv2_m3 versus MA0654.2 (ISX); m=34/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.403616; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 10.0 2065.0 2065.0 0.0 0.0 2065.0 c 0 0 0 0 0 1003.0 48.0 16.0 0.0 0.0 0.0 g 0 0 0 0 0 0.0 5.0 0.0 0.0 24.0 0.0 t 0 0 0 0 0 1061.0 24.0 10.0 2065.0 2065.0 49.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv2_m2_shift4 (oligos_7nt_mkv2_m2)				; oligos_7nt_mkv2_m2; m=0 (reference); ncol1=11; shift=4; ncol=15; ----mwAAACAAAwh ; Alignment reference a 0 0 0 0 9 17 31 30 29 0 32 34 30 14 10 c 0 0 0 0 14 3 0 1 2 34 2 0 4 3 13 g 0 0 0 0 7 5 0 1 1 0 0 0 0 3 2 t 0 0 0 0 4 9 3 2 2 0 0 0 0 14 9
MA0847.4_shift4 (FOXD2)				; oligos_7nt_mkv2_m2 versus MA0847.4 (FOXD2); m=1/36; ncol2=11; w=0; offset=0; strand=D; shift=4; score=0.736369; ----yTAAryAAACA ; cor=; Ncor= a 0 0 0 0 219.0 480.0 2484.0 2484.0 2484.0 84.0 2484.0 2484.0 2484.0 0.0 2484.0 c 0 0 0 0 906.0 19.0 16.0 285.0 23.0 1342.0 81.0 23.0 0.0 2484.0 24.0 g 0 0 0 0 131.0 0.0 137.0 292.0 1615.0 3.0 0.0 18.0 5.0 0.0 34.0 t 0 0 0 0 1578.0 2004.0 0.0 262.0 4.0 1141.0 79.0 1.0 2.0 768.0 232.0
MA0851.2_shift4 (Foxj3)				; oligos_7nt_mkv2_m2 versus MA0851.2 (Foxj3); m=2/36; ncol2=9; w=0; offset=0; strand=D; shift=4; score=0.681655; ----RTAAACAAw-- ; cor=; Ncor= a 0 0 0 0 30.0 1.0 91.0 96.0 99.0 0.0 99.0 79.0 57.0 0 0 c 0 0 0 0 1.0 2.0 8.0 2.0 0.0 81.0 0.0 7.0 9.0 0 0 g 0 0 0 0 68.0 0.0 0.0 0.0 0.0 0.0 0.0 6.0 7.0 0 0 t 0 0 0 0 0.0 97.0 0.0 3.0 1.0 18.0 1.0 9.0 27.0 0 0
MA1489.1_shift4 (FOXN3)				; oligos_7nt_mkv2_m2 versus MA1489.1 (FOXN3); m=3/36; ncol2=8; w=0; offset=0; strand=D; shift=4; score=0.610794; ----GTAAACAA--- ; cor=; Ncor= a 0 0 0 0 9.0 9.0 971.0 971.0 971.0 9.0 971.0 971.0 0 0 0 c 0 0 0 0 9.0 9.0 9.0 9.0 9.0 971.0 9.0 9.0 0 0 0 g 0 0 0 0 971.0 9.0 9.0 9.0 9.0 9.0 9.0 9.0 0 0 0 t 0 0 0 0 9.0 971.0 9.0 9.0 9.0 9.0 9.0 9.0 0 0 0
MA0614.1_shift4 (Foxj2)				; oligos_7nt_mkv2_m2 versus MA0614.1 (Foxj2); m=4/36; ncol2=8; w=0; offset=0; strand=D; shift=4; score=0.609853; ----rTAAACAa--- ; cor=; Ncor= a 0 0 0 0 461.0 50.0 795.0 977.0 999.0 0.0 999.0 593.0 0 0 0 c 0 0 0 0 0.0 25.0 205.0 0.0 0.0 954.0 0.0 125.0 0 0 0 g 0 0 0 0 538.0 0.0 0.0 0.0 0.0 0.0 0.0 125.0 0 0 0 t 0 0 0 0 0.0 924.0 0.0 22.0 0.0 46.0 0.0 156.0 0 0 0
MA0867.3_shift7 (SOX4)				; oligos_7nt_mkv2_m2 versus MA0867.3 (SOX4); m=5/36; ncol2=8; w=0; offset=3; strand=D; shift=7; score=0.601139; -------aACAAwGr ; cor=; Ncor= a 0 0 0 0 0 0 0 5582.0 5582.0 0.0 5582.0 5582.0 5582.0 1018.0 2093.0 c 0 0 0 0 0 0 0 951.0 0.0 5582.0 1.0 6.0 120.0 64.0 1422.0 g 0 0 0 0 0 0 0 2047.0 0.0 37.0 6.0 11.0 50.0 5582.0 3489.0 t 0 0 0 0 0 0 0 431.0 9.0 33.0 0.0 0.0 2719.0 83.0 174.0
MA0613.1_shift4 (FOXG1)				; oligos_7nt_mkv2_m2 versus MA0613.1 (FOXG1); m=6/36; ncol2=8; w=0; offset=0; strand=D; shift=4; score=0.594963; ----rTAAACAw--- ; cor=; Ncor= a 0 0 0 0 374.0 1.0 997.0 997.0 997.0 1.0 997.0 498.0 0 0 0 c 0 0 0 0 1.0 1.0 1.0 1.0 1.0 997.0 1.0 167.0 0 0 0 g 0 0 0 0 623.0 1.0 1.0 1.0 1.0 1.0 1.0 2.0 0 0 0 t 0 0 0 0 1.0 997.0 1.0 1.0 1.0 1.0 1.0 333.0 0 0 0
MA0041.3_shift1 (FOXD3)				; oligos_7nt_mkv2_m2 versus MA0041.3 (FOXD3); m=7/36; ncol2=14; w=-3; offset=-3; strand=D; shift=1; score=0.563461; -wawrhAAAYAAACa ; cor=; Ncor= a 0 86.0 120.0 91.0 56.0 99.0 171.0 171.0 171.0 0.0 171.0 171.0 171.0 13.0 125.0 c 0 22.0 17.0 45.0 17.0 109.0 37.0 8.0 1.0 43.0 4.0 11.0 17.0 171.0 20.0 g 0 13.0 52.0 45.0 115.0 8.0 1.0 0.0 7.0 0.0 2.0 8.0 20.0 13.0 30.0 t 0 85.0 22.0 81.0 10.0 171.0 2.0 7.0 2.0 128.0 7.0 11.0 35.0 30.0 47.0
MA1125.2_shift6 (ZNF384)				; oligos_7nt_mkv2_m2 versus MA1125.2 (ZNF384); m=8/36; ncol2=8; w=0; offset=2; strand=D; shift=6; score=0.551798; ------AAAAAAaa- ; cor=; Ncor= a 0 0 0 0 0 0 30354.0 30191.0 30072.0 30252.0 30202.0 30406.0 20322.0 18916.0 0 c 0 0 0 0 0 0 7.0 35.0 21.0 13.0 26.0 6.0 2908.0 3963.0 0 g 0 0 0 0 0 0 13.0 19.0 26.0 15.0 14.0 0.0 2767.0 2898.0 0 t 0 0 0 0 0 0 59.0 188.0 314.0 153.0 191.0 21.0 4436.0 4656.0 0
MA0030.2_shift3 (FOXF2)				; oligos_7nt_mkv2_m2 versus MA0030.2 (FOXF2); m=9/36; ncol2=9; w=-1; offset=-1; strand=D; shift=3; score=0.548861; ---sRTAAACAa--- ; cor=; Ncor= a 0 0 0 3.0 7.0 0.0 27.0 27.0 27.0 0.0 27.0 16.0 0 0 0 c 0 0 0 11.0 0.0 0.0 0.0 0.0 0.0 25.0 0.0 4.0 0 0 0 g 0 0 0 8.0 20.0 0.0 0.0 0.0 0.0 0.0 0.0 2.0 0 0 0 t 0 0 0 0.0 0.0 27.0 0.0 0.0 0.0 2.0 0.0 5.0 0 0 0
MA1606.2_shift4 (Foxf1)				; oligos_7nt_mkv2_m2 versus MA1606.2 (Foxf1); m=10/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.547217; ----rTAAACA---- ; cor=; Ncor= a 0 0 0 0 18534.0 568.0 57293.0 53942.0 57167.0 437.0 56436.0 0 0 0 0 c 0 0 0 0 3754.0 446.0 899.0 2249.0 475.0 54394.0 745.0 0 0 0 0 g 0 0 0 0 33599.0 1158.0 445.0 811.0 1067.0 522.0 443.0 0 0 0 0 t 0 0 0 0 3653.0 57368.0 903.0 2538.0 831.0 4187.0 1916.0 0 0 0 0
MA0040.2_rc_shift3 (Foxq1_rc)				; oligos_7nt_mkv2_m2 versus MA0040.2_rc (Foxq1_rc); m=11/36; ncol2=10; w=-1; offset=-1; strand=R; shift=3; score=0.545311; ---wATAAACAwT-- ; cor=; Ncor= a 0 0 0 9.0 13.0 0.0 18.0 18.0 18.0 0.0 15.0 11.0 1.0 0 0 c 0 0 0 3.0 4.0 1.0 0.0 0.0 0.0 18.0 0.0 0.0 3.0 0 0 g 0 0 0 0.0 1.0 0.0 0.0 0.0 0.0 0.0 0.0 2.0 1.0 0 0 t 0 0 0 6.0 0.0 17.0 0.0 0.0 0.0 0.0 3.0 5.0 13.0 0 0
MA0084.2_shift6 (SRY)				; oligos_7nt_mkv2_m2 versus MA0084.2 (SRY); m=12/36; ncol2=7; w=0; offset=2; strand=D; shift=6; score=0.539527; ------waACAAw-- ; cor=; Ncor= a 0 0 0 0 0 0 15.0 18.0 25.0 0.0 28.0 27.0 7.0 0 0 c 0 0 0 0 0 0 0.0 3.0 0.0 26.0 0.0 0.0 0.0 0 0 g 0 0 0 0 0 0 3.0 3.0 0.0 0.0 0.0 1.0 2.0 0 0 t 0 0 0 0 0 0 10.0 4.0 3.0 2.0 0.0 0.0 19.0 0 0
MA0157.4_shift4 (Foxo3)				; oligos_7nt_mkv2_m2 versus MA0157.4 (Foxo3); m=13/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.537707; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 3470.0 1546.0 22240.0 22288.0 22551.0 403.0 22141.0 0 0 0 0 c 0 0 0 0 590.0 435.0 968.0 803.0 483.0 21237.0 587.0 0 0 0 0 g 0 0 0 0 19202.0 1199.0 328.0 333.0 464.0 361.0 361.0 0 0 0 0 t 0 0 0 0 650.0 20732.0 376.0 488.0 414.0 1911.0 823.0 0 0 0 0
MA0852.3_shift4 (FOXK1)				; oligos_7nt_mkv2_m2 versus MA0852.3 (FOXK1); m=14/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.537236; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 143.0 60.0 1003.0 999.0 1022.0 10.0 1015.0 0 0 0 0 c 0 0 0 0 28.0 5.0 37.0 37.0 13.0 958.0 16.0 0 0 0 0 g 0 0 0 0 868.0 44.0 10.0 11.0 10.0 12.0 12.0 0 0 0 0 t 0 0 0 0 17.0 947.0 6.0 9.0 11.0 76.0 13.0 0 0 0 0
MA0480.3_shift4 (Foxo1)				; oligos_7nt_mkv2_m2 versus MA0480.3 (Foxo1); m=15/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.537053; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 1411.0 945.0 12408.0 12663.0 12972.0 293.0 13332.0 0 0 0 0 c 0 0 0 0 481.0 555.0 934.0 849.0 387.0 12710.0 277.0 0 0 0 0 g 0 0 0 0 11670.0 1025.0 478.0 384.0 508.0 356.0 153.0 0 0 0 0 t 0 0 0 0 554.0 11591.0 296.0 220.0 249.0 757.0 354.0 0 0 0 0
MA0850.1_shift4 (FOXP3)				; oligos_7nt_mkv2_m2 versus MA0850.1 (FOXP3); m=16/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.536547; ----rTAAACA---- ; cor=; Ncor= a 0 0 0 0 74.0 20.0 211.0 211.0 211.0 0.0 211.0 0 0 0 0 c 0 0 0 0 0.0 52.0 0.0 0.0 15.0 211.0 0.0 0 0 0 0 g 0 0 0 0 137.0 0.0 0.0 9.0 49.0 32.0 18.0 0 0 0 0 t 0 0 0 0 0.0 211.0 31.0 8.0 0.0 39.0 0.0 0 0 0 0
MA0869.3_shift6 (Sox11)				; oligos_7nt_mkv2_m2 versus MA0869.3 (Sox11); m=17/36; ncol2=8; w=0; offset=2; strand=D; shift=6; score=0.535674; ------GAACAAAG- ; cor=; Ncor= a 0 0 0 0 0 0 1014.0 7912.0 9856.0 119.0 10020.0 9676.0 9276.0 506.0 0 c 0 0 0 0 0 0 764.0 766.0 100.0 9471.0 108.0 264.0 61.0 148.0 0 g 0 0 0 0 0 0 8063.0 1298.0 211.0 501.0 49.0 248.0 233.0 9486.0 0 t 0 0 0 0 0 0 407.0 272.0 81.0 157.0 71.0 60.0 678.0 108.0 0
MA0033.2_shift4 (FOXL1)				; oligos_7nt_mkv2_m2 versus MA0033.2 (FOXL1); m=18/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.533705; ----rTAAACA---- ; cor=; Ncor= a 0 0 0 0 2102.0 10.0 4780.0 4780.0 4780.0 0.0 4780.0 0 0 0 0 c 0 0 0 0 13.0 416.0 628.0 38.0 82.0 3723.0 54.0 0 0 0 0 g 0 0 0 0 2678.0 0.0 57.0 0.0 50.0 0.0 0.0 0 0 0 0 t 0 0 0 0 140.0 4780.0 0.0 15.0 0.0 1057.0 17.0 0 0 0 0
MA0593.2_shift3 (FOXP2)				; oligos_7nt_mkv2_m2 versus MA0593.2 (FOXP2); m=19/36; ncol2=9; w=-1; offset=-1; strand=D; shift=3; score=0.532108; ---wGTAAACAr--- ; cor=; Ncor= a 0 0 0 340.0 160.0 59.0 766.0 766.0 766.0 0.0 766.0 297.0 0 0 0 c 0 0 0 7.0 0.0 0.0 0.0 0.0 0.0 757.0 0.0 154.0 0 0 0 g 0 0 0 142.0 606.0 0.0 0.0 0.0 0.0 0.0 0.0 293.0 0 0 0 t 0 0 0 277.0 0.0 707.0 0.0 0.0 0.0 9.0 0.0 22.0 0 0 0
MA1103.3_shift4 (FOXK2)				; oligos_7nt_mkv2_m2 versus MA1103.3 (FOXK2); m=20/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.528147; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 2697.0 360.0 15913.0 14387.0 15593.0 499.0 15709.0 0 0 0 0 c 0 0 0 0 551.0 210.0 277.0 1291.0 330.0 14282.0 295.0 0 0 0 0 g 0 0 0 0 12737.0 327.0 148.0 436.0 391.0 426.0 170.0 0 0 0 0 t 0 0 0 0 694.0 15782.0 341.0 565.0 365.0 1472.0 505.0 0 0 0 0
MA0848.1_shift4 (FOXO4)				; oligos_7nt_mkv2_m2 versus MA0848.1 (FOXO4); m=21/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.527251; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 1669.0 345.0 5378.0 5378.0 5378.0 58.0 5378.0 0 0 0 0 c 0 0 0 0 13.0 69.0 1259.0 146.0 0.0 5378.0 10.0 0 0 0 0 g 0 0 0 0 5378.0 123.0 32.0 19.0 90.0 33.0 10.0 0 0 0 0 t 0 0 0 0 0.0 5378.0 20.0 20.0 10.0 958.0 40.0 0 0 0 0
MA0849.1_shift4 (FOXO6)				; oligos_7nt_mkv2_m2 versus MA0849.1 (FOXO6); m=22/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.526175; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 1445.0 154.0 7025.0 7025.0 7025.0 0.0 7025.0 0 0 0 0 c 0 0 0 0 0.0 0.0 1147.0 195.0 0.0 7025.0 0.0 0 0 0 0 g 0 0 0 0 7025.0 32.0 7.0 0.0 0.0 31.0 13.0 0 0 0 0 t 0 0 0 0 0.0 7025.0 0.0 26.0 0.0 385.0 0.0 0 0 0 0
MA2117.1_shift4 (FOXP4)				; oligos_7nt_mkv2_m2 versus MA2117.1 (FOXP4); m=23/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.524932; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 2224.0 543.0 19122.0 19613.0 20280.0 379.0 20230.0 0 0 0 0 c 0 0 0 0 834.0 793.0 1545.0 1330.0 419.0 18349.0 443.0 0 0 0 0 g 0 0 0 0 17315.0 539.0 534.0 368.0 550.0 493.0 218.0 0 0 0 0 t 0 0 0 0 1294.0 19792.0 466.0 356.0 418.0 2446.0 776.0 0 0 0 0
MA0031.2_shift4 (FOXD1)				; oligos_7nt_mkv2_m2 versus MA0031.2 (FOXD1); m=24/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.522212; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 1.0 0.0 19.0 20.0 18.0 1.0 20.0 0 0 0 0 c 0 0 0 0 1.0 0.0 1.0 0.0 1.0 18.0 0.0 0 0 0 0 g 0 0 0 0 17.0 0.0 0.0 0.0 1.0 0.0 0.0 0 0 0 0 t 0 0 0 0 1.0 20.0 0.0 0.0 0.0 1.0 0.0 0 0 0 0
MA0481.4_shift4 (FOXP1)				; oligos_7nt_mkv2_m2 versus MA0481.4 (FOXP1); m=25/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.517501; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 10463.0 1209.0 69603.0 65236.0 70030.0 1336.0 68456.0 0 0 0 0 c 0 0 0 0 1573.0 727.0 2095.0 5067.0 1487.0 61094.0 1904.0 0 0 0 0 g 0 0 0 0 59571.0 920.0 1073.0 1830.0 1132.0 1493.0 749.0 0 0 0 0 t 0 0 0 0 3111.0 71862.0 1947.0 2585.0 2069.0 10795.0 3609.0 0 0 0 0
MA0042.2_shift4 (FOXI1)				; oligos_7nt_mkv2_m2 versus MA0042.2 (FOXI1); m=26/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.515876; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 618.0 74.0 5175.0 5175.0 5175.0 157.0 5175.0 0 0 0 0 c 0 0 0 0 39.0 60.0 540.0 23.0 23.0 5175.0 12.0 0 0 0 0 g 0 0 0 0 5175.0 35.0 37.0 0.0 29.0 48.0 25.0 0 0 0 0 t 0 0 0 0 0.0 5175.0 0.0 0.0 66.0 810.0 0.0 0 0 0 0
MA1683.2_shift4 (FOXA3)				; oligos_7nt_mkv2_m2 versus MA1683.2 (FOXA3); m=27/36; ncol2=7; w=0; offset=0; strand=D; shift=4; score=0.515274; ----GTAAACA---- ; cor=; Ncor= a 0 0 0 0 4481.0 758.0 45178.0 43099.0 46046.0 951.0 45552.0 0 0 0 0 c 0 0 0 0 1464.0 903.0 1980.0 3883.0 973.0 39509.0 933.0 0 0 0 0 g 0 0 0 0 40396.0 690.0 636.0 977.0 934.0 1205.0 614.0 0 0 0 0 t 0 0 0 0 2596.0 46586.0 1143.0 978.0 984.0 7272.0 1838.0 0 0 0 0
MA1152.2_rc_shift8 (SOX15_rc)				; oligos_7nt_mkv2_m2 versus MA1152.2_rc (SOX15_rc); m=28/36; ncol2=7; w=0; offset=4; strand=R; shift=8; score=0.509842; --------ACAAwrr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 971.0 5.0 994.0 988.0 362.0 501.0 267.0 c 0 0 0 0 0 0 0 0 3.0 890.0 2.0 6.0 5.0 26.0 147.0 g 0 0 0 0 0 0 0 0 2.0 21.0 2.0 3.0 3.0 412.0 554.0 t 0 0 0 0 0 0 0 0 24.0 83.0 3.0 3.0 631.0 62.0 32.0
MA0868.3_shift7 (SOX8)				; oligos_7nt_mkv2_m2 versus MA0868.3 (SOX8); m=29/36; ncol2=7; w=0; offset=3; strand=D; shift=7; score=0.497133; -------AACAATr- ; cor=; Ncor= a 0 0 0 0 0 0 0 1827.0 1827.0 3.0 1827.0 1827.0 273.0 1356.0 0 c 0 0 0 0 0 0 0 151.0 0.0 1827.0 0.0 43.0 36.0 208.0 0 g 0 0 0 0 0 0 0 263.0 0.0 35.0 0.0 0.0 20.0 1827.0 0 t 0 0 0 0 0 0 0 222.0 45.0 70.0 16.0 36.0 1827.0 287.0 0
MA2118.1_shift3 (FOXS1)				; oligos_7nt_mkv2_m2 versus MA2118.1 (FOXS1); m=30/36; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.482163; ---tGTAAACA---- ; cor=; Ncor= a 0 0 0 66.0 36.0 13.0 345.0 345.0 361.0 9.0 356.0 0 0 0 0 c 0 0 0 20.0 8.0 15.0 15.0 16.0 3.0 322.0 5.0 0 0 0 0 g 0 0 0 49.0 323.0 12.0 5.0 8.0 5.0 7.0 3.0 0 0 0 0 t 0 0 0 239.0 7.0 334.0 9.0 5.0 5.0 36.0 10.0 0 0 0 0
MA1487.3_shift0 (FOXE1)				; oligos_7nt_mkv2_m2 versus MA1487.3 (FOXE1); m=31/36; ncol2=12; w=-4; offset=-4; strand=D; shift=0; score=0.477718; yTAARyAAACAa--- ; cor=; Ncor= a 86.0 581.0 3126.0 2547.0 2255.0 587.0 3126.0 3126.0 3126.0 0.0 3126.0 2026.0 0 0 0 c 1646.0 43.0 28.0 113.0 117.0 1062.0 362.0 90.0 0.0 3126.0 32.0 392.0 0 0 0 g 57.0 0.0 402.0 116.0 871.0 17.0 0.0 0.0 23.0 0.0 18.0 258.0 0 0 0 t 1479.0 2545.0 43.0 579.0 27.0 2064.0 20.0 53.0 9.0 85.0 110.0 450.0 0 0 0
MA0442.3_shift8 (SOX10)				; oligos_7nt_mkv2_m2 versus MA0442.3 (SOX10); m=32/36; ncol2=6; w=0; offset=4; strand=D; shift=8; score=0.46248; --------ACAAAG- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 2023.0 3.0 2029.0 1968.0 1959.0 10.0 0 c 0 0 0 0 0 0 0 0 4.0 1989.0 7.0 28.0 23.0 13.0 0 g 0 0 0 0 0 0 0 0 3.0 11.0 7.0 20.0 12.0 2012.0 0 t 0 0 0 0 0 0 0 0 25.0 52.0 12.0 39.0 61.0 20.0 0
MA0846.2_shift1 (FOXC2)				; oligos_7nt_mkv2_m2 versus MA0846.2 (FOXC2); m=33/36; ncol2=11; w=-3; offset=-3; strand=D; shift=1; score=0.461374; -wAwrTAAAYAw--- ; cor=; Ncor= a 0 8939.0 20456.0 11301.0 6418.0 2005.0 20456.0 20456.0 20456.0 31.0 20456.0 13296.0 0 0 0 c 0 1279.0 1652.0 3476.0 440.0 3773.0 6759.0 344.0 105.0 14435.0 101.0 2087.0 0 0 0 g 0 454.0 5093.0 3129.0 14038.0 321.0 87.0 81.0 279.0 68.0 328.0 1710.0 0 0 0 t 0 11517.0 2080.0 9155.0 136.0 20456.0 122.0 107.0 242.0 6021.0 215.0 7160.0 0 0 0
MA0047.4_shift3 (FOXA2)				; oligos_7nt_mkv2_m2 versus MA0047.4 (FOXA2); m=34/36; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.456933; ---wGTAAACA---- ; cor=; Ncor= a 0 0 0 93740.0 18770.0 3737.0 243805.0 223061.0 248214.0 2411.0 246665.0 0 0 0 0 c 0 0 0 12432.0 2928.0 2037.0 9424.0 22429.0 3329.0 196969.0 3086.0 0 0 0 0 g 0 0 0 38538.0 236311.0 1890.0 2641.0 6484.0 2805.0 3603.0 2984.0 0 0 0 0 t 0 0 0 117443.0 4144.0 254489.0 6283.0 10179.0 7805.0 59170.0 9418.0 0 0 0 0
MA1524.3_shift7 (Msgn1)				; oligos_7nt_mkv2_m2 versus MA1524.3 (Msgn1); m=35/36; ncol2=10; w=0; offset=3; strand=D; shift=7; score=0.446906; -------raCAAATG ; cor=; Ncor= a 0 0 0 0 0 0 0 193.0 363.0 0.0 537.0 460.0 537.0 18.0 1.0 c 0 0 0 0 0 0 0 21.0 128.0 539.0 3.0 8.0 4.0 6.0 2.0 g 0 0 0 0 0 0 0 324.0 46.0 2.0 0.0 52.0 0.0 3.0 531.0 t 0 0 0 0 0 0 0 4.0 5.0 1.0 2.0 22.0 1.0 515.0 8.0
MA1607.2_shift1 (Foxl2)				; oligos_7nt_mkv2_m2 versus MA1607.2 (Foxl2); m=36/36; ncol2=10; w=-3; offset=-3; strand=D; shift=1; score=0.416573; -waTGTAAACA---- ; cor=; Ncor= a 0 6433.0 11158.0 2985.0 2607.0 1097.0 17227.0 17212.0 17146.0 282.0 15623.0 0 0 0 0 c 0 1576.0 2051.0 896.0 367.0 301.0 558.0 336.0 216.0 15698.0 807.0 0 0 0 0 g 0 1599.0 2107.0 1371.0 14648.0 419.0 112.0 187.0 411.0 151.0 401.0 0 0 0 0 t 0 8493.0 2785.0 12849.0 479.0 16284.0 204.0 366.0 328.0 1970.0 1270.0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv2_m1_shift2 (oligos_7nt_mkv2_m1)				; oligos_7nt_mkv2_m1; m=0 (reference); ncol1=11; shift=2; ncol=13; --mtCCCAGCAas ; Alignment reference a 0 0 17 8 5 1 0 40 1 0 44 19 8 c 0 0 13 8 40 40 41 2 1 41 0 8 12 g 0 0 8 7 0 1 0 1 41 2 0 8 17 t 0 0 7 22 0 3 4 2 2 2 1 10 8
MA2125.1_shift2 (Zfp809)				; oligos_7nt_mkv2_m1 versus MA2125.1 (Zfp809); m=1/8; ncol2=9; w=0; offset=0; strand=D; shift=2; score=0.661382; --wTCCCAGCc-- ; cor=; Ncor= a 0 0 828.0 23.0 15.0 20.0 10.0 1529.0 32.0 287.0 217.0 0 0 c 0 0 66.0 41.0 1607.0 1610.0 1621.0 26.0 35.0 1218.0 1091.0 0 0 g 0 0 81.0 23.0 18.0 14.0 16.0 73.0 1572.0 99.0 115.0 0 0 t 0 0 690.0 1578.0 25.0 21.0 18.0 37.0 26.0 61.0 242.0 0 0
MA1724.2_shift4 (Rfx6)				; oligos_7nt_mkv2_m1 versus MA1724.2 (Rfx6); m=2/8; ncol2=9; w=0; offset=2; strand=D; shift=4; score=0.639745; ----CCTAGCAAC ; cor=; Ncor= a 0 0 0 0 187.0 1093.0 344.0 7215.0 179.0 378.0 8085.0 7740.0 552.0 c 0 0 0 0 7859.0 6405.0 1066.0 64.0 102.0 7474.0 117.0 258.0 6811.0 g 0 0 0 0 232.0 242.0 146.0 1205.0 8215.0 359.0 132.0 339.0 552.0 t 0 0 0 0 272.0 810.0 6994.0 66.0 54.0 339.0 216.0 213.0 635.0
MA1629.2_shift4 (Zic2)				; oligos_7nt_mkv2_m1 versus MA1629.2 (Zic2); m=3/8; ncol2=9; w=0; offset=2; strand=D; shift=4; score=0.628515; ----CaCAGCAGG ; cor=; Ncor= a 0 0 0 0 1161.0 6888.0 135.0 11074.0 140.0 80.0 10625.0 192.0 96.0 c 0 0 0 0 9933.0 1765.0 11476.0 391.0 228.0 11272.0 118.0 133.0 204.0 g 0 0 0 0 585.0 829.0 188.0 186.0 11484.0 269.0 735.0 11184.0 11465.0 t 0 0 0 0 240.0 2437.0 120.0 268.0 67.0 298.0 441.0 410.0 154.0
MA0697.3_shift6 (Zic3)				; oligos_7nt_mkv2_m1 versus MA0697.3 (Zic3); m=4/8; ncol2=7; w=0; offset=4; strand=D; shift=6; score=0.537437; ------CAGCAGG ; cor=; Ncor= a 0 0 0 0 0 0 345.0 23947.0 331.0 354.0 22980.0 393.0 347.0 c 0 0 0 0 0 0 25035.0 872.0 670.0 24272.0 568.0 500.0 955.0 g 0 0 0 0 0 0 460.0 759.0 24907.0 756.0 1768.0 24314.0 24340.0 t 0 0 0 0 0 0 334.0 596.0 266.0 792.0 858.0 967.0 532.0
MA1628.2_shift6 (Zic1::Zic2)				; oligos_7nt_mkv2_m1 versus MA1628.2 (Zic1::Zic2); m=5/8; ncol2=7; w=0; offset=4; strand=D; shift=6; score=0.535437; ------CAGCAGG ; cor=; Ncor= a 0 0 0 0 0 0 29.0 9238.0 96.0 75.0 8950.0 11.0 46.0 c 0 0 0 0 0 0 9594.0 384.0 195.0 9293.0 311.0 512.0 91.0 g 0 0 0 0 0 0 106.0 266.0 9527.0 96.0 627.0 9279.0 9631.0 t 0 0 0 0 0 0 163.0 4.0 74.0 428.0 4.0 90.0 124.0
MA2341.1_shift4 (FEZF2)				; oligos_7nt_mkv2_m1 versus MA2341.1 (FEZF2); m=6/8; ncol2=8; w=0; offset=2; strand=D; shift=4; score=0.512765; ----CCCAGCCT- ; cor=; Ncor= a 0 0 0 0 17.0 5.0 4.0 231.0 6.0 8.0 7.0 14.0 0 c 0 0 0 0 202.0 206.0 258.0 15.0 8.0 224.0 247.0 10.0 0 g 0 0 0 0 10.0 9.0 0.0 14.0 251.0 28.0 2.0 8.0 0 t 0 0 0 0 36.0 45.0 3.0 5.0 0.0 5.0 9.0 233.0 0
MA1116.2_rc_shift2 (RBPJ_rc)				; oligos_7nt_mkv2_m1 versus MA1116.2_rc (RBPJ_rc); m=7/8; ncol2=6; w=0; offset=0; strand=R; shift=2; score=0.454872; --TTCCCA----- ; cor=; Ncor= a 0 0 4.0 29.0 78.0 60.0 1.0 2386.0 0 0 0 0 0 c 0 0 1.0 4.0 2309.0 2313.0 2341.0 2.0 0 0 0 0 0 g 0 0 15.0 0.0 8.0 20.0 25.0 12.0 0 0 0 0 0 t 0 0 2382.0 2369.0 7.0 9.0 35.0 2.0 0 0 0 0 0
MA0483.2_shift0 (Gfi1B)				; oligos_7nt_mkv2_m1 versus MA0483.2 (Gfi1B); m=8/8; ncol2=10; w=-2; offset=-2; strand=D; shift=0; score=0.431551; aAATCwCwGC--- ; cor=; Ncor= a 1124.0 1761.0 1759.0 0.0 0.0 1033.0 61.0 1116.0 57.0 142.0 0 0 0 c 438.0 0.0 0.0 338.0 1761.0 21.0 1312.0 0.0 1.0 1328.0 0 0 0 g 104.0 0.0 2.0 28.0 0.0 0.0 388.0 1.0 1676.0 76.0 0 0 0 t 95.0 0.0 0.0 1395.0 0.0 707.0 0.0 644.0 27.0 215.0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv2_m3_shift0 (oligos_7nt_mkv2_m3)				; oligos_7nt_mkv2_m3; m=0 (reference); ncol1=11; shift=0; ncol=11; myAGCCAATww ; Alignment reference a 11 4 26 1 2 2 25 26 4 9 8 c 7 8 1 1 22 24 0 1 0 5 6 g 3 4 0 25 1 0 1 0 0 5 3 t 6 11 0 0 2 1 1 0 23 8 10
MA0502.3_rc_shift2 (NFYB_rc)				; oligos_7nt_mkv2_m3 versus MA0502.3_rc (NFYB_rc); m=1/34; ncol2=9; w=0; offset=2; strand=R; shift=2; score=0.636717; --GGCCAATGr ; cor=; Ncor= a 0 0 1338.0 639.0 61.0 110.0 7231.0 6852.0 233.0 333.0 3410.0 c 0 0 139.0 173.0 7272.0 7250.0 102.0 227.0 57.0 1481.0 901.0 g 0 0 5823.0 6488.0 58.0 41.0 37.0 241.0 181.0 5447.0 2705.0 t 0 0 154.0 154.0 63.0 53.0 84.0 134.0 6983.0 193.0 438.0
MA1644.2_shift4 (NFYC)				; oligos_7nt_mkv2_m3 versus MA1644.2 (NFYC); m=2/34; ncol2=7; w=0; offset=4; strand=D; shift=4; score=0.541999; ----CCAATCA ; cor=; Ncor= a 0 0 0 0 287.0 380.0 12776.0 12317.0 259.0 532.0 11826.0 c 0 0 0 0 12507.0 12880.0 325.0 376.0 374.0 11224.0 711.0 g 0 0 0 0 394.0 111.0 103.0 549.0 71.0 1464.0 891.0 t 0 0 0 0 428.0 245.0 412.0 374.0 12912.0 396.0 188.0
MA0060.4_shift4 (NFYA)				; oligos_7nt_mkv2_m3 versus MA0060.4 (NFYA); m=3/34; ncol2=8; w=0; offset=4; strand=D; shift=4; score=0.498829; ----CCAATCA ; cor=; Ncor= a 0 0 0 0 23.0 31.0 4683.0 4584.0 37.0 166.0 4088.0 c 0 0 0 0 4657.0 4713.0 29.0 94.0 132.0 4215.0 213.0 g 0 0 0 0 34.0 28.0 17.0 124.0 11.0 319.0 489.0 t 0 0 0 0 111.0 53.0 96.0 23.0 4645.0 125.0 35.0
MA0650.4_shift4 (Hoxa13)				; oligos_7nt_mkv2_m3 versus MA0650.4 (Hoxa13); m=4/34; ncol2=8; w=0; offset=4; strand=D; shift=4; score=0.481101; ----CCAATAA ; cor=; Ncor= a 0 0 0 0 1442.0 1273.0 14069.0 15410.0 105.0 15804.0 16813.0 c 0 0 0 0 12600.0 14100.0 1594.0 243.0 249.0 205.0 125.0 g 0 0 0 0 1889.0 77.0 146.0 666.0 232.0 407.0 98.0 t 0 0 0 0 1317.0 1798.0 1439.0 929.0 16662.0 832.0 212.0
MA0642.3_shift4 (EN2)				; oligos_7nt_mkv2_m3 versus MA0642.3 (EN2); m=5/34; ncol2=7; w=0; offset=4; strand=D; shift=4; score=0.477618; ----syAATTA ; cor=; Ncor= a 0 0 0 0 115.0 0.0 898.0 898.0 0.0 28.0 898.0 c 0 0 0 0 898.0 577.0 198.0 0.0 0.0 0.0 4.0 g 0 0 0 0 474.0 0.0 44.0 31.0 0.0 0.0 168.0 t 0 0 0 0 313.0 321.0 103.0 0.0 898.0 898.0 0.0
MA0889.2_shift4 (GBX1)				; oligos_7nt_mkv2_m3 versus MA0889.2 (GBX1); m=6/34; ncol2=7; w=0; offset=4; strand=D; shift=4; score=0.470008; ----syAATTA ; cor=; Ncor= a 0 0 0 0 1674.0 243.0 27339.0 27339.0 45.0 312.0 27339.0 c 0 0 0 0 14978.0 13543.0 589.0 172.0 128.0 438.0 50.0 g 0 0 0 0 6964.0 15.0 758.0 29.0 1.0 246.0 8.0 t 0 0 0 0 3723.0 13796.0 157.0 23.0 27339.0 27339.0 321.0
MA0701.3_shift4 (LHX9)				; oligos_7nt_mkv2_m3 versus MA0701.3 (LHX9); m=7/34; ncol2=7; w=0; offset=4; strand=D; shift=4; score=0.456163; ----CyAATTA ; cor=; Ncor= a 0 0 0 0 390.0 0.0 6075.0 6075.0 0.0 0.0 6075.0 c 0 0 0 0 6075.0 2093.0 505.0 0.0 0.0 0.0 0.0 g 0 0 0 0 1056.0 0.0 0.0 0.0 0.0 170.0 305.0 t 0 0 0 0 1219.0 3983.0 20.0 0.0 6075.0 6075.0 0.0
MA0644.3_shift4 (ESX1)				; oligos_7nt_mkv2_m3 versus MA0644.3 (ESX1); m=8/34; ncol2=7; w=0; offset=4; strand=D; shift=4; score=0.453691; ----yyAATTA ; cor=; Ncor= a 0 0 0 0 1070.0 589.0 19670.0 19670.0 0.0 47.0 19670.0 c 0 0 0 0 11980.0 7595.0 634.0 95.0 0.0 1009.0 0.0 g 0 0 0 0 2110.0 0.0 821.0 0.0 0.0 225.0 925.0 t 0 0 0 0 7690.0 12075.0 181.0 0.0 19670.0 19670.0 557.0
MA0671.2_shift2 (NFIX)				; oligos_7nt_mkv2_m3 versus MA0671.2 (NFIX); m=9/34; ncol2=6; w=0; offset=2; strand=D; shift=2; score=0.451743; --tGCCAr--- ; cor=; Ncor= a 0 0 11279.0 132.0 3.0 0.0 32864.0 32864.0 0 0 0 c 0 0 9695.0 186.0 32864.0 32864.0 2230.0 1356.0 0 0 0 g 0 0 5911.0 32864.0 3257.0 0.0 180.0 12688.0 0 0 0 t 0 0 32864.0 2539.0 29.0 0.0 110.0 2399.0 0 0 0
MA0901.3_shift4 (HOXB13)				; oligos_7nt_mkv2_m3 versus MA0901.3 (HOXB13); m=10/34; ncol2=9; w=0; offset=4; strand=D; shift=4; score=0.440985; ----cCAATAA ; cor=; Ncor= a 0 0 0 0 11896.0 4212.0 66409.0 73044.0 421.0 73612.0 75997.0 c 0 0 0 0 47674.0 65312.0 4611.0 726.0 550.0 523.0 599.0 g 0 0 0 0 9096.0 582.0 351.0 1913.0 586.0 1083.0 490.0 t 0 0 0 0 10048.0 8608.0 7343.0 3031.0 77157.0 3496.0 1628.0
MA0700.3_shift5 (LHX2)				; oligos_7nt_mkv2_m3 versus MA0700.3 (LHX2); m=11/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.440572; -----CAATTA ; cor=; Ncor= a 0 0 0 0 0 44.0 5790.0 6022.0 129.0 67.0 6275.0 c 0 0 0 0 0 5612.0 71.0 101.0 58.0 5.0 13.0 g 0 0 0 0 0 37.0 52.0 77.0 64.0 5.0 6.0 t 0 0 0 0 0 640.0 420.0 133.0 6082.0 6256.0 39.0
MA0708.3_shift5 (MSX2)				; oligos_7nt_mkv2_m3 versus MA0708.3 (MSX2); m=12/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.436355; -----YAATTA ; cor=; Ncor= a 0 0 0 0 0 220.0 6353.0 6353.0 0.0 62.0 6353.0 c 0 0 0 0 0 6353.0 175.0 112.0 0.0 600.0 0.0 g 0 0 0 0 0 0.0 259.0 0.0 0.0 0.0 243.0 t 0 0 0 0 0 2737.0 0.0 0.0 6353.0 6353.0 0.0
MA0709.2_shift5 (Msx3)				; oligos_7nt_mkv2_m3 versus MA0709.2 (Msx3); m=13/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.433822; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 312.0 8380.0 8380.0 0.0 121.0 8380.0 c 0 0 0 0 0 5798.0 160.0 89.0 0.0 215.0 59.0 g 0 0 0 0 0 29.0 237.0 38.0 0.0 105.0 88.0 t 0 0 0 0 0 2582.0 94.0 5.0 8380.0 8380.0 213.0
MA0666.3_shift5 (MSX1)				; oligos_7nt_mkv2_m3 versus MA0666.3 (MSX1); m=14/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.430842; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 227.0 5064.0 5064.0 0.0 0.0 5064.0 c 0 0 0 0 0 5064.0 125.0 42.0 0.0 280.0 0.0 g 0 0 0 0 0 0.0 146.0 0.0 0.0 0.0 159.0 t 0 0 0 0 0 2415.0 0.0 0.0 5064.0 5064.0 0.0
MA0879.3_shift5 (DLX1)				; oligos_7nt_mkv2_m3 versus MA0879.3 (DLX1); m=15/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.42198; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 265.0 6231.0 6231.0 0.0 0.0 6231.0 c 0 0 0 0 0 4059.0 1212.0 222.0 0.0 639.0 0.0 g 0 0 0 0 0 0.0 954.0 0.0 0.0 155.0 168.0 t 0 0 0 0 0 2171.0 540.0 0.0 6231.0 6231.0 614.0
MA0909.4_shift5 (Hoxd13)				; oligos_7nt_mkv2_m3 versus MA0909.4 (Hoxd13); m=16/34; ncol2=7; w=0; offset=5; strand=D; shift=5; score=0.419281; -----CAATAA ; cor=; Ncor= a 0 0 0 0 0 16.0 5775.0 5923.0 0.0 5955.0 5923.0 c 0 0 0 0 0 5866.0 5.0 13.0 2.0 4.0 37.0 g 0 0 0 0 0 34.0 148.0 11.0 3.0 7.0 2.0 t 0 0 0 0 0 61.0 49.0 30.0 5972.0 11.0 15.0
MA0717.2_shift5 (RAX2)				; oligos_7nt_mkv2_m3 versus MA0717.2 (RAX2); m=17/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.41769; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 3558.0 38860.0 38860.0 270.0 2167.0 38860.0 c 0 0 0 0 0 19645.0 3060.0 1523.0 738.0 4232.0 2644.0 g 0 0 0 0 0 1688.0 4490.0 757.0 125.0 2513.0 360.0 t 0 0 0 0 0 19215.0 2421.0 1030.0 38860.0 38860.0 4258.0
MA0881.2_shift5 (Dlx4)				; oligos_7nt_mkv2_m3 versus MA0881.2 (Dlx4); m=18/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.417678; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 724.0 12054.0 12054.0 88.0 440.0 12054.0 c 0 0 0 0 0 6841.0 1500.0 744.0 85.0 868.0 316.0 g 0 0 0 0 0 145.0 739.0 55.0 38.0 542.0 134.0 t 0 0 0 0 0 5213.0 883.0 499.0 12054.0 12054.0 1127.0
MA0890.2_shift5 (GBX2)				; oligos_7nt_mkv2_m3 versus MA0890.2 (GBX2); m=19/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.417072; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 699.0 27366.0 27366.0 0.0 318.0 27366.0 c 0 0 0 0 0 15511.0 570.0 250.0 61.0 570.0 73.0 g 0 0 0 0 0 106.0 1113.0 114.0 65.0 673.0 30.0 t 0 0 0 0 0 11855.0 227.0 25.0 27366.0 27366.0 650.0
MA0894.2_rc_shift5 (HESX1_rc)				; oligos_7nt_mkv2_m3 versus MA0894.2_rc (HESX1_rc); m=20/34; ncol2=6; w=0; offset=5; strand=R; shift=5; score=0.416604; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 97.0 4072.0 4072.0 0.0 31.0 4072.0 c 0 0 0 0 0 2180.0 0.0 15.0 9.0 53.0 34.0 g 0 0 0 0 0 38.0 15.0 0.0 7.0 0.0 0.0 t 0 0 0 0 0 1892.0 0.0 0.0 4072.0 4072.0 187.0
MA0718.2_shift5 (RAX)				; oligos_7nt_mkv2_m3 versus MA0718.2 (RAX); m=21/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.416302; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 214.0 2412.0 2412.0 123.0 71.0 2412.0 c 0 0 0 0 0 1281.0 17.0 38.0 0.0 71.0 0.0 g 0 0 0 0 0 25.0 3.0 12.0 0.0 49.0 20.0 t 0 0 0 0 0 1131.0 40.0 24.0 2412.0 2412.0 126.0
MA0880.2_shift5 (Dlx3)				; oligos_7nt_mkv2_m3 versus MA0880.2 (Dlx3); m=22/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.416197; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 572.0 7323.0 7323.0 173.0 399.0 7323.0 c 0 0 0 0 0 4133.0 995.0 536.0 66.0 535.0 202.0 g 0 0 0 0 0 164.0 587.0 62.0 60.0 452.0 101.0 t 0 0 0 0 0 3190.0 643.0 299.0 7323.0 7323.0 691.0
MA0027.3_shift5 (EN1)				; oligos_7nt_mkv2_m3 versus MA0027.3 (EN1); m=23/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.415118; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 104.0 2891.0 2891.0 0.0 57.0 2891.0 c 0 0 0 0 0 1328.0 99.0 28.0 0.0 483.0 0.0 g 0 0 0 0 0 5.0 71.0 0.0 0.0 162.0 30.0 t 0 0 0 0 0 1562.0 0.0 0.0 2891.0 2891.0 132.0
MA0720.2_shift5 (Shox2)				; oligos_7nt_mkv2_m3 versus MA0720.2 (Shox2); m=24/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.412461; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 979.0 18179.0 18179.0 29.0 597.0 18179.0 c 0 0 0 0 0 9027.0 626.0 138.0 12.0 545.0 193.0 g 0 0 0 0 0 228.0 426.0 3.0 0.0 870.0 36.0 t 0 0 0 0 0 9152.0 766.0 79.0 18179.0 18179.0 895.0
MA0670.2_shift2 (NFIA)				; oligos_7nt_mkv2_m3 versus MA0670.2 (NFIA); m=25/34; ncol2=6; w=0; offset=2; strand=D; shift=2; score=0.411894; --TGCCAA--- ; cor=; Ncor= a 0 0 0.0 0.0 0.0 0.0 89071.0 89418.0 0 0 0 c 0 0 0.0 0.0 93597.0 93394.0 0.0 0.0 0 0 0 g 0 0 0.0 98253.0 0.0 0.0 0.0 0.0 0 0 0 t 0 0 95496.0 0.0 0.0 0.0 0.0 0.0 0 0 0
MA0699.2_shift5 (LBX2)				; oligos_7nt_mkv2_m3 versus MA0699.2 (LBX2); m=26/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.410228; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 157.0 2996.0 2996.0 0.0 150.0 2996.0 c 0 0 0 0 0 1634.0 338.0 290.0 29.0 258.0 34.0 g 0 0 0 0 0 109.0 325.0 130.0 118.0 293.0 106.0 t 0 0 0 0 0 1362.0 57.0 89.0 2996.0 2996.0 148.0
MA0721.2_shift5 (UNCX)				; oligos_7nt_mkv2_m3 versus MA0721.2 (UNCX); m=27/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.410058; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 3975.0 36926.0 36926.0 481.0 3111.0 36926.0 c 0 0 0 0 0 16800.0 2540.0 1302.0 806.0 3958.0 2211.0 g 0 0 0 0 0 2086.0 4582.0 420.0 117.0 1782.0 731.0 t 0 0 0 0 0 20126.0 2629.0 890.0 36926.0 36926.0 3885.0
MA0882.2_shift5 (DLX6)				; oligos_7nt_mkv2_m3 versus MA0882.2 (DLX6); m=28/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.409874; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 137.0 2623.0 2623.0 12.0 48.0 2623.0 c 0 0 0 0 0 1410.0 273.0 124.0 0.0 140.0 30.0 g 0 0 0 0 0 21.0 143.0 0.0 0.0 68.0 16.0 t 0 0 0 0 0 1212.0 184.0 56.0 2623.0 2623.0 193.0
MA0716.2_shift5 (PRRX1)				; oligos_7nt_mkv2_m3 versus MA0716.2 (PRRX1); m=29/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.408552; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 2373.0 23897.0 23897.0 0.0 1264.0 23897.0 c 0 0 0 0 0 11122.0 1088.0 503.0 3.0 2302.0 644.0 g 0 0 0 0 0 1121.0 1776.0 202.0 0.0 1004.0 136.0 t 0 0 0 0 0 12775.0 810.0 209.0 23897.0 23897.0 1229.0
MA0662.2_shift5 (MIXL1)				; oligos_7nt_mkv2_m3 versus MA0662.2 (MIXL1); m=30/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.40831; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 2635.0 27042.0 27042.0 0.0 1385.0 27042.0 c 0 0 0 0 0 11639.0 1911.0 662.0 510.0 4270.0 1903.0 g 0 0 0 0 0 1245.0 3660.0 556.0 181.0 2031.0 115.0 t 0 0 0 0 0 15403.0 1038.0 736.0 27042.0 27042.0 2895.0
MA0125.2_rc_shift5 (Nobox_rc)				; oligos_7nt_mkv2_m3 versus MA0125.2_rc (Nobox_rc); m=31/34; ncol2=6; w=0; offset=5; strand=R; shift=5; score=0.407366; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 1.0 32.0 34.0 0.0 2.0 37.0 c 0 0 0 0 0 22.0 4.0 2.0 0.0 0.0 0.0 g 0 0 0 0 0 0.0 0.0 1.0 0.0 0.0 1.0 t 0 0 0 0 0 15.0 2.0 1.0 38.0 36.0 0.0
MA0630.2_rc_shift5 (SHOX_rc)				; oligos_7nt_mkv2_m3 versus MA0630.2_rc (SHOX_rc); m=32/34; ncol2=6; w=0; offset=5; strand=R; shift=5; score=0.406559; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 111.0 768.0 943.0 2.0 45.0 886.0 c 0 0 0 0 0 424.0 84.0 27.0 5.0 55.0 9.0 g 0 0 0 0 0 48.0 50.0 15.0 2.0 48.0 30.0 t 0 0 0 0 0 416.0 98.0 15.0 991.0 852.0 74.0
MA0634.2_shift5 (ALX3)				; oligos_7nt_mkv2_m3 versus MA0634.2 (ALX3); m=33/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.405277; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 794.0 7877.0 7877.0 76.0 697.0 7877.0 c 0 0 0 0 0 3367.0 506.0 317.0 72.0 729.0 449.0 g 0 0 0 0 0 345.0 885.0 141.0 8.0 239.0 87.0 t 0 0 0 0 0 4510.0 629.0 231.0 7877.0 7877.0 977.0
MA0654.2_shift5 (ISX)				; oligos_7nt_mkv2_m3 versus MA0654.2 (ISX); m=34/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.403616; -----yAATTA ; cor=; Ncor= a 0 0 0 0 0 10.0 2065.0 2065.0 0.0 0.0 2065.0 c 0 0 0 0 0 1003.0 48.0 16.0 0.0 0.0 0.0 g 0 0 0 0 0 0.0 5.0 0.0 0.0 24.0 0.0 t 0 0 0 0 0 1061.0 24.0 10.0 2065.0 2065.0 49.0