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.2025-05-16.175517_2025-05-16.175517_w6aMRg/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.2025-05-16.175517_2025-05-16.175517_w6aMRg/results/discovered_vs_db/peak-motifs_motifs_vs_db_JASPAR2024_CORE_vertebrates_non-redundant.tab

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv1_m2_shift4 ; 20 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv1_m2_shift4 (oligos_6nt_mkv1_m2)
; oligos_6nt_mkv1_m2; m=0 (reference); ncol1=13; shift=4; ncol=17; ----mtGtCATRTsAyv ; Alignment reference a 0 0 0 0 8 2 2 3 0 17 0 5 2 1 15 0 7 c 0 0 0 0 5 4 1 3 13 1 4 0 1 5 0 7 5 g 0 0 0 0 2 2 13 0 4 0 0 13 0 11 2 3 6 t 0 0 0 0 3 10 2 12 1 0 14 0 15 1 1 8 0

MA0093.4_shift6 (USF1)
; oligos_6nt_mkv1_m2 versus MA0093.4 (USF1); m=1/19; ncol2=10; w=0; offset=2; strand=D; shift=6; score=0.718843; ------GTCATGTGAC- ; cor=; Ncor= a 0 0 0 0 0 0 7574.0 3841.0 533.0 53654.0 418.0 3453.0 448.0 403.0 45587.0 1845.0 0 c 0 0 0 0 0 0 3030.0 9543.0 53536.0 654.0 13185.0 1387.0 264.0 817.0 3045.0 41450.0 0 g 0 0 0 0 0 0 43094.0 3912.0 766.0 477.0 3666.0 50076.0 601.0 53634.0 4679.0 3018.0 0 t 0 0 0 0 0 0 1636.0 38038.0 499.0 549.0 38065.0 418.0 54021.0 480.0 2023.0 9021.0 0

MA0620.4_rc_shift6 (MITF_rc)
; oligos_6nt_mkv1_m2 versus MA0620.4_rc (MITF_rc); m=2/19; ncol2=10; w=0; offset=2; strand=R; shift=6; score=0.672009; ------rTCACGTGAy- ; cor=; Ncor= a 0 0 0 0 0 0 19439.0 2414.0 237.0 61548.0 313.0 14302.0 760.0 208.0 53123.0 2120.0 0 c 0 0 0 0 0 0 5204.0 4999.0 62666.0 751.0 47768.0 1140.0 469.0 416.0 2991.0 36761.0 0 g 0 0 0 0 0 0 36765.0 2990.0 416.0 469.0 1140.0 47772.0 751.0 62666.0 4997.0 5205.0 0 t 0 0 0 0 0 0 2119.0 53124.0 208.0 759.0 14306.0 313.0 61547.0 237.0 2416.0 19441.0 0

MA0831.3_rc_shift6 (TFE3_rc)
; oligos_6nt_mkv1_m2 versus MA0831.3_rc (TFE3_rc); m=3/19; ncol2=10; w=0; offset=2; strand=R; shift=6; score=0.636612; ------rTCACGTGAy- ; cor=; Ncor= a 0 0 0 0 0 0 6291.0 594.0 0.0 19939.0 0.0 774.0 34.0 0.0 19939.0 142.0 0 c 0 0 0 0 0 0 1050.0 1725.0 19939.0 16.0 19939.0 6.0 6.0 4.0 1295.0 13651.0 0 g 0 0 0 0 0 0 13648.0 1312.0 5.0 0.0 6.0 19939.0 10.0 19939.0 1743.0 1050.0 0 t 0 0 0 0 0 0 124.0 19939.0 0.0 39.0 782.0 0.0 19939.0 0.0 591.0 6289.0 0

MA0526.5_shift6 (USF2)
; oligos_6nt_mkv1_m2 versus MA0526.5 (USF2); m=4/19; ncol2=10; w=0; offset=2; strand=D; shift=6; score=0.628356; ------rTCACGTGAy- ; cor=; Ncor= a 0 0 0 0 0 0 7043.0 450.0 0.0 18731.0 0.0 41.0 10.0 15.0 16175.0 33.0 0 c 0 0 0 0 0 0 583.0 2548.0 18731.0 6.0 18731.0 0.0 4.0 9.0 162.0 11694.0 0 g 0 0 0 0 0 0 11688.0 160.0 6.0 4.0 9.0 18731.0 12.0 18731.0 2556.0 574.0 0 t 0 0 0 0 0 0 46.0 16183.0 7.0 5.0 39.0 0.0 18731.0 0.0 440.0 7037.0 0

MA0636.1_rc_shift6 (BHLHE41_rc)
; oligos_6nt_mkv1_m2 versus MA0636.1_rc (BHLHE41_rc); m=5/19; ncol2=10; w=0; offset=2; strand=R; shift=6; score=0.615222; ------gTCACGTGAy- ; cor=; Ncor= a 0 0 0 0 0 0 1963.0 23.0 0.0 5574.0 0.0 5.0 3.0 1.0 5574.0 59.0 0 c 0 0 0 0 0 0 985.0 7.0 5574.0 16.0 5574.0 1.0 21.0 3.0 1831.0 5574.0 0 g 0 0 0 0 0 0 5574.0 1229.0 1.0 16.0 1.0 5574.0 12.0 5574.0 17.0 1046.0 0 t 0 0 0 0 0 0 74.0 5574.0 1.0 19.0 2.0 1.0 5574.0 2.0 98.0 2894.0 0

MA0828.3_shift6 (SREBF2)
; oligos_6nt_mkv1_m2 versus MA0828.3 (SREBF2); m=6/19; ncol2=10; w=0; offset=2; strand=D; shift=6; score=0.602621; ------rTCACGTGAy- ; cor=; Ncor= a 0 0 0 0 0 0 9699.0 103.0 0.0 14252.0 12.0 6.0 2.0 0.0 14252.0 1.0 0 c 0 0 0 0 0 0 119.0 60.0 14252.0 0.0 14252.0 553.0 218.0 26.0 1.0 4548.0 0 g 0 0 0 0 0 0 4554.0 4.0 24.0 205.0 556.0 14252.0 0.0 14252.0 61.0 116.0 0 t 0 0 0 0 0 0 1.0 14252.0 0.0 1.0 5.0 12.0 14252.0 0.0 107.0 9704.0 0

MA0663.1_shift6 (MLX)
; oligos_6nt_mkv1_m2 versus MA0663.1 (MLX); m=7/19; ncol2=10; w=0; offset=2; strand=D; shift=6; score=0.59418; ------rTCACGTGAt- ; cor=; Ncor= a 0 0 0 0 0 0 177.0 0.0 3.0 234.0 0.0 1.0 2.0 2.0 240.0 23.0 0 c 0 0 0 0 0 0 4.0 17.0 251.0 0.0 257.0 0.0 1.0 0.0 9.0 84.0 0 g 0 0 0 0 0 0 110.0 61.0 3.0 6.0 0.0 558.0 1.0 555.0 35.0 6.0 0 t 0 0 0 0 0 0 41.0 322.0 4.0 0.0 0.0 1.0 315.0 5.0 16.0 235.0 0

MA0829.3_rc_shift6 (SREBF1_rc)
; oligos_6nt_mkv1_m2 versus MA0829.3_rc (SREBF1_rc); m=8/19; ncol2=10; w=0; offset=2; strand=R; shift=6; score=0.582117; ------ATCAsGTGAT- ; cor=; Ncor= a 0 0 0 0 0 0 5034.0 197.0 71.0 6866.0 61.0 124.0 131.0 110.0 6670.0 160.0 0 c 0 0 0 0 0 0 510.0 116.0 6786.0 45.0 2702.0 1467.0 57.0 158.0 128.0 1576.0 0 g 0 0 0 0 0 0 1456.0 118.0 221.0 100.0 4187.0 5502.0 61.0 6770.0 165.0 484.0 0 t 0 0 0 0 0 0 141.0 6710.0 63.0 130.0 191.0 48.0 6892.0 103.0 178.0 4921.0 0

MA1570.1_shift6 (TFAP4)
; oligos_6nt_mkv1_m2 versus MA1570.1 (TFAP4); m=9/19; ncol2=10; w=0; offset=2; strand=D; shift=6; score=0.550027; ------ahCAyrTGkt- ; cor=; Ncor= a 0 0 0 0 0 0 479.0 217.0 0.0 479.0 0.0 479.0 0.0 0.0 103.0 60.0 0 c 0 0 0 0 0 0 130.0 144.0 479.0 0.0 220.0 149.0 0.0 3.0 14.0 210.0 0 g 0 0 0 0 0 0 197.0 0.0 0.0 14.0 161.0 287.0 0.0 479.0 156.0 110.0 0 t 0 0 0 0 0 0 39.0 129.0 0.0 0.0 479.0 0.0 479.0 0.0 206.0 479.0 0

MA0692.2_rc_shift6 (TFEB_rc)
; oligos_6nt_mkv1_m2 versus MA0692.2_rc (TFEB_rc); m=10/19; ncol2=8; w=0; offset=2; strand=R; shift=6; score=0.525379; ------rTCACGTG--- ; cor=; Ncor= a 0 0 0 0 0 0 2826.0 807.0 11.0 8715.0 5.0 1155.0 274.0 3.0 0 0 0 c 0 0 0 0 0 0 558.0 872.0 8715.0 150.0 8715.0 83.0 62.0 0.0 0 0 0 g 0 0 0 0 0 0 5889.0 2342.0 10.0 169.0 288.0 8715.0 286.0 8715.0 0 0 0 t 0 0 0 0 0 0 283.0 8715.0 9.0 454.0 2762.0 0.0 8715.0 17.0 0 0 0

MA1939.2_shift0 (ERF::SREBF2)
; oligos_6nt_mkv1_m2 versus MA1939.2 (ERF::SREBF2); m=11/19; ncol2=16; w=-4; offset=-4; strand=D; shift=0; score=0.506271; sCGGAArTCACGTGAy- ; cor=; Ncor= a 93.0 58.0 5.0 2.0 373.0 373.0 227.0 4.0 37.0 373.0 0.0 0.0 30.0 0.0 299.0 7.0 0 c 211.0 373.0 7.0 15.0 7.0 61.0 0.0 4.0 373.0 2.0 373.0 96.0 10.0 0.0 0.0 111.0 0 g 162.0 1.0 373.0 373.0 0.0 0.0 146.0 13.0 7.0 4.0 5.0 373.0 8.0 373.0 24.0 8.0 0 t 17.0 34.0 0.0 14.0 31.0 73.0 1.0 352.0 12.0 1.0 15.0 5.0 373.0 10.0 50.0 246.0 0

MA0871.3_rc_shift6 (TFEC_rc)
; oligos_6nt_mkv1_m2 versus MA0871.3_rc (TFEC_rc); m=12/19; ncol2=8; w=0; offset=2; strand=R; shift=6; score=0.502335; ------GTCACGTG--- ; cor=; Ncor= a 0 0 0 0 0 0 1052.0 47.0 0.0 7952.0 0.0 210.0 374.0 0.0 0 0 0 c 0 0 0 0 0 0 58.0 143.0 7952.0 0.0 7952.0 0.0 145.0 3.0 0 0 0 g 0 0 0 0 0 0 6900.0 411.0 4.0 0.0 0.0 7952.0 0.0 7952.0 0 0 0 t 0 0 0 0 0 0 17.0 7952.0 0.0 0.0 69.0 0.0 7952.0 0.0 0 0 0

MA0603.2_shift6 (Arntl)
; oligos_6nt_mkv1_m2 versus MA0603.2 (Arntl); m=13/19; ncol2=8; w=0; offset=2; strand=D; shift=6; score=0.484114; ------gTCACGTG--- ; cor=; Ncor= a 0 0 0 0 0 0 246.0 62.0 3.0 953.0 2.0 48.0 54.0 9.0 0 0 0 c 0 0 0 0 0 0 125.0 44.0 997.0 16.0 965.0 3.0 58.0 4.0 0 0 0 g 0 0 0 0 0 0 558.0 143.0 0.0 10.0 9.0 946.0 51.0 938.0 0 0 0 t 0 0 0 0 0 0 71.0 752.0 0.0 21.0 24.0 3.0 837.0 48.0 0 0 0

MA1464.2_shift6 (ARNT2)
; oligos_6nt_mkv1_m2 versus MA1464.2 (ARNT2); m=14/19; ncol2=8; w=0; offset=2; strand=D; shift=6; score=0.484021; ------rtCACGTG--- ; cor=; Ncor= a 0 0 0 0 0 0 11781.0 9572.0 505.0 40622.0 0.0 84.0 651.0 14.0 0 0 0 c 0 0 0 0 0 0 4265.0 4901.0 40622.0 122.0 40622.0 0.0 932.0 0.0 0 0 0 g 0 0 0 0 0 0 28841.0 9525.0 115.0 532.0 0.0 40622.0 111.0 40622.0 0 0 0 t 0 0 0 0 0 0 1951.0 40622.0 0.0 460.0 148.0 0.0 40622.0 971.0 0 0 0

MA0664.2_rc_shift8 (MLXIPL_rc)
; oligos_6nt_mkv1_m2 versus MA0664.2_rc (MLXIPL_rc); m=15/19; ncol2=8; w=0; offset=4; strand=R; shift=8; score=0.481933; --------CACGTGay- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0.0 562.0 0.0 0.0 5.0 0.0 468.0 113.0 0 c 0 0 0 0 0 0 0 0 727.0 3.0 735.0 12.0 2.0 11.0 133.0 220.0 0 g 0 0 0 0 0 0 0 0 0.0 0.0 2.0 452.0 0.0 448.0 28.0 31.0 0 t 0 0 0 0 0 0 0 0 0.0 0.0 20.0 2.0 411.0 0.0 126.0 345.0 0

MA0018.5_shift7 (CREB1)
; oligos_6nt_mkv1_m2 versus MA0018.5 (CREB1); m=16/19; ncol2=8; w=0; offset=3; strand=D; shift=7; score=0.463386; -------TGATGTCA-- ; cor=; Ncor= a 0 0 0 0 0 0 0 1911.0 1728.0 73505.0 2186.0 1417.0 8889.0 3533.0 75819.0 0 0 c 0 0 0 0 0 0 0 970.0 2298.0 1748.0 14144.0 1895.0 1231.0 71982.0 1018.0 0 0 g 0 0 0 0 0 0 0 1109.0 72555.0 2012.0 6339.0 74401.0 1207.0 2177.0 1222.0 0 0 t 0 0 0 0 0 0 0 75554.0 2963.0 2279.0 56875.0 1831.0 68217.0 1852.0 1485.0 0 0

MA0464.3_shift7 (BHLHE40)
; oligos_6nt_mkv1_m2 versus MA0464.3 (BHLHE40); m=17/19; ncol2=8; w=0; offset=3; strand=D; shift=7; score=0.445663; -------kCACGTGm-- ; cor=; Ncor= a 0 0 0 0 0 0 0 1391.0 59.0 11222.0 23.0 66.0 167.0 4.0 5927.0 0 0 c 0 0 0 0 0 0 0 481.0 11222.0 130.0 11222.0 30.0 248.0 12.0 5295.0 0 0 g 0 0 0 0 0 0 0 5000.0 0.0 78.0 2.0 11222.0 87.0 11222.0 129.0 0 0 t 0 0 0 0 0 0 0 6222.0 14.0 77.0 32.0 0.0 11222.0 72.0 500.0 0 0

MA1108.3_rc_shift8 (MXI1_rc)
; oligos_6nt_mkv1_m2 versus MA1108.3_rc (MXI1_rc); m=18/19; ncol2=6; w=0; offset=4; strand=R; shift=8; score=0.439706; --------CATGTG--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 175.0 21541.0 0.0 468.0 7.0 460.0 0 0 0 c 0 0 0 0 0 0 0 0 21232.0 0.0 1542.0 18.0 170.0 97.0 0 0 0 g 0 0 0 0 0 0 0 0 114.0 507.0 0.0 21552.0 1.0 21382.0 0 0 0 t 0 0 0 0 0 0 0 0 527.0 0.0 20506.0 10.0 21870.0 109.0 0 0 0

MA0775.2_rc_shift4 (MEIS3_rc)
; oligos_6nt_mkv1_m2 versus MA0775.2_rc (MEIS3_rc); m=19/19; ncol2=7; w=0; offset=0; strand=R; shift=4; score=0.436299; ----cTGTCAw------ ; cor=; Ncor= a 0 0 0 0 2094.0 145.0 160.0 53.0 0.0 7165.0 3451.0 0 0 0 0 0 0 c 0 0 0 0 7165.0 468.0 8.0 455.0 7165.0 260.0 1788.0 0 0 0 0 0 0 g 0 0 0 0 1889.0 8.0 7165.0 20.0 6.0 383.0 60.0 0 0 0 0 0 0 t 0 0 0 0 1690.0 7165.0 53.0 7165.0 0.0 465.0 1866.0 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv1_m4_shift0 ; 9 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv1_m4_shift0 (oligos_6nt_mkv1_m4)
; oligos_6nt_mkv1_m4; m=0 (reference); ncol1=10; shift=0; ncol=10; mtsmCmwCmC ; Alignment reference a 18 6 2 14 0 18 8 2 13 1 c 8 3 12 9 27 10 3 22 10 25 g 1 6 13 6 1 0 2 2 1 1 t 2 14 2 0 1 1 16 3 5 2

MA0018.5_rc_shift1 (CREB1_rc)
; oligos_6nt_mkv1_m4 versus MA0018.5_rc (CREB1_rc); m=1/8; ncol2=8; w=0; offset=1; strand=R; shift=1; score=0.649893; -TGACATCA- ; cor=; Ncor= a 0 1485.0 1852.0 68217.0 1831.0 56875.0 2279.0 2963.0 75554.0 0 c 0 1222.0 2177.0 1207.0 74401.0 6339.0 2012.0 72555.0 1109.0 0 g 0 1018.0 71982.0 1231.0 1895.0 14144.0 1748.0 2298.0 970.0 0 t 0 75819.0 3533.0 8889.0 1417.0 2186.0 73505.0 1728.0 1911.0 0

MA0734.4_shift2 (Gli2)
; oligos_6nt_mkv1_m4 versus MA0734.4 (Gli2); m=2/8; ncol2=9; w=0; offset=2; strand=D; shift=2; score=0.511433; --GACCACCC ; cor=; Ncor= a 0 0 60.0 1920.0 44.0 8.0 2216.0 9.0 313.0 59.0 c 0 0 96.0 227.0 2404.0 2464.0 40.0 2451.0 2145.0 2288.0 g 0 0 2251.0 337.0 27.0 13.0 82.0 12.0 20.0 77.0 t 0 0 85.0 8.0 17.0 7.0 154.0 20.0 14.0 68.0

MA1630.3_rc_shift2 (ZNF281_rc)
; oligos_6nt_mkv1_m4 versus MA1630.3_rc (ZNF281_rc); m=3/8; ncol2=10; w=0; offset=2; strand=R; shift=2; score=0.474552; --CCCCTCCC ; cor=; Ncor= a 0 0 7.0 18.0 1.0 105.0 96.0 1.0 1.0 1.0 c 0 0 920.0 940.0 998.0 772.0 1.0 998.0 998.0 963.0 g 0 0 27.0 1.0 1.0 1.0 183.0 1.0 1.0 1.0 t 0 0 47.0 41.0 1.0 122.0 720.0 1.0 1.0 35.0

MA1965.2_shift4 (SP5)
; oligos_6nt_mkv1_m4 versus MA1965.2 (SP5); m=4/8; ncol2=6; w=0; offset=4; strand=D; shift=4; score=0.463247; ----CCTCCC ; cor=; Ncor= a 0 0 0 0 6.0 7.0 0.0 47.0 11.0 0.0 c 0 0 0 0 20683.0 20286.0 0.0 20649.0 20451.0 20604.0 g 0 0 0 0 3.0 403.0 231.0 0.0 234.0 92.0 t 0 0 0 0 4.0 0.0 20465.0 0.0 0.0 0.0

MA2337.1_rc_shift1 (Nr1h3_rc)
; oligos_6nt_mkv1_m4 versus MA2337.1_rc (Nr1h3_rc); m=5/8; ncol2=6; w=0; offset=1; strand=R; shift=1; score=0.429071; -TGmCCT--- ; cor=; Ncor= a 0 1.0 5.0 2247.0 4.0 3.0 0.0 0 0 0 c 0 19.0 1.0 1600.0 3839.0 3832.0 35.0 0 0 0 g 0 6.0 3851.0 5.0 17.0 27.0 31.0 0 0 0 t 0 3836.0 5.0 10.0 2.0 0.0 3796.0 0 0 0

MA1996.2_rc_shift1 (Nr1H2_rc)
; oligos_6nt_mkv1_m4 versus MA1996.2_rc (Nr1H2_rc); m=6/8; ncol2=6; w=0; offset=1; strand=R; shift=1; score=0.424654; -TGACCT--- ; cor=; Ncor= a 0 37.0 269.0 8834.0 104.0 191.0 99.0 0 0 0 c 0 241.0 72.0 41.0 8740.0 8521.0 132.0 0 0 0 g 0 51.0 8483.0 35.0 36.0 171.0 191.0 0 0 0 t 0 8642.0 147.0 61.0 91.0 88.0 8549.0 0 0 0

MA1110.3_rc_shift1 (Nr1H4_rc)
; oligos_6nt_mkv1_m4 versus MA1110.3_rc (Nr1H4_rc); m=7/8; ncol2=6; w=0; offset=1; strand=R; shift=1; score=0.422632; -TGACCT--- ; cor=; Ncor= a 0 0.0 212.0 4735.0 30.0 31.0 7.0 0 0 0 c 0 118.0 10.0 0.0 4671.0 4542.0 49.0 0 0 0 g 0 29.0 4351.0 0.0 4.0 150.0 83.0 0 0 0 t 0 4589.0 163.0 1.0 31.0 13.0 4597.0 0 0 0

MA0498.3_shift1 (MEIS1)
; oligos_6nt_mkv1_m4 versus MA0498.3 (MEIS1); m=8/8; ncol2=5; w=0; offset=1; strand=D; shift=1; score=0.404785; -TGACA---- ; cor=; Ncor= a 0 8690.0 0.0 77159.0 0.0 77159.0 0 0 0 0 c 0 5575.0 1249.0 2903.0 77159.0 0.0 0 0 0 0 g 0 3174.0 77159.0 672.0 0.0 9263.0 0 0 0 0 t 0 77159.0 0.0 0.0 1155.0 3861.0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv1_m5_shift6 ; 12 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv1_m5_shift6 (oligos_6nt_mkv1_m5)
; oligos_6nt_mkv1_m5; m=0 (reference); ncol1=12; shift=6; ncol=18; ------RYSACmvvnYvh ; Alignment reference a 0 0 0 0 0 0 3 0 0 4 0 2 2 1 1 0 1 1 c 0 0 0 0 0 0 0 1 1 0 4 2 1 2 1 1 1 2 g 0 0 0 0 0 0 1 0 3 0 0 0 1 1 1 0 2 0 t 0 0 0 0 0 0 0 3 0 0 0 0 0 0 1 3 0 1

MA1632.2_rc_shift6 (ATF2_rc)
; oligos_6nt_mkv1_m5 versus MA1632.2_rc (ATF2_rc); m=1/11; ncol2=10; w=0; offset=0; strand=R; shift=6; score=0.595031; ------aTGACvTCAT-- ; cor=; Ncor= a 0 0 0 0 0 0 36321.0 509.0 909.0 57832.0 261.0 18166.0 975.0 2498.0 57651.0 1438.0 0 0 c 0 0 0 0 0 0 5971.0 768.0 649.0 283.0 56882.0 23207.0 262.0 55318.0 328.0 6229.0 0 0 g 0 0 0 0 0 0 14153.0 218.0 53464.0 316.0 886.0 16970.0 396.0 408.0 899.0 3145.0 0 0 t 0 0 0 0 0 0 2949.0 57899.0 4372.0 963.0 1365.0 1051.0 57761.0 1170.0 516.0 48582.0 0 0

MA2327.1_shift9 (PGR)
; oligos_6nt_mkv1_m5 versus MA2327.1 (PGR); m=2/11; ncol2=9; w=0; offset=3; strand=D; shift=9; score=0.534336; ---------ACAkwmTGT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 29390.0 299.0 27485.0 5276.0 8275.0 8527.0 328.0 765.0 173.0 c 0 0 0 0 0 0 0 0 0 121.0 28612.0 363.0 6470.0 6654.0 9602.0 1695.0 185.0 190.0 g 0 0 0 0 0 0 0 0 0 189.0 185.0 1689.0 9598.0 6656.0 6465.0 364.0 28617.0 122.0 t 0 0 0 0 0 0 0 0 0 164.0 768.0 327.0 8520.0 8279.0 5270.0 27477.0 297.0 29379.0

MA1531.2_rc_shift7 (NR1D1_rc)
; oligos_6nt_mkv1_m5 versus MA1531.2_rc (NR1D1_rc); m=3/11; ncol2=14; w=0; offset=1; strand=R; shift=7; score=0.521179; -------TGACCyAcTrA ; cor=; Ncor= a 0 0 0 0 0 0 0 20.0 344.0 6595.0 6.0 1113.0 11.0 6595.0 301.0 7.0 4243.0 6595.0 c 0 0 0 0 0 0 0 917.0 89.0 700.0 6595.0 6595.0 3018.0 213.0 4428.0 2.0 2.0 1647.0 g 0 0 0 0 0 0 0 4.0 6595.0 429.0 0.0 0.0 92.0 117.0 1241.0 2.0 6595.0 206.0 t 0 0 0 0 0 0 0 6595.0 1.0 213.0 8.0 0.0 3576.0 20.0 625.0 6595.0 0.0 0.0

MA0774.1_shift6 (MEIS2)
; oligos_6nt_mkv1_m5 versus MA0774.1 (MEIS2); m=4/11; ncol2=8; w=0; offset=0; strand=D; shift=6; score=0.485772; ------tTGACAGs---- ; cor=; Ncor= a 0 0 0 0 0 0 408.0 31.0 0.0 1351.0 9.0 1351.0 83.0 157.0 0 0 0 0 c 0 0 0 0 0 0 264.0 3.0 0.0 3.0 1351.0 7.0 98.0 701.0 0 0 0 0 g 0 0 0 0 0 0 314.0 40.0 1351.0 25.0 0.0 4.0 1351.0 650.0 0 0 0 0 t 0 0 0 0 0 0 1351.0 1351.0 0.0 62.0 5.0 0.0 67.0 88.0 0 0 0 0

MA0775.2_shift6 (MEIS3)
; oligos_6nt_mkv1_m5 versus MA0775.2 (MEIS3); m=5/11; ncol2=7; w=0; offset=0; strand=D; shift=6; score=0.460262; ------wTGACAg----- ; cor=; Ncor= a 0 0 0 0 0 0 1866.0 465.0 0.0 7165.0 53.0 7165.0 1690.0 0 0 0 0 0 c 0 0 0 0 0 0 60.0 383.0 6.0 20.0 7165.0 8.0 1889.0 0 0 0 0 0 g 0 0 0 0 0 0 1788.0 260.0 7165.0 455.0 8.0 468.0 7165.0 0 0 0 0 0 t 0 0 0 0 0 0 3451.0 7165.0 0.0 53.0 160.0 145.0 2094.0 0 0 0 0 0

MA2324.1_shift6 (BCL11A)
; oligos_6nt_mkv1_m5 versus MA2324.1 (BCL11A); m=6/11; ncol2=7; w=0; offset=0; strand=D; shift=6; score=0.424439; ------CTGACCA----- ; cor=; Ncor= a 0 0 0 0 0 0 343.0 180.0 125.0 5724.0 155.0 143.0 4495.0 0 0 0 0 0 c 0 0 0 0 0 0 5024.0 120.0 281.0 92.0 5855.0 5964.0 641.0 0 0 0 0 0 g 0 0 0 0 0 0 591.0 165.0 5747.0 100.0 141.0 55.0 385.0 0 0 0 0 0 t 0 0 0 0 0 0 307.0 5800.0 112.0 349.0 114.0 103.0 744.0 0 0 0 0 0

MA0522.4_shift11 (TCF3)
; oligos_6nt_mkv1_m5 versus MA0522.4 (TCF3); m=7/11; ncol2=7; w=0; offset=5; strand=D; shift=11; score=0.42264; -----------CACCTGC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 469.0 28916.0 309.0 1127.0 380.0 1089.0 295.0 c 0 0 0 0 0 0 0 0 0 0 0 29379.0 396.0 28640.0 27199.0 2003.0 1038.0 28742.0 g 0 0 0 0 0 0 0 0 0 0 0 708.0 1574.0 1362.0 2652.0 1339.0 28642.0 987.0 t 0 0 0 0 0 0 0 0 0 0 0 705.0 375.0 950.0 283.0 27539.0 492.0 1237.0

MA1558.2_rc_shift11 (SNAI1_rc)
; oligos_6nt_mkv1_m5 versus MA1558.2_rc (SNAI1_rc); m=8/11; ncol2=7; w=0; offset=5; strand=R; shift=11; score=0.421111; -----------CACCTGy ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 311.0 19982.0 28.0 306.0 568.0 340.0 3518.0 c 0 0 0 0 0 0 0 0 0 0 0 19982.0 42.0 19982.0 19982.0 91.0 275.0 12989.0 g 0 0 0 0 0 0 0 0 0 0 0 0.0 0.0 5.0 517.0 297.0 19982.0 501.0 t 0 0 0 0 0 0 0 0 0 0 0 706.0 38.0 72.0 1766.0 19982.0 446.0 6993.0

MA1648.2_shift11 (TCF12)
; oligos_6nt_mkv1_m5 versus MA1648.2 (TCF12); m=9/11; ncol2=7; w=0; offset=5; strand=D; shift=11; score=0.420179; -----------CACCTGC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 955.0 52529.0 744.0 1913.0 1380.0 2819.0 1089.0 c 0 0 0 0 0 0 0 0 0 0 0 57848.0 2007.0 55598.0 55765.0 3886.0 2088.0 55061.0 g 0 0 0 0 0 0 0 0 0 0 0 1186.0 5607.0 3780.0 3536.0 2625.0 55922.0 2314.0 t 0 0 0 0 0 0 0 0 0 0 0 1887.0 1733.0 1754.0 662.0 53985.0 1047.0 3412.0

MA1535.2_rc_shift7 (NR2C1_rc)
; oligos_6nt_mkv1_m5 versus MA1535.2_rc (NR2C1_rc); m=10/11; ncol2=6; w=0; offset=1; strand=R; shift=7; score=0.411485; -------TGACCy----- ; cor=; Ncor= a 0 0 0 0 0 0 0 0.0 0.0 9622.0 0.0 297.0 55.0 0 0 0 0 0 c 0 0 0 0 0 0 0 1716.0 321.0 271.0 9622.0 9622.0 4756.0 0 0 0 0 0 g 0 0 0 0 0 0 0 0.0 9622.0 0.0 0.0 0.0 227.0 0 0 0 0 0 t 0 0 0 0 0 0 0 9622.0 0.0 0.0 0.0 0.0 4866.0 0 0 0 0 0

MA1985.1_shift0 (ZNF669)
; oligos_6nt_mkv1_m5 versus MA1985.1 (ZNF669); m=11/11; ncol2=15; w=-6; offset=-6; strand=D; shift=0; score=0.405077; gGGgyGAyGACCrcT--- ; cor=; Ncor= a 145.0 25.0 25.0 125.0 45.0 5.0 925.0 5.0 5.0 705.0 5.0 25.0 485.0 105.0 65.0 0 0 0 c 125.0 5.0 5.0 185.0 625.0 5.0 65.0 485.0 5.0 205.0 885.0 805.0 65.0 485.0 105.0 0 0 0 g 585.0 965.0 965.0 585.0 5.0 985.0 5.0 5.0 985.0 25.0 5.0 85.0 385.0 225.0 105.0 0 0 0 t 145.0 5.0 5.0 105.0 325.0 5.0 5.0 505.0 5.0 65.0 105.0 85.0 65.0 185.0 725.0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv1_m3_shift1 ; 14 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv1_m3_shift1 (oligos_6nt_mkv1_m3)
; oligos_6nt_mkv1_m3; m=0 (reference); ncol1=17; shift=1; ncol=18; -TCATGTGATGrGTGaTg ; Alignment reference a 0 0 0 5 0 0 0 0 6 0 0 3 0 0 0 4 0 1 c 0 1 6 1 1 0 0 0 0 0 0 0 0 0 0 1 0 1 g 0 0 0 0 0 6 0 6 0 0 6 3 6 0 5 1 0 4 t 0 5 0 0 5 0 6 0 0 6 0 0 0 6 1 0 6 0

MA1101.3_rc_shift7 (BACH2_rc)
; oligos_6nt_mkv1_m3 versus MA1101.3_rc (BACH2_rc); m=1/13; ncol2=11; w=0; offset=6; strand=R; shift=7; score=0.471175; -------sATGAsTCATG ; cor=; Ncor= a 0 0 0 0 0 0 0 5274.0 63746.0 0.0 3.0 67975.0 18.0 6.0 54.0 68266.0 0.0 8116.0 c 0 0 0 0 0 0 0 30498.0 2028.0 11.0 0.0 856.0 30785.0 13.0 68240.0 1.0 15304.0 6727.0 g 0 0 0 0 0 0 0 35220.0 11634.0 2.0 68215.0 20.0 37438.0 1088.0 0.0 7.0 260.0 61580.0 t 0 0 0 0 0 0 0 4522.0 47.0 68264.0 115.0 3.0 50.0 67846.0 6.0 1.0 62993.0 9369.0

MA0841.2_rc_shift7 (NFE2_rc)
; oligos_6nt_mkv1_m3 versus MA0841.2_rc (NFE2_rc); m=2/13; ncol2=10; w=0; offset=6; strand=R; shift=7; score=0.451837; -------sATGAGTCAT- ; cor=; Ncor= a 0 0 0 0 0 0 0 3417.0 18831.0 5.0 3.0 18831.0 17.0 4.0 2.0 18831.0 5.0 0 c 0 0 0 0 0 0 0 5067.0 10.0 8.0 0.0 3.0 4472.0 0.0 18831.0 0.0 1306.0 0 g 0 0 0 0 0 0 0 9860.0 2689.0 13.0 18831.0 20.0 14360.0 11.0 0.0 8.0 9.0 0 t 0 0 0 0 0 0 0 487.0 0.0 18831.0 1.0 0.0 37.0 18831.0 0.0 2.0 18831.0 0

MA0829.3_rc_shift0 (SREBF1_rc)
; oligos_6nt_mkv1_m3 versus MA0829.3_rc (SREBF1_rc); m=3/13; ncol2=10; w=-1; offset=-1; strand=R; shift=0; score=0.438153; ATCAsGTGAT-------- ; cor=; Ncor= a 5034.0 197.0 71.0 6866.0 61.0 124.0 131.0 110.0 6670.0 160.0 0 0 0 0 0 0 0 0 c 510.0 116.0 6786.0 45.0 2702.0 1467.0 57.0 158.0 128.0 1576.0 0 0 0 0 0 0 0 0 g 1456.0 118.0 221.0 100.0 4187.0 5502.0 61.0 6770.0 165.0 484.0 0 0 0 0 0 0 0 0 t 141.0 6710.0 63.0 130.0 191.0 48.0 6892.0 103.0 178.0 4921.0 0 0 0 0 0 0 0 0

MA0093.4_shift0 (USF1)
; oligos_6nt_mkv1_m3 versus MA0093.4 (USF1); m=4/13; ncol2=10; w=-1; offset=-1; strand=D; shift=0; score=0.435496; GTCATGTGAC-------- ; cor=; Ncor= a 7574.0 3841.0 533.0 53654.0 418.0 3453.0 448.0 403.0 45587.0 1845.0 0 0 0 0 0 0 0 0 c 3030.0 9543.0 53536.0 654.0 13185.0 1387.0 264.0 817.0 3045.0 41450.0 0 0 0 0 0 0 0 0 g 43094.0 3912.0 766.0 477.0 3666.0 50076.0 601.0 53634.0 4679.0 3018.0 0 0 0 0 0 0 0 0 t 1636.0 38038.0 499.0 549.0 38065.0 418.0 54021.0 480.0 2023.0 9021.0 0 0 0 0 0 0 0 0

MA0828.3_shift0 (SREBF2)
; oligos_6nt_mkv1_m3 versus MA0828.3 (SREBF2); m=5/13; ncol2=10; w=-1; offset=-1; strand=D; shift=0; score=0.431577; rTCACGTGAy-------- ; cor=; Ncor= a 9699.0 103.0 0.0 14252.0 12.0 6.0 2.0 0.0 14252.0 1.0 0 0 0 0 0 0 0 0 c 119.0 60.0 14252.0 0.0 14252.0 553.0 218.0 26.0 1.0 4548.0 0 0 0 0 0 0 0 0 g 4554.0 4.0 24.0 205.0 556.0 14252.0 0.0 14252.0 61.0 116.0 0 0 0 0 0 0 0 0 t 1.0 14252.0 0.0 1.0 5.0 12.0 14252.0 0.0 107.0 9704.0 0 0 0 0 0 0 0 0

MA0663.1_shift0 (MLX)
; oligos_6nt_mkv1_m3 versus MA0663.1 (MLX); m=6/13; ncol2=10; w=-1; offset=-1; strand=D; shift=0; score=0.425206; rTCACGTGAt-------- ; cor=; Ncor= a 177.0 0.0 3.0 234.0 0.0 1.0 2.0 2.0 240.0 23.0 0 0 0 0 0 0 0 0 c 4.0 17.0 251.0 0.0 257.0 0.0 1.0 0.0 9.0 84.0 0 0 0 0 0 0 0 0 g 110.0 61.0 3.0 6.0 0.0 558.0 1.0 555.0 35.0 6.0 0 0 0 0 0 0 0 0 t 41.0 322.0 4.0 0.0 0.0 1.0 315.0 5.0 16.0 235.0 0 0 0 0 0 0 0 0

MA0620.4_rc_shift0 (MITF_rc)
; oligos_6nt_mkv1_m3 versus MA0620.4_rc (MITF_rc); m=7/13; ncol2=10; w=-1; offset=-1; strand=R; shift=0; score=0.420635; rTCACGTGAy-------- ; cor=; Ncor= a 19439.0 2414.0 237.0 61548.0 313.0 14302.0 760.0 208.0 53123.0 2120.0 0 0 0 0 0 0 0 0 c 5204.0 4999.0 62666.0 751.0 47768.0 1140.0 469.0 416.0 2991.0 36761.0 0 0 0 0 0 0 0 0 g 36765.0 2990.0 416.0 469.0 1140.0 47772.0 751.0 62666.0 4997.0 5205.0 0 0 0 0 0 0 0 0 t 2119.0 53124.0 208.0 759.0 14306.0 313.0 61547.0 237.0 2416.0 19441.0 0 0 0 0 0 0 0 0

MA1633.2_rc_shift8 (BACH1_rc)
; oligos_6nt_mkv1_m3 versus MA1633.2_rc (BACH1_rc); m=8/13; ncol2=9; w=0; offset=7; strand=R; shift=8; score=0.407914; --------aTGAGTCAT- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 32322.0 17.0 18.0 32322.0 517.0 14.0 811.0 32322.0 1048.0 0 c 0 0 0 0 0 0 0 0 2962.0 50.0 52.0 3303.0 0.0 24.0 32322.0 25.0 6187.0 0 g 0 0 0 0 0 0 0 0 8737.0 39.0 32322.0 31.0 32322.0 38.0 13.0 25.0 1482.0 0 t 0 0 0 0 0 0 0 0 4970.0 32322.0 2834.0 534.0 551.0 32322.0 0.0 7.0 32322.0 0

MA0655.1_rc_shift8 (JDP2_rc)
; oligos_6nt_mkv1_m3 versus MA0655.1_rc (JDP2_rc); m=9/13; ncol2=9; w=0; offset=7; strand=R; shift=8; score=0.406877; --------ATGASTCAT- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1634.0 7.0 9.0 1634.0 13.0 25.0 22.0 1634.0 8.0 0 c 0 0 0 0 0 0 0 0 5.0 0.0 3.0 6.0 434.0 2.0 1634.0 1.0 140.0 0 g 0 0 0 0 0 0 0 0 404.0 0.0 1634.0 0.0 1200.0 1.0 3.0 6.0 19.0 0 t 0 0 0 0 0 0 0 0 22.0 1634.0 22.0 6.0 14.0 1634.0 0.0 5.0 1634.0 0

MA0490.3_rc_shift8 (JUNB_rc)
; oligos_6nt_mkv1_m3 versus MA0490.3_rc (JUNB_rc); m=10/13; ncol2=9; w=0; offset=7; strand=R; shift=8; score=0.403049; --------ATGAGTCAT- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 59750.0 693.0 797.0 76655.0 4798.0 682.0 3779.0 78342.0 3866.0 0 c 0 0 0 0 0 0 0 0 7508.0 900.0 617.0 913.0 10519.0 550.0 74757.0 322.0 11566.0 0 g 0 0 0 0 0 0 0 0 8876.0 588.0 73199.0 289.0 59784.0 523.0 550.0 654.0 7817.0 0 t 0 0 0 0 0 0 0 0 3722.0 77675.0 5243.0 1999.0 4755.0 78101.0 770.0 538.0 56607.0 0

MA0526.5_rc_shift0 (USF2_rc)
; oligos_6nt_mkv1_m3 versus MA0526.5_rc (USF2_rc); m=11/13; ncol2=10; w=-1; offset=-1; strand=R; shift=0; score=0.402834; rTCACGTGAy-------- ; cor=; Ncor= a 7037.0 440.0 0.0 18731.0 0.0 39.0 5.0 7.0 16183.0 46.0 0 0 0 0 0 0 0 0 c 574.0 2556.0 18731.0 12.0 18731.0 9.0 4.0 6.0 160.0 11688.0 0 0 0 0 0 0 0 0 g 11694.0 162.0 9.0 4.0 0.0 18731.0 6.0 18731.0 2548.0 583.0 0 0 0 0 0 0 0 0 t 33.0 16175.0 15.0 10.0 41.0 0.0 18731.0 0.0 450.0 7043.0 0 0 0 0 0 0 0 0

MA0831.3_rc_shift0 (TFE3_rc)
; oligos_6nt_mkv1_m3 versus MA0831.3_rc (TFE3_rc); m=12/13; ncol2=10; w=-1; offset=-1; strand=R; shift=0; score=0.400734; rTCACGTGAy-------- ; cor=; Ncor= a 6291.0 594.0 0.0 19939.0 0.0 774.0 34.0 0.0 19939.0 142.0 0 0 0 0 0 0 0 0 c 1050.0 1725.0 19939.0 16.0 19939.0 6.0 6.0 4.0 1295.0 13651.0 0 0 0 0 0 0 0 0 g 13648.0 1312.0 5.0 0.0 6.0 19939.0 10.0 19939.0 1743.0 1050.0 0 0 0 0 0 0 0 0 t 124.0 19939.0 0.0 39.0 782.0 0.0 19939.0 0.0 591.0 6289.0 0 0 0 0 0 0 0 0

MA0491.3_rc_shift8 (JUND_rc)
; oligos_6nt_mkv1_m3 versus MA0491.3_rc (JUND_rc); m=13/13; ncol2=9; w=0; offset=7; strand=R; shift=8; score=0.400127; --------ATGAGTCAt- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 83216.0 809.0 1449.0 102249.0 4650.0 925.0 3920.0 104101.0 5020.0 0 c 0 0 0 0 0 0 0 0 7908.0 965.0 953.0 1147.0 20633.0 573.0 99787.0 443.0 20586.0 0 g 0 0 0 0 0 0 0 0 12025.0 751.0 98628.0 496.0 76028.0 650.0 873.0 757.0 10173.0 0 t 0 0 0 0 0 0 0 0 2796.0 103420.0 4915.0 2053.0 4634.0 103797.0 1365.0 644.0 70166.0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv1_m2_shift4 (oligos_6nt_mkv1_m2)				; oligos_6nt_mkv1_m2; m=0 (reference); ncol1=13; shift=4; ncol=17; ----mtGtCATRTsAyv ; Alignment reference a 0 0 0 0 8 2 2 3 0 17 0 5 2 1 15 0 7 c 0 0 0 0 5 4 1 3 13 1 4 0 1 5 0 7 5 g 0 0 0 0 2 2 13 0 4 0 0 13 0 11 2 3 6 t 0 0 0 0 3 10 2 12 1 0 14 0 15 1 1 8 0
MA0093.4_shift6 (USF1)				; oligos_6nt_mkv1_m2 versus MA0093.4 (USF1); m=1/19; ncol2=10; w=0; offset=2; strand=D; shift=6; score=0.718843; ------GTCATGTGAC- ; cor=; Ncor= a 0 0 0 0 0 0 7574.0 3841.0 533.0 53654.0 418.0 3453.0 448.0 403.0 45587.0 1845.0 0 c 0 0 0 0 0 0 3030.0 9543.0 53536.0 654.0 13185.0 1387.0 264.0 817.0 3045.0 41450.0 0 g 0 0 0 0 0 0 43094.0 3912.0 766.0 477.0 3666.0 50076.0 601.0 53634.0 4679.0 3018.0 0 t 0 0 0 0 0 0 1636.0 38038.0 499.0 549.0 38065.0 418.0 54021.0 480.0 2023.0 9021.0 0
MA0620.4_rc_shift6 (MITF_rc)				; oligos_6nt_mkv1_m2 versus MA0620.4_rc (MITF_rc); m=2/19; ncol2=10; w=0; offset=2; strand=R; shift=6; score=0.672009; ------rTCACGTGAy- ; cor=; Ncor= a 0 0 0 0 0 0 19439.0 2414.0 237.0 61548.0 313.0 14302.0 760.0 208.0 53123.0 2120.0 0 c 0 0 0 0 0 0 5204.0 4999.0 62666.0 751.0 47768.0 1140.0 469.0 416.0 2991.0 36761.0 0 g 0 0 0 0 0 0 36765.0 2990.0 416.0 469.0 1140.0 47772.0 751.0 62666.0 4997.0 5205.0 0 t 0 0 0 0 0 0 2119.0 53124.0 208.0 759.0 14306.0 313.0 61547.0 237.0 2416.0 19441.0 0
MA0831.3_rc_shift6 (TFE3_rc)				; oligos_6nt_mkv1_m2 versus MA0831.3_rc (TFE3_rc); m=3/19; ncol2=10; w=0; offset=2; strand=R; shift=6; score=0.636612; ------rTCACGTGAy- ; cor=; Ncor= a 0 0 0 0 0 0 6291.0 594.0 0.0 19939.0 0.0 774.0 34.0 0.0 19939.0 142.0 0 c 0 0 0 0 0 0 1050.0 1725.0 19939.0 16.0 19939.0 6.0 6.0 4.0 1295.0 13651.0 0 g 0 0 0 0 0 0 13648.0 1312.0 5.0 0.0 6.0 19939.0 10.0 19939.0 1743.0 1050.0 0 t 0 0 0 0 0 0 124.0 19939.0 0.0 39.0 782.0 0.0 19939.0 0.0 591.0 6289.0 0
MA0526.5_shift6 (USF2)				; oligos_6nt_mkv1_m2 versus MA0526.5 (USF2); m=4/19; ncol2=10; w=0; offset=2; strand=D; shift=6; score=0.628356; ------rTCACGTGAy- ; cor=; Ncor= a 0 0 0 0 0 0 7043.0 450.0 0.0 18731.0 0.0 41.0 10.0 15.0 16175.0 33.0 0 c 0 0 0 0 0 0 583.0 2548.0 18731.0 6.0 18731.0 0.0 4.0 9.0 162.0 11694.0 0 g 0 0 0 0 0 0 11688.0 160.0 6.0 4.0 9.0 18731.0 12.0 18731.0 2556.0 574.0 0 t 0 0 0 0 0 0 46.0 16183.0 7.0 5.0 39.0 0.0 18731.0 0.0 440.0 7037.0 0
MA0636.1_rc_shift6 (BHLHE41_rc)				; oligos_6nt_mkv1_m2 versus MA0636.1_rc (BHLHE41_rc); m=5/19; ncol2=10; w=0; offset=2; strand=R; shift=6; score=0.615222; ------gTCACGTGAy- ; cor=; Ncor= a 0 0 0 0 0 0 1963.0 23.0 0.0 5574.0 0.0 5.0 3.0 1.0 5574.0 59.0 0 c 0 0 0 0 0 0 985.0 7.0 5574.0 16.0 5574.0 1.0 21.0 3.0 1831.0 5574.0 0 g 0 0 0 0 0 0 5574.0 1229.0 1.0 16.0 1.0 5574.0 12.0 5574.0 17.0 1046.0 0 t 0 0 0 0 0 0 74.0 5574.0 1.0 19.0 2.0 1.0 5574.0 2.0 98.0 2894.0 0
MA0828.3_shift6 (SREBF2)				; oligos_6nt_mkv1_m2 versus MA0828.3 (SREBF2); m=6/19; ncol2=10; w=0; offset=2; strand=D; shift=6; score=0.602621; ------rTCACGTGAy- ; cor=; Ncor= a 0 0 0 0 0 0 9699.0 103.0 0.0 14252.0 12.0 6.0 2.0 0.0 14252.0 1.0 0 c 0 0 0 0 0 0 119.0 60.0 14252.0 0.0 14252.0 553.0 218.0 26.0 1.0 4548.0 0 g 0 0 0 0 0 0 4554.0 4.0 24.0 205.0 556.0 14252.0 0.0 14252.0 61.0 116.0 0 t 0 0 0 0 0 0 1.0 14252.0 0.0 1.0 5.0 12.0 14252.0 0.0 107.0 9704.0 0
MA0663.1_shift6 (MLX)				; oligos_6nt_mkv1_m2 versus MA0663.1 (MLX); m=7/19; ncol2=10; w=0; offset=2; strand=D; shift=6; score=0.59418; ------rTCACGTGAt- ; cor=; Ncor= a 0 0 0 0 0 0 177.0 0.0 3.0 234.0 0.0 1.0 2.0 2.0 240.0 23.0 0 c 0 0 0 0 0 0 4.0 17.0 251.0 0.0 257.0 0.0 1.0 0.0 9.0 84.0 0 g 0 0 0 0 0 0 110.0 61.0 3.0 6.0 0.0 558.0 1.0 555.0 35.0 6.0 0 t 0 0 0 0 0 0 41.0 322.0 4.0 0.0 0.0 1.0 315.0 5.0 16.0 235.0 0
MA0829.3_rc_shift6 (SREBF1_rc)				; oligos_6nt_mkv1_m2 versus MA0829.3_rc (SREBF1_rc); m=8/19; ncol2=10; w=0; offset=2; strand=R; shift=6; score=0.582117; ------ATCAsGTGAT- ; cor=; Ncor= a 0 0 0 0 0 0 5034.0 197.0 71.0 6866.0 61.0 124.0 131.0 110.0 6670.0 160.0 0 c 0 0 0 0 0 0 510.0 116.0 6786.0 45.0 2702.0 1467.0 57.0 158.0 128.0 1576.0 0 g 0 0 0 0 0 0 1456.0 118.0 221.0 100.0 4187.0 5502.0 61.0 6770.0 165.0 484.0 0 t 0 0 0 0 0 0 141.0 6710.0 63.0 130.0 191.0 48.0 6892.0 103.0 178.0 4921.0 0
MA1570.1_shift6 (TFAP4)				; oligos_6nt_mkv1_m2 versus MA1570.1 (TFAP4); m=9/19; ncol2=10; w=0; offset=2; strand=D; shift=6; score=0.550027; ------ahCAyrTGkt- ; cor=; Ncor= a 0 0 0 0 0 0 479.0 217.0 0.0 479.0 0.0 479.0 0.0 0.0 103.0 60.0 0 c 0 0 0 0 0 0 130.0 144.0 479.0 0.0 220.0 149.0 0.0 3.0 14.0 210.0 0 g 0 0 0 0 0 0 197.0 0.0 0.0 14.0 161.0 287.0 0.0 479.0 156.0 110.0 0 t 0 0 0 0 0 0 39.0 129.0 0.0 0.0 479.0 0.0 479.0 0.0 206.0 479.0 0
MA0692.2_rc_shift6 (TFEB_rc)				; oligos_6nt_mkv1_m2 versus MA0692.2_rc (TFEB_rc); m=10/19; ncol2=8; w=0; offset=2; strand=R; shift=6; score=0.525379; ------rTCACGTG--- ; cor=; Ncor= a 0 0 0 0 0 0 2826.0 807.0 11.0 8715.0 5.0 1155.0 274.0 3.0 0 0 0 c 0 0 0 0 0 0 558.0 872.0 8715.0 150.0 8715.0 83.0 62.0 0.0 0 0 0 g 0 0 0 0 0 0 5889.0 2342.0 10.0 169.0 288.0 8715.0 286.0 8715.0 0 0 0 t 0 0 0 0 0 0 283.0 8715.0 9.0 454.0 2762.0 0.0 8715.0 17.0 0 0 0
MA1939.2_shift0 (ERF::SREBF2)				; oligos_6nt_mkv1_m2 versus MA1939.2 (ERF::SREBF2); m=11/19; ncol2=16; w=-4; offset=-4; strand=D; shift=0; score=0.506271; sCGGAArTCACGTGAy- ; cor=; Ncor= a 93.0 58.0 5.0 2.0 373.0 373.0 227.0 4.0 37.0 373.0 0.0 0.0 30.0 0.0 299.0 7.0 0 c 211.0 373.0 7.0 15.0 7.0 61.0 0.0 4.0 373.0 2.0 373.0 96.0 10.0 0.0 0.0 111.0 0 g 162.0 1.0 373.0 373.0 0.0 0.0 146.0 13.0 7.0 4.0 5.0 373.0 8.0 373.0 24.0 8.0 0 t 17.0 34.0 0.0 14.0 31.0 73.0 1.0 352.0 12.0 1.0 15.0 5.0 373.0 10.0 50.0 246.0 0
MA0871.3_rc_shift6 (TFEC_rc)				; oligos_6nt_mkv1_m2 versus MA0871.3_rc (TFEC_rc); m=12/19; ncol2=8; w=0; offset=2; strand=R; shift=6; score=0.502335; ------GTCACGTG--- ; cor=; Ncor= a 0 0 0 0 0 0 1052.0 47.0 0.0 7952.0 0.0 210.0 374.0 0.0 0 0 0 c 0 0 0 0 0 0 58.0 143.0 7952.0 0.0 7952.0 0.0 145.0 3.0 0 0 0 g 0 0 0 0 0 0 6900.0 411.0 4.0 0.0 0.0 7952.0 0.0 7952.0 0 0 0 t 0 0 0 0 0 0 17.0 7952.0 0.0 0.0 69.0 0.0 7952.0 0.0 0 0 0
MA0603.2_shift6 (Arntl)				; oligos_6nt_mkv1_m2 versus MA0603.2 (Arntl); m=13/19; ncol2=8; w=0; offset=2; strand=D; shift=6; score=0.484114; ------gTCACGTG--- ; cor=; Ncor= a 0 0 0 0 0 0 246.0 62.0 3.0 953.0 2.0 48.0 54.0 9.0 0 0 0 c 0 0 0 0 0 0 125.0 44.0 997.0 16.0 965.0 3.0 58.0 4.0 0 0 0 g 0 0 0 0 0 0 558.0 143.0 0.0 10.0 9.0 946.0 51.0 938.0 0 0 0 t 0 0 0 0 0 0 71.0 752.0 0.0 21.0 24.0 3.0 837.0 48.0 0 0 0
MA1464.2_shift6 (ARNT2)				; oligos_6nt_mkv1_m2 versus MA1464.2 (ARNT2); m=14/19; ncol2=8; w=0; offset=2; strand=D; shift=6; score=0.484021; ------rtCACGTG--- ; cor=; Ncor= a 0 0 0 0 0 0 11781.0 9572.0 505.0 40622.0 0.0 84.0 651.0 14.0 0 0 0 c 0 0 0 0 0 0 4265.0 4901.0 40622.0 122.0 40622.0 0.0 932.0 0.0 0 0 0 g 0 0 0 0 0 0 28841.0 9525.0 115.0 532.0 0.0 40622.0 111.0 40622.0 0 0 0 t 0 0 0 0 0 0 1951.0 40622.0 0.0 460.0 148.0 0.0 40622.0 971.0 0 0 0
MA0664.2_rc_shift8 (MLXIPL_rc)				; oligos_6nt_mkv1_m2 versus MA0664.2_rc (MLXIPL_rc); m=15/19; ncol2=8; w=0; offset=4; strand=R; shift=8; score=0.481933; --------CACGTGay- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0.0 562.0 0.0 0.0 5.0 0.0 468.0 113.0 0 c 0 0 0 0 0 0 0 0 727.0 3.0 735.0 12.0 2.0 11.0 133.0 220.0 0 g 0 0 0 0 0 0 0 0 0.0 0.0 2.0 452.0 0.0 448.0 28.0 31.0 0 t 0 0 0 0 0 0 0 0 0.0 0.0 20.0 2.0 411.0 0.0 126.0 345.0 0
MA0018.5_shift7 (CREB1)				; oligos_6nt_mkv1_m2 versus MA0018.5 (CREB1); m=16/19; ncol2=8; w=0; offset=3; strand=D; shift=7; score=0.463386; -------TGATGTCA-- ; cor=; Ncor= a 0 0 0 0 0 0 0 1911.0 1728.0 73505.0 2186.0 1417.0 8889.0 3533.0 75819.0 0 0 c 0 0 0 0 0 0 0 970.0 2298.0 1748.0 14144.0 1895.0 1231.0 71982.0 1018.0 0 0 g 0 0 0 0 0 0 0 1109.0 72555.0 2012.0 6339.0 74401.0 1207.0 2177.0 1222.0 0 0 t 0 0 0 0 0 0 0 75554.0 2963.0 2279.0 56875.0 1831.0 68217.0 1852.0 1485.0 0 0
MA0464.3_shift7 (BHLHE40)				; oligos_6nt_mkv1_m2 versus MA0464.3 (BHLHE40); m=17/19; ncol2=8; w=0; offset=3; strand=D; shift=7; score=0.445663; -------kCACGTGm-- ; cor=; Ncor= a 0 0 0 0 0 0 0 1391.0 59.0 11222.0 23.0 66.0 167.0 4.0 5927.0 0 0 c 0 0 0 0 0 0 0 481.0 11222.0 130.0 11222.0 30.0 248.0 12.0 5295.0 0 0 g 0 0 0 0 0 0 0 5000.0 0.0 78.0 2.0 11222.0 87.0 11222.0 129.0 0 0 t 0 0 0 0 0 0 0 6222.0 14.0 77.0 32.0 0.0 11222.0 72.0 500.0 0 0
MA1108.3_rc_shift8 (MXI1_rc)				; oligos_6nt_mkv1_m2 versus MA1108.3_rc (MXI1_rc); m=18/19; ncol2=6; w=0; offset=4; strand=R; shift=8; score=0.439706; --------CATGTG--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 175.0 21541.0 0.0 468.0 7.0 460.0 0 0 0 c 0 0 0 0 0 0 0 0 21232.0 0.0 1542.0 18.0 170.0 97.0 0 0 0 g 0 0 0 0 0 0 0 0 114.0 507.0 0.0 21552.0 1.0 21382.0 0 0 0 t 0 0 0 0 0 0 0 0 527.0 0.0 20506.0 10.0 21870.0 109.0 0 0 0
MA0775.2_rc_shift4 (MEIS3_rc)				; oligos_6nt_mkv1_m2 versus MA0775.2_rc (MEIS3_rc); m=19/19; ncol2=7; w=0; offset=0; strand=R; shift=4; score=0.436299; ----cTGTCAw------ ; cor=; Ncor= a 0 0 0 0 2094.0 145.0 160.0 53.0 0.0 7165.0 3451.0 0 0 0 0 0 0 c 0 0 0 0 7165.0 468.0 8.0 455.0 7165.0 260.0 1788.0 0 0 0 0 0 0 g 0 0 0 0 1889.0 8.0 7165.0 20.0 6.0 383.0 60.0 0 0 0 0 0 0 t 0 0 0 0 1690.0 7165.0 53.0 7165.0 0.0 465.0 1866.0 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv1_m4_shift0 (oligos_6nt_mkv1_m4)				; oligos_6nt_mkv1_m4; m=0 (reference); ncol1=10; shift=0; ncol=10; mtsmCmwCmC ; Alignment reference a 18 6 2 14 0 18 8 2 13 1 c 8 3 12 9 27 10 3 22 10 25 g 1 6 13 6 1 0 2 2 1 1 t 2 14 2 0 1 1 16 3 5 2
MA0018.5_rc_shift1 (CREB1_rc)				; oligos_6nt_mkv1_m4 versus MA0018.5_rc (CREB1_rc); m=1/8; ncol2=8; w=0; offset=1; strand=R; shift=1; score=0.649893; -TGACATCA- ; cor=; Ncor= a 0 1485.0 1852.0 68217.0 1831.0 56875.0 2279.0 2963.0 75554.0 0 c 0 1222.0 2177.0 1207.0 74401.0 6339.0 2012.0 72555.0 1109.0 0 g 0 1018.0 71982.0 1231.0 1895.0 14144.0 1748.0 2298.0 970.0 0 t 0 75819.0 3533.0 8889.0 1417.0 2186.0 73505.0 1728.0 1911.0 0
MA0734.4_shift2 (Gli2)				; oligos_6nt_mkv1_m4 versus MA0734.4 (Gli2); m=2/8; ncol2=9; w=0; offset=2; strand=D; shift=2; score=0.511433; --GACCACCC ; cor=; Ncor= a 0 0 60.0 1920.0 44.0 8.0 2216.0 9.0 313.0 59.0 c 0 0 96.0 227.0 2404.0 2464.0 40.0 2451.0 2145.0 2288.0 g 0 0 2251.0 337.0 27.0 13.0 82.0 12.0 20.0 77.0 t 0 0 85.0 8.0 17.0 7.0 154.0 20.0 14.0 68.0
MA1630.3_rc_shift2 (ZNF281_rc)				; oligos_6nt_mkv1_m4 versus MA1630.3_rc (ZNF281_rc); m=3/8; ncol2=10; w=0; offset=2; strand=R; shift=2; score=0.474552; --CCCCTCCC ; cor=; Ncor= a 0 0 7.0 18.0 1.0 105.0 96.0 1.0 1.0 1.0 c 0 0 920.0 940.0 998.0 772.0 1.0 998.0 998.0 963.0 g 0 0 27.0 1.0 1.0 1.0 183.0 1.0 1.0 1.0 t 0 0 47.0 41.0 1.0 122.0 720.0 1.0 1.0 35.0
MA1965.2_shift4 (SP5)				; oligos_6nt_mkv1_m4 versus MA1965.2 (SP5); m=4/8; ncol2=6; w=0; offset=4; strand=D; shift=4; score=0.463247; ----CCTCCC ; cor=; Ncor= a 0 0 0 0 6.0 7.0 0.0 47.0 11.0 0.0 c 0 0 0 0 20683.0 20286.0 0.0 20649.0 20451.0 20604.0 g 0 0 0 0 3.0 403.0 231.0 0.0 234.0 92.0 t 0 0 0 0 4.0 0.0 20465.0 0.0 0.0 0.0
MA2337.1_rc_shift1 (Nr1h3_rc)				; oligos_6nt_mkv1_m4 versus MA2337.1_rc (Nr1h3_rc); m=5/8; ncol2=6; w=0; offset=1; strand=R; shift=1; score=0.429071; -TGmCCT--- ; cor=; Ncor= a 0 1.0 5.0 2247.0 4.0 3.0 0.0 0 0 0 c 0 19.0 1.0 1600.0 3839.0 3832.0 35.0 0 0 0 g 0 6.0 3851.0 5.0 17.0 27.0 31.0 0 0 0 t 0 3836.0 5.0 10.0 2.0 0.0 3796.0 0 0 0
MA1996.2_rc_shift1 (Nr1H2_rc)				; oligos_6nt_mkv1_m4 versus MA1996.2_rc (Nr1H2_rc); m=6/8; ncol2=6; w=0; offset=1; strand=R; shift=1; score=0.424654; -TGACCT--- ; cor=; Ncor= a 0 37.0 269.0 8834.0 104.0 191.0 99.0 0 0 0 c 0 241.0 72.0 41.0 8740.0 8521.0 132.0 0 0 0 g 0 51.0 8483.0 35.0 36.0 171.0 191.0 0 0 0 t 0 8642.0 147.0 61.0 91.0 88.0 8549.0 0 0 0
MA1110.3_rc_shift1 (Nr1H4_rc)				; oligos_6nt_mkv1_m4 versus MA1110.3_rc (Nr1H4_rc); m=7/8; ncol2=6; w=0; offset=1; strand=R; shift=1; score=0.422632; -TGACCT--- ; cor=; Ncor= a 0 0.0 212.0 4735.0 30.0 31.0 7.0 0 0 0 c 0 118.0 10.0 0.0 4671.0 4542.0 49.0 0 0 0 g 0 29.0 4351.0 0.0 4.0 150.0 83.0 0 0 0 t 0 4589.0 163.0 1.0 31.0 13.0 4597.0 0 0 0
MA0498.3_shift1 (MEIS1)				; oligos_6nt_mkv1_m4 versus MA0498.3 (MEIS1); m=8/8; ncol2=5; w=0; offset=1; strand=D; shift=1; score=0.404785; -TGACA---- ; cor=; Ncor= a 0 8690.0 0.0 77159.0 0.0 77159.0 0 0 0 0 c 0 5575.0 1249.0 2903.0 77159.0 0.0 0 0 0 0 g 0 3174.0 77159.0 672.0 0.0 9263.0 0 0 0 0 t 0 77159.0 0.0 0.0 1155.0 3861.0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv1_m5_shift6 (oligos_6nt_mkv1_m5)				; oligos_6nt_mkv1_m5; m=0 (reference); ncol1=12; shift=6; ncol=18; ------RYSACmvvnYvh ; Alignment reference a 0 0 0 0 0 0 3 0 0 4 0 2 2 1 1 0 1 1 c 0 0 0 0 0 0 0 1 1 0 4 2 1 2 1 1 1 2 g 0 0 0 0 0 0 1 0 3 0 0 0 1 1 1 0 2 0 t 0 0 0 0 0 0 0 3 0 0 0 0 0 0 1 3 0 1
MA1632.2_rc_shift6 (ATF2_rc)				; oligos_6nt_mkv1_m5 versus MA1632.2_rc (ATF2_rc); m=1/11; ncol2=10; w=0; offset=0; strand=R; shift=6; score=0.595031; ------aTGACvTCAT-- ; cor=; Ncor= a 0 0 0 0 0 0 36321.0 509.0 909.0 57832.0 261.0 18166.0 975.0 2498.0 57651.0 1438.0 0 0 c 0 0 0 0 0 0 5971.0 768.0 649.0 283.0 56882.0 23207.0 262.0 55318.0 328.0 6229.0 0 0 g 0 0 0 0 0 0 14153.0 218.0 53464.0 316.0 886.0 16970.0 396.0 408.0 899.0 3145.0 0 0 t 0 0 0 0 0 0 2949.0 57899.0 4372.0 963.0 1365.0 1051.0 57761.0 1170.0 516.0 48582.0 0 0
MA2327.1_shift9 (PGR)				; oligos_6nt_mkv1_m5 versus MA2327.1 (PGR); m=2/11; ncol2=9; w=0; offset=3; strand=D; shift=9; score=0.534336; ---------ACAkwmTGT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 29390.0 299.0 27485.0 5276.0 8275.0 8527.0 328.0 765.0 173.0 c 0 0 0 0 0 0 0 0 0 121.0 28612.0 363.0 6470.0 6654.0 9602.0 1695.0 185.0 190.0 g 0 0 0 0 0 0 0 0 0 189.0 185.0 1689.0 9598.0 6656.0 6465.0 364.0 28617.0 122.0 t 0 0 0 0 0 0 0 0 0 164.0 768.0 327.0 8520.0 8279.0 5270.0 27477.0 297.0 29379.0
MA1531.2_rc_shift7 (NR1D1_rc)				; oligos_6nt_mkv1_m5 versus MA1531.2_rc (NR1D1_rc); m=3/11; ncol2=14; w=0; offset=1; strand=R; shift=7; score=0.521179; -------TGACCyAcTrA ; cor=; Ncor= a 0 0 0 0 0 0 0 20.0 344.0 6595.0 6.0 1113.0 11.0 6595.0 301.0 7.0 4243.0 6595.0 c 0 0 0 0 0 0 0 917.0 89.0 700.0 6595.0 6595.0 3018.0 213.0 4428.0 2.0 2.0 1647.0 g 0 0 0 0 0 0 0 4.0 6595.0 429.0 0.0 0.0 92.0 117.0 1241.0 2.0 6595.0 206.0 t 0 0 0 0 0 0 0 6595.0 1.0 213.0 8.0 0.0 3576.0 20.0 625.0 6595.0 0.0 0.0
MA0774.1_shift6 (MEIS2)				; oligos_6nt_mkv1_m5 versus MA0774.1 (MEIS2); m=4/11; ncol2=8; w=0; offset=0; strand=D; shift=6; score=0.485772; ------tTGACAGs---- ; cor=; Ncor= a 0 0 0 0 0 0 408.0 31.0 0.0 1351.0 9.0 1351.0 83.0 157.0 0 0 0 0 c 0 0 0 0 0 0 264.0 3.0 0.0 3.0 1351.0 7.0 98.0 701.0 0 0 0 0 g 0 0 0 0 0 0 314.0 40.0 1351.0 25.0 0.0 4.0 1351.0 650.0 0 0 0 0 t 0 0 0 0 0 0 1351.0 1351.0 0.0 62.0 5.0 0.0 67.0 88.0 0 0 0 0
MA0775.2_shift6 (MEIS3)				; oligos_6nt_mkv1_m5 versus MA0775.2 (MEIS3); m=5/11; ncol2=7; w=0; offset=0; strand=D; shift=6; score=0.460262; ------wTGACAg----- ; cor=; Ncor= a 0 0 0 0 0 0 1866.0 465.0 0.0 7165.0 53.0 7165.0 1690.0 0 0 0 0 0 c 0 0 0 0 0 0 60.0 383.0 6.0 20.0 7165.0 8.0 1889.0 0 0 0 0 0 g 0 0 0 0 0 0 1788.0 260.0 7165.0 455.0 8.0 468.0 7165.0 0 0 0 0 0 t 0 0 0 0 0 0 3451.0 7165.0 0.0 53.0 160.0 145.0 2094.0 0 0 0 0 0
MA2324.1_shift6 (BCL11A)				; oligos_6nt_mkv1_m5 versus MA2324.1 (BCL11A); m=6/11; ncol2=7; w=0; offset=0; strand=D; shift=6; score=0.424439; ------CTGACCA----- ; cor=; Ncor= a 0 0 0 0 0 0 343.0 180.0 125.0 5724.0 155.0 143.0 4495.0 0 0 0 0 0 c 0 0 0 0 0 0 5024.0 120.0 281.0 92.0 5855.0 5964.0 641.0 0 0 0 0 0 g 0 0 0 0 0 0 591.0 165.0 5747.0 100.0 141.0 55.0 385.0 0 0 0 0 0 t 0 0 0 0 0 0 307.0 5800.0 112.0 349.0 114.0 103.0 744.0 0 0 0 0 0
MA0522.4_shift11 (TCF3)				; oligos_6nt_mkv1_m5 versus MA0522.4 (TCF3); m=7/11; ncol2=7; w=0; offset=5; strand=D; shift=11; score=0.42264; -----------CACCTGC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 469.0 28916.0 309.0 1127.0 380.0 1089.0 295.0 c 0 0 0 0 0 0 0 0 0 0 0 29379.0 396.0 28640.0 27199.0 2003.0 1038.0 28742.0 g 0 0 0 0 0 0 0 0 0 0 0 708.0 1574.0 1362.0 2652.0 1339.0 28642.0 987.0 t 0 0 0 0 0 0 0 0 0 0 0 705.0 375.0 950.0 283.0 27539.0 492.0 1237.0
MA1558.2_rc_shift11 (SNAI1_rc)				; oligos_6nt_mkv1_m5 versus MA1558.2_rc (SNAI1_rc); m=8/11; ncol2=7; w=0; offset=5; strand=R; shift=11; score=0.421111; -----------CACCTGy ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 311.0 19982.0 28.0 306.0 568.0 340.0 3518.0 c 0 0 0 0 0 0 0 0 0 0 0 19982.0 42.0 19982.0 19982.0 91.0 275.0 12989.0 g 0 0 0 0 0 0 0 0 0 0 0 0.0 0.0 5.0 517.0 297.0 19982.0 501.0 t 0 0 0 0 0 0 0 0 0 0 0 706.0 38.0 72.0 1766.0 19982.0 446.0 6993.0
MA1648.2_shift11 (TCF12)				; oligos_6nt_mkv1_m5 versus MA1648.2 (TCF12); m=9/11; ncol2=7; w=0; offset=5; strand=D; shift=11; score=0.420179; -----------CACCTGC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 955.0 52529.0 744.0 1913.0 1380.0 2819.0 1089.0 c 0 0 0 0 0 0 0 0 0 0 0 57848.0 2007.0 55598.0 55765.0 3886.0 2088.0 55061.0 g 0 0 0 0 0 0 0 0 0 0 0 1186.0 5607.0 3780.0 3536.0 2625.0 55922.0 2314.0 t 0 0 0 0 0 0 0 0 0 0 0 1887.0 1733.0 1754.0 662.0 53985.0 1047.0 3412.0
MA1535.2_rc_shift7 (NR2C1_rc)				; oligos_6nt_mkv1_m5 versus MA1535.2_rc (NR2C1_rc); m=10/11; ncol2=6; w=0; offset=1; strand=R; shift=7; score=0.411485; -------TGACCy----- ; cor=; Ncor= a 0 0 0 0 0 0 0 0.0 0.0 9622.0 0.0 297.0 55.0 0 0 0 0 0 c 0 0 0 0 0 0 0 1716.0 321.0 271.0 9622.0 9622.0 4756.0 0 0 0 0 0 g 0 0 0 0 0 0 0 0.0 9622.0 0.0 0.0 0.0 227.0 0 0 0 0 0 t 0 0 0 0 0 0 0 9622.0 0.0 0.0 0.0 0.0 4866.0 0 0 0 0 0
MA1985.1_shift0 (ZNF669)				; oligos_6nt_mkv1_m5 versus MA1985.1 (ZNF669); m=11/11; ncol2=15; w=-6; offset=-6; strand=D; shift=0; score=0.405077; gGGgyGAyGACCrcT--- ; cor=; Ncor= a 145.0 25.0 25.0 125.0 45.0 5.0 925.0 5.0 5.0 705.0 5.0 25.0 485.0 105.0 65.0 0 0 0 c 125.0 5.0 5.0 185.0 625.0 5.0 65.0 485.0 5.0 205.0 885.0 805.0 65.0 485.0 105.0 0 0 0 g 585.0 965.0 965.0 585.0 5.0 985.0 5.0 5.0 985.0 25.0 5.0 85.0 385.0 225.0 105.0 0 0 0 t 145.0 5.0 5.0 105.0 325.0 5.0 5.0 505.0 5.0 65.0 105.0 85.0 65.0 185.0 725.0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv1_m3_shift1 (oligos_6nt_mkv1_m3)				; oligos_6nt_mkv1_m3; m=0 (reference); ncol1=17; shift=1; ncol=18; -TCATGTGATGrGTGaTg ; Alignment reference a 0 0 0 5 0 0 0 0 6 0 0 3 0 0 0 4 0 1 c 0 1 6 1 1 0 0 0 0 0 0 0 0 0 0 1 0 1 g 0 0 0 0 0 6 0 6 0 0 6 3 6 0 5 1 0 4 t 0 5 0 0 5 0 6 0 0 6 0 0 0 6 1 0 6 0
MA1101.3_rc_shift7 (BACH2_rc)				; oligos_6nt_mkv1_m3 versus MA1101.3_rc (BACH2_rc); m=1/13; ncol2=11; w=0; offset=6; strand=R; shift=7; score=0.471175; -------sATGAsTCATG ; cor=; Ncor= a 0 0 0 0 0 0 0 5274.0 63746.0 0.0 3.0 67975.0 18.0 6.0 54.0 68266.0 0.0 8116.0 c 0 0 0 0 0 0 0 30498.0 2028.0 11.0 0.0 856.0 30785.0 13.0 68240.0 1.0 15304.0 6727.0 g 0 0 0 0 0 0 0 35220.0 11634.0 2.0 68215.0 20.0 37438.0 1088.0 0.0 7.0 260.0 61580.0 t 0 0 0 0 0 0 0 4522.0 47.0 68264.0 115.0 3.0 50.0 67846.0 6.0 1.0 62993.0 9369.0
MA0841.2_rc_shift7 (NFE2_rc)				; oligos_6nt_mkv1_m3 versus MA0841.2_rc (NFE2_rc); m=2/13; ncol2=10; w=0; offset=6; strand=R; shift=7; score=0.451837; -------sATGAGTCAT- ; cor=; Ncor= a 0 0 0 0 0 0 0 3417.0 18831.0 5.0 3.0 18831.0 17.0 4.0 2.0 18831.0 5.0 0 c 0 0 0 0 0 0 0 5067.0 10.0 8.0 0.0 3.0 4472.0 0.0 18831.0 0.0 1306.0 0 g 0 0 0 0 0 0 0 9860.0 2689.0 13.0 18831.0 20.0 14360.0 11.0 0.0 8.0 9.0 0 t 0 0 0 0 0 0 0 487.0 0.0 18831.0 1.0 0.0 37.0 18831.0 0.0 2.0 18831.0 0
MA0829.3_rc_shift0 (SREBF1_rc)				; oligos_6nt_mkv1_m3 versus MA0829.3_rc (SREBF1_rc); m=3/13; ncol2=10; w=-1; offset=-1; strand=R; shift=0; score=0.438153; ATCAsGTGAT-------- ; cor=; Ncor= a 5034.0 197.0 71.0 6866.0 61.0 124.0 131.0 110.0 6670.0 160.0 0 0 0 0 0 0 0 0 c 510.0 116.0 6786.0 45.0 2702.0 1467.0 57.0 158.0 128.0 1576.0 0 0 0 0 0 0 0 0 g 1456.0 118.0 221.0 100.0 4187.0 5502.0 61.0 6770.0 165.0 484.0 0 0 0 0 0 0 0 0 t 141.0 6710.0 63.0 130.0 191.0 48.0 6892.0 103.0 178.0 4921.0 0 0 0 0 0 0 0 0
MA0093.4_shift0 (USF1)				; oligos_6nt_mkv1_m3 versus MA0093.4 (USF1); m=4/13; ncol2=10; w=-1; offset=-1; strand=D; shift=0; score=0.435496; GTCATGTGAC-------- ; cor=; Ncor= a 7574.0 3841.0 533.0 53654.0 418.0 3453.0 448.0 403.0 45587.0 1845.0 0 0 0 0 0 0 0 0 c 3030.0 9543.0 53536.0 654.0 13185.0 1387.0 264.0 817.0 3045.0 41450.0 0 0 0 0 0 0 0 0 g 43094.0 3912.0 766.0 477.0 3666.0 50076.0 601.0 53634.0 4679.0 3018.0 0 0 0 0 0 0 0 0 t 1636.0 38038.0 499.0 549.0 38065.0 418.0 54021.0 480.0 2023.0 9021.0 0 0 0 0 0 0 0 0
MA0828.3_shift0 (SREBF2)				; oligos_6nt_mkv1_m3 versus MA0828.3 (SREBF2); m=5/13; ncol2=10; w=-1; offset=-1; strand=D; shift=0; score=0.431577; rTCACGTGAy-------- ; cor=; Ncor= a 9699.0 103.0 0.0 14252.0 12.0 6.0 2.0 0.0 14252.0 1.0 0 0 0 0 0 0 0 0 c 119.0 60.0 14252.0 0.0 14252.0 553.0 218.0 26.0 1.0 4548.0 0 0 0 0 0 0 0 0 g 4554.0 4.0 24.0 205.0 556.0 14252.0 0.0 14252.0 61.0 116.0 0 0 0 0 0 0 0 0 t 1.0 14252.0 0.0 1.0 5.0 12.0 14252.0 0.0 107.0 9704.0 0 0 0 0 0 0 0 0
MA0663.1_shift0 (MLX)				; oligos_6nt_mkv1_m3 versus MA0663.1 (MLX); m=6/13; ncol2=10; w=-1; offset=-1; strand=D; shift=0; score=0.425206; rTCACGTGAt-------- ; cor=; Ncor= a 177.0 0.0 3.0 234.0 0.0 1.0 2.0 2.0 240.0 23.0 0 0 0 0 0 0 0 0 c 4.0 17.0 251.0 0.0 257.0 0.0 1.0 0.0 9.0 84.0 0 0 0 0 0 0 0 0 g 110.0 61.0 3.0 6.0 0.0 558.0 1.0 555.0 35.0 6.0 0 0 0 0 0 0 0 0 t 41.0 322.0 4.0 0.0 0.0 1.0 315.0 5.0 16.0 235.0 0 0 0 0 0 0 0 0
MA0620.4_rc_shift0 (MITF_rc)				; oligos_6nt_mkv1_m3 versus MA0620.4_rc (MITF_rc); m=7/13; ncol2=10; w=-1; offset=-1; strand=R; shift=0; score=0.420635; rTCACGTGAy-------- ; cor=; Ncor= a 19439.0 2414.0 237.0 61548.0 313.0 14302.0 760.0 208.0 53123.0 2120.0 0 0 0 0 0 0 0 0 c 5204.0 4999.0 62666.0 751.0 47768.0 1140.0 469.0 416.0 2991.0 36761.0 0 0 0 0 0 0 0 0 g 36765.0 2990.0 416.0 469.0 1140.0 47772.0 751.0 62666.0 4997.0 5205.0 0 0 0 0 0 0 0 0 t 2119.0 53124.0 208.0 759.0 14306.0 313.0 61547.0 237.0 2416.0 19441.0 0 0 0 0 0 0 0 0
MA1633.2_rc_shift8 (BACH1_rc)				; oligos_6nt_mkv1_m3 versus MA1633.2_rc (BACH1_rc); m=8/13; ncol2=9; w=0; offset=7; strand=R; shift=8; score=0.407914; --------aTGAGTCAT- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 32322.0 17.0 18.0 32322.0 517.0 14.0 811.0 32322.0 1048.0 0 c 0 0 0 0 0 0 0 0 2962.0 50.0 52.0 3303.0 0.0 24.0 32322.0 25.0 6187.0 0 g 0 0 0 0 0 0 0 0 8737.0 39.0 32322.0 31.0 32322.0 38.0 13.0 25.0 1482.0 0 t 0 0 0 0 0 0 0 0 4970.0 32322.0 2834.0 534.0 551.0 32322.0 0.0 7.0 32322.0 0
MA0655.1_rc_shift8 (JDP2_rc)				; oligos_6nt_mkv1_m3 versus MA0655.1_rc (JDP2_rc); m=9/13; ncol2=9; w=0; offset=7; strand=R; shift=8; score=0.406877; --------ATGASTCAT- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1634.0 7.0 9.0 1634.0 13.0 25.0 22.0 1634.0 8.0 0 c 0 0 0 0 0 0 0 0 5.0 0.0 3.0 6.0 434.0 2.0 1634.0 1.0 140.0 0 g 0 0 0 0 0 0 0 0 404.0 0.0 1634.0 0.0 1200.0 1.0 3.0 6.0 19.0 0 t 0 0 0 0 0 0 0 0 22.0 1634.0 22.0 6.0 14.0 1634.0 0.0 5.0 1634.0 0
MA0490.3_rc_shift8 (JUNB_rc)				; oligos_6nt_mkv1_m3 versus MA0490.3_rc (JUNB_rc); m=10/13; ncol2=9; w=0; offset=7; strand=R; shift=8; score=0.403049; --------ATGAGTCAT- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 59750.0 693.0 797.0 76655.0 4798.0 682.0 3779.0 78342.0 3866.0 0 c 0 0 0 0 0 0 0 0 7508.0 900.0 617.0 913.0 10519.0 550.0 74757.0 322.0 11566.0 0 g 0 0 0 0 0 0 0 0 8876.0 588.0 73199.0 289.0 59784.0 523.0 550.0 654.0 7817.0 0 t 0 0 0 0 0 0 0 0 3722.0 77675.0 5243.0 1999.0 4755.0 78101.0 770.0 538.0 56607.0 0
MA0526.5_rc_shift0 (USF2_rc)				; oligos_6nt_mkv1_m3 versus MA0526.5_rc (USF2_rc); m=11/13; ncol2=10; w=-1; offset=-1; strand=R; shift=0; score=0.402834; rTCACGTGAy-------- ; cor=; Ncor= a 7037.0 440.0 0.0 18731.0 0.0 39.0 5.0 7.0 16183.0 46.0 0 0 0 0 0 0 0 0 c 574.0 2556.0 18731.0 12.0 18731.0 9.0 4.0 6.0 160.0 11688.0 0 0 0 0 0 0 0 0 g 11694.0 162.0 9.0 4.0 0.0 18731.0 6.0 18731.0 2548.0 583.0 0 0 0 0 0 0 0 0 t 33.0 16175.0 15.0 10.0 41.0 0.0 18731.0 0.0 450.0 7043.0 0 0 0 0 0 0 0 0
MA0831.3_rc_shift0 (TFE3_rc)				; oligos_6nt_mkv1_m3 versus MA0831.3_rc (TFE3_rc); m=12/13; ncol2=10; w=-1; offset=-1; strand=R; shift=0; score=0.400734; rTCACGTGAy-------- ; cor=; Ncor= a 6291.0 594.0 0.0 19939.0 0.0 774.0 34.0 0.0 19939.0 142.0 0 0 0 0 0 0 0 0 c 1050.0 1725.0 19939.0 16.0 19939.0 6.0 6.0 4.0 1295.0 13651.0 0 0 0 0 0 0 0 0 g 13648.0 1312.0 5.0 0.0 6.0 19939.0 10.0 19939.0 1743.0 1050.0 0 0 0 0 0 0 0 0 t 124.0 19939.0 0.0 39.0 782.0 0.0 19939.0 0.0 591.0 6289.0 0 0 0 0 0 0 0 0
MA0491.3_rc_shift8 (JUND_rc)				; oligos_6nt_mkv1_m3 versus MA0491.3_rc (JUND_rc); m=13/13; ncol2=9; w=0; offset=7; strand=R; shift=8; score=0.400127; --------ATGAGTCAt- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 83216.0 809.0 1449.0 102249.0 4650.0 925.0 3920.0 104101.0 5020.0 0 c 0 0 0 0 0 0 0 0 7908.0 965.0 953.0 1147.0 20633.0 573.0 99787.0 443.0 20586.0 0 g 0 0 0 0 0 0 0 0 12025.0 751.0 98628.0 496.0 76028.0 650.0 873.0 757.0 10173.0 0 t 0 0 0 0 0 0 0 0 2796.0 103420.0 4915.0 2053.0 4634.0 103797.0 1365.0 644.0 70166.0 0