One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/local_words_7nt_m18/peak-motifs_local_words_7nt_m18.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2020/nonredundant/JASPAR2020_CORE_vertebrates_non-redundant_pfms.tf -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 Myogenin_Rep1_motifs50/results/discovered_motifs/local_words_7nt_m18/peak-motifs_local_words_7nt_m18_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: local_words_7nt_m18_shift0 ; 25 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
local_words_7nt_m18_shift0 (local_words_7nt_m18local_words_7nt_m18)
; local_words_7nt_m18 (local_words_7nt_m18local_words_7nt_m18); m=0 (reference); ncol1=17; shift=0; ncol=20; vsaGGCAGCTGTCAcys--- ; Alignment reference a 370 344 929 147 139 13 1427 16 20 11 8 39 29 1148 90 308 303 0 0 0 c 425 465 125 66 110 1427 13 49 1409 8 12 58 1293 158 974 510 391 0 0 0 g 424 429 205 1111 1122 15 15 1375 19 8 1435 62 72 49 248 260 445 0 0 0 t 243 224 203 138 91 7 7 22 14 1435 7 1303 68 107 150 384 323 0 0 0

MA1485.1_shift1 (FERD3L)
; local_words_7nt_m18 versus MA1485.1 (FERD3L); m=1/24; ncol2=14; w=14; offset=1; strand=D; shift=1; score=0.631438; -GyrmCAGCTGTyAC----- ; cor=; Ncor= a 0 2158.0 450.0 14384.0 15390.0 36.0 29605.0 0.0 3649.0 81.0 0.0 1268.0 103.0 29605.0 0.0 0 0 0 0 0 c 0 68.0 20049.0 2443.0 9363.0 29605.0 126.0 841.0 29605.0 129.0 0.0 3878.0 8664.0 809.0 29605.0 0 0 0 0 0 g 0 29605.0 348.0 12703.0 3142.0 0.0 118.0 29605.0 471.0 210.0 29605.0 3395.0 5920.0 9815.0 0.0 0 0 0 0 0 t 0 225.0 9557.0 74.0 1710.0 0.0 144.0 4691.0 0.0 29605.0 0.0 21065.0 14919.0 958.0 48.0 0 0 0 0 0

MA0499.2_shift2 (MYOD1)
; local_words_7nt_m18 versus MA0499.2 (MYOD1); m=2/24; ncol2=13; w=13; offset=2; strand=D; shift=2; score=0.619874; --cwgCACCTGTymy----- ; cor=; Ncor= a 0 0 7175.0 9462.0 4549.0 349.0 32281.0 463.0 534.0 241.0 208.0 402.0 1808.0 9462.0 5687.0 0 0 0 0 0 c 0 0 11279.0 7103.0 5622.0 33328.0 583.0 25275.0 32504.0 563.0 386.0 2555.0 19052.0 10485.0 11760.0 0 0 0 0 0 g 0 0 8118.0 8444.0 21884.0 354.0 849.0 7336.0 932.0 366.0 33468.0 1699.0 4440.0 6202.0 7495.0 0 0 0 0 0 t 0 0 7728.0 9291.0 2245.0 269.0 587.0 1226.0 330.0 33130.0 238.0 29644.0 9000.0 8151.0 9358.0 0 0 0 0 0

MA0796.1_rc_shift2 (TGIF1_rc)
; local_words_7nt_m18 versus MA0796.1_rc (TGIF1_rc); m=3/24; ncol2=12; w=12; offset=2; strand=R; shift=2; score=0.57927; --TGACAGCTGTCA------ ; cor=; Ncor= a 0 0 33.0 17.0 12656.0 9.0 12775.0 12.0 963.0 4.0 7.0 0.0 4.0 13221.0 0 0 0 0 0 0 c 0 0 32.0 13.0 3.0 13261.0 8.0 2520.0 12673.0 22.0 5.0 20.0 13499.0 1.0 0 0 0 0 0 0 g 0 0 17.0 13485.0 24.0 13.0 62.0 10562.0 20.0 5.0 13304.0 3.0 8.0 19.0 0 0 0 0 0 0 t 0 0 9034.0 36.0 45.0 11.0 1.0 452.0 14.0 8861.0 1.0 8828.0 9.0 39.0 0 0 0 0 0 0

MA1571.1_shift2 (TGIF2LX)
; local_words_7nt_m18 versus MA1571.1 (TGIF2LX); m=4/24; ncol2=12; w=12; offset=2; strand=D; shift=2; score=0.577755; --TGACAgcTGTCA------ ; cor=; Ncor= a 0 0 237.0 52.0 2539.0 32.0 2539.0 37.0 380.0 37.0 64.0 428.0 45.0 2539.0 0 0 0 0 0 0 c 0 0 355.0 187.0 64.0 2539.0 18.0 575.0 1568.0 318.0 23.0 127.0 2539.0 132.0 0 0 0 0 0 0 g 0 0 145.0 2539.0 132.0 29.0 316.0 1566.0 554.0 23.0 2539.0 72.0 172.0 361.0 0 0 0 0 0 0 t 0 0 2539.0 47.0 428.0 59.0 40.0 362.0 38.0 2539.0 22.0 2539.0 66.0 232.0 0 0 0 0 0 0

MA1641.1_rc_shift2 (MYF5_rc)
; local_words_7nt_m18 versus MA1641.1_rc (MYF5_rc); m=5/24; ncol2=12; w=12; offset=2; strand=R; shift=2; score=0.573623; --gvaCAGCTGtbc------ ; cor=; Ncor= a 0 0 2697.0 3507.0 7489.0 95.0 10966.0 100.0 222.0 129.0 43.0 578.0 1572.0 2554.0 0 0 0 0 0 0 c 0 0 2701.0 2985.0 1368.0 10912.0 47.0 230.0 10658.0 69.0 161.0 1774.0 3145.0 3258.0 0 0 0 0 0 0 g 0 0 3258.0 3146.0 1775.0 161.0 68.0 10657.0 230.0 47.0 10911.0 1368.0 2986.0 2700.0 0 0 0 0 0 0 t 0 0 2554.0 1572.0 578.0 42.0 129.0 223.0 100.0 10965.0 95.0 7490.0 3507.0 2698.0 0 0 0 0 0 0

MA0797.1_rc_shift2 (TGIF2_rc)
; local_words_7nt_m18 versus MA0797.1_rc (TGIF2_rc); m=6/24; ncol2=12; w=12; offset=2; strand=R; shift=2; score=0.573613; --TGACAsCTGTCA------ ; cor=; Ncor= a 0 0 420.0 113.0 11801.0 83.0 11801.0 91.0 2690.0 41.0 156.0 155.0 52.0 11801.0 0 0 0 0 0 0 c 0 0 395.0 136.0 123.0 11801.0 57.0 4341.0 11801.0 270.0 51.0 396.0 11801.0 153.0 0 0 0 0 0 0 g 0 0 172.0 11801.0 621.0 77.0 410.0 7459.0 262.0 25.0 11801.0 34.0 48.0 421.0 0 0 0 0 0 0 t 0 0 11801.0 70.0 601.0 150.0 71.0 1501.0 324.0 11801.0 127.0 11801.0 97.0 477.0 0 0 0 0 0 0

MA1572.1_shift2 (TGIF2LY)
; local_words_7nt_m18 versus MA1572.1 (TGIF2LY); m=7/24; ncol2=12; w=12; offset=2; strand=D; shift=2; score=0.572977; --TGACAgcTGTCA------ ; cor=; Ncor= a 0 0 736.0 162.0 5209.0 123.0 5209.0 130.0 1033.0 140.0 175.0 1084.0 135.0 5209.0 0 0 0 0 0 0 c 0 0 836.0 270.0 163.0 5209.0 37.0 1267.0 2850.0 848.0 61.0 371.0 5209.0 362.0 0 0 0 0 0 0 g 0 0 415.0 5209.0 349.0 66.0 833.0 2794.0 1188.0 73.0 5209.0 145.0 259.0 807.0 0 0 0 0 0 0 t 0 0 5209.0 104.0 1197.0 144.0 110.0 1018.0 138.0 5209.0 121.0 5209.0 172.0 679.0 0 0 0 0 0 0

MA0500.2_rc_shift2 (MYOG_rc)
; local_words_7nt_m18 versus MA0500.2_rc (MYOG_rc); m=8/24; ncol2=12; w=12; offset=2; strand=R; shift=2; score=0.571771; --sarCAGCTGyts------ ; cor=; Ncor= a 0 0 5310.0 8475.0 7192.0 88.0 21777.0 95.0 169.0 163.0 182.0 1678.0 4692.0 5070.0 0 0 0 0 0 0 c 0 0 6369.0 3718.0 2706.0 21985.0 179.0 131.0 21963.0 236.0 101.0 10790.0 5483.0 5596.0 0 0 0 0 0 0 g 0 0 5660.0 5497.0 10792.0 102.0 238.0 21964.0 130.0 176.0 21988.0 2730.0 3754.0 6381.0 0 0 0 0 0 0 t 0 0 5018.0 4667.0 1667.0 182.0 163.0 167.0 95.0 21782.0 86.0 7159.0 8428.0 5310.0 0 0 0 0 0 0

MA1619.1_rc_shift2 (Ptf1a(var.2)_rc)
; local_words_7nt_m18 versus MA1619.1_rc (Ptf1a(var.2)_rc); m=9/24; ncol2=12; w=12; offset=2; strand=R; shift=2; score=0.565706; --rmaCAGCTGtky------ ; cor=; Ncor= a 0 0 1871.0 1974.0 4341.0 49.0 7121.0 33.0 223.0 28.0 27.0 529.0 1216.0 1607.0 0 0 0 0 0 0 c 0 0 1803.0 2426.0 1065.0 7150.0 40.0 299.0 6689.0 65.0 28.0 1308.0 1629.0 1974.0 0 0 0 0 0 0 g 0 0 1977.0 1632.0 1312.0 27.0 66.0 6697.0 307.0 41.0 7149.0 1070.0 2430.0 1803.0 0 0 0 0 0 0 t 0 0 1602.0 1221.0 535.0 27.0 26.0 224.0 34.0 7119.0 49.0 4346.0 1978.0 1869.0 0 0 0 0 0 0

MA0521.1_rc_shift2 (Tcf12_rc)
; local_words_7nt_m18 versus MA0521.1_rc (Tcf12_rc); m=10/24; ncol2=11; w=11; offset=2; strand=R; shift=2; score=0.562671; --cwsCAGCTGYy------- ; cor=; Ncor= a 0 0 2191.0 3642.0 1682.0 0.0 12895.0 0.0 0.0 0.0 0.0 0.0 17.0 0 0 0 0 0 0 0 c 0 0 4836.0 2925.0 3811.0 12895.0 0.0 1889.0 12887.0 0.0 0.0 3951.0 5123.0 0 0 0 0 0 0 0 g 0 0 3005.0 2416.0 5527.0 0.0 0.0 10822.0 0.0 0.0 12895.0 124.0 1585.0 0 0 0 0 0 0 0 t 0 0 2863.0 3912.0 1875.0 0.0 0.0 184.0 8.0 12895.0 0.0 8820.0 6170.0 0 0 0 0 0 0 0

MA0745.2_shift2 (SNAI2)
; local_words_7nt_m18 versus MA0745.2 (SNAI2); m=11/24; ncol2=13; w=13; offset=2; strand=D; shift=2; score=0.557744; --aygCACCTGTmry----- ; cor=; Ncor= a 0 0 14658.0 7668.0 10322.0 408.0 44963.0 112.0 246.0 78.0 179.0 814.0 12017.0 13586.0 6215.0 0 0 0 0 0 c 0 0 10031.0 12314.0 6393.0 44463.0 202.0 45144.0 44739.0 313.0 254.0 6467.0 18771.0 11016.0 13476.0 0 0 0 0 0 g 0 0 11169.0 9490.0 26742.0 323.0 424.0 326.0 487.0 196.0 45257.0 1263.0 6281.0 12297.0 8219.0 0 0 0 0 0 t 0 0 9958.0 16344.0 2359.0 622.0 227.0 234.0 344.0 45229.0 126.0 37272.0 8747.0 8917.0 17906.0 0 0 0 0 0

MA0783.1_rc_shift2 (PKNOX2_rc)
; local_words_7nt_m18 versus MA0783.1_rc (PKNOX2_rc); m=12/24; ncol2=12; w=12; offset=2; strand=R; shift=2; score=0.543871; --TGACAsCTGTCA------ ; cor=; Ncor= a 0 0 9.0 3.0 1167.0 0.0 1204.0 0.0 118.0 4.0 9.0 6.0 0.0 1192.0 0 0 0 0 0 0 c 0 0 21.0 6.0 5.0 1370.0 0.0 702.0 1298.0 1.0 0.0 13.0 1389.0 9.0 0 0 0 0 0 0 g 0 0 1.0 1265.0 29.0 1.0 4.0 304.0 0.0 0.0 1250.0 3.0 6.0 0.0 0 0 0 0 0 0 t 0 0 1190.0 11.0 10.0 3.0 0.0 39.0 7.0 1169.0 0.0 1124.0 1.0 37.0 0 0 0 0 0 0

MA1467.1_rc_shift3 (ATOH1(var.2)_rc)
; local_words_7nt_m18 versus MA1467.1_rc (ATOH1(var.2)_rc); m=13/24; ncol2=10; w=10; offset=3; strand=R; shift=3; score=0.502891; ---RACAGCTGTT------- ; cor=; Ncor= a 0 0 0 426.0 944.0 0.0 1368.0 0.0 181.0 76.0 0.0 0.0 0.0 0 0 0 0 0 0 0 c 0 0 0 0.0 35.0 1368.0 0.0 0.0 1368.0 0.0 0.0 182.0 466.0 0 0 0 0 0 0 0 g 0 0 0 943.0 296.0 0.0 0.0 1368.0 0.0 0.0 1368.0 179.0 171.0 0 0 0 0 0 0 0 t 0 0 0 0.0 93.0 0.0 0.0 204.0 0.0 1368.0 0.0 1008.0 1368.0 0 0 0 0 0 0 0

MA1100.2_shift3 (ASCL1)
; local_words_7nt_m18 versus MA1100.2 (ASCL1); m=14/24; ncol2=10; w=10; offset=3; strand=D; shift=3; score=0.502433; ---rrCAGCTGcy------- ; cor=; Ncor= a 0 0 0 1267.0 1334.0 0.0 4413.0 107.0 729.0 118.0 52.0 177.0 843.0 0 0 0 0 0 0 0 c 0 0 0 926.0 521.0 4413.0 157.0 1288.0 4413.0 24.0 0.0 3065.0 1487.0 0 0 0 0 0 0 0 g 0 0 0 1495.0 3079.0 0.0 60.0 4413.0 1320.0 121.0 4413.0 814.0 889.0 0 0 0 0 0 0 0 t 0 0 0 726.0 354.0 14.0 218.0 625.0 20.0 4413.0 29.0 1349.0 1194.0 0 0 0 0 0 0 0

MA1635.1_rc_shift3 (BHLHE22(var.2)_rc)
; local_words_7nt_m18 versus MA1635.1_rc (BHLHE22(var.2)_rc); m=15/24; ncol2=10; w=10; offset=3; strand=R; shift=3; score=0.495108; ---csCAGCTGsg------- ; cor=; Ncor= a 0 0 0 3886.0 4449.0 0.0 18267.0 1.0 14.0 0.0 14.0 1526.0 4402.0 0 0 0 0 0 0 0 c 0 0 0 5625.0 5112.0 18327.0 37.0 53.0 18288.0 52.0 11.0 7267.0 4447.0 0 0 0 0 0 0 0 g 0 0 0 4447.0 7269.0 15.0 52.0 18288.0 53.0 37.0 18331.0 5110.0 5621.0 0 0 0 0 0 0 0 t 0 0 0 4398.0 1526.0 14.0 0.0 14.0 1.0 18267.0 0.0 4453.0 3886.0 0 0 0 0 0 0 0

MA1472.1_shift3 (BHLHA15(var.2))
; local_words_7nt_m18 versus MA1472.1 (BHLHA15(var.2)); m=16/24; ncol2=10; w=10; offset=3; strand=D; shift=3; score=0.49187; ---avCAGCTGyy------- ; cor=; Ncor= a 0 0 0 697.0 897.0 47.0 1504.0 11.0 445.0 54.0 0.0 54.0 202.0 0 0 0 0 0 0 0 c 0 0 0 281.0 607.0 1504.0 33.0 30.0 1504.0 4.0 0.0 610.0 410.0 0 0 0 0 0 0 0 g 0 0 0 357.0 591.0 6.0 33.0 1504.0 72.0 0.0 1504.0 489.0 316.0 0 0 0 0 0 0 0 t 0 0 0 170.0 81.0 33.0 137.0 467.0 11.0 1504.0 0.0 1015.0 577.0 0 0 0 0 0 0 0

MA0816.1_rc_shift3 (Ascl2_rc)
; local_words_7nt_m18 versus MA0816.1_rc (Ascl2_rc); m=17/24; ncol2=10; w=10; offset=3; strand=R; shift=3; score=0.487443; ---rrCAGCTGyt------- ; cor=; Ncor= a 0 0 0 199.0 94.0 2.0 300.0 1.0 18.0 15.0 1.0 1.0 16.0 0 0 0 0 0 0 0 c 0 0 0 28.0 15.0 300.0 0.0 2.0 300.0 0.0 0.0 172.0 63.0 0 0 0 0 0 0 0 g 0 0 0 101.0 206.0 1.0 0.0 300.0 23.0 0.0 300.0 41.0 36.0 0 0 0 0 0 0 0 t 0 0 0 34.0 6.0 0.0 4.0 3.0 7.0 300.0 3.0 128.0 237.0 0 0 0 0 0 0 0

MA0048.2_rc_shift3 (NHLH1_rc)
; local_words_7nt_m18 versus MA0048.2_rc (NHLH1_rc); m=18/24; ncol2=10; w=10; offset=3; strand=R; shift=3; score=0.442185; ---mGCAGCTGCg------- ; cor=; Ncor= a 0 0 0 1489.0 350.0 1.0 2166.0 0.0 114.0 0.0 0.0 142.0 111.0 0 0 0 0 0 0 0 c 0 0 0 2166.0 102.0 2166.0 4.0 124.0 2166.0 1.0 0.0 2166.0 181.0 0 0 0 0 0 0 0 g 0 0 0 736.0 2166.0 4.0 4.0 2166.0 301.0 3.0 2166.0 179.0 2166.0 0 0 0 0 0 0 0 t 0 0 0 308.0 296.0 2.0 0.0 96.0 0.0 2166.0 3.0 461.0 788.0 0 0 0 0 0 0 0

MA0665.1_rc_shift3 (MSC_rc)
; local_words_7nt_m18 versus MA0665.1_rc (MSC_rc); m=19/24; ncol2=10; w=10; offset=3; strand=R; shift=3; score=0.439865; ---AACAGCTGTT------- ; cor=; Ncor= a 0 0 0 69.0 69.0 4.0 69.0 0.0 0.0 0.0 1.0 0.0 7.0 0 0 0 0 0 0 0 c 0 0 0 4.0 4.0 69.0 0.0 3.0 69.0 0.0 3.0 3.0 18.0 0 0 0 0 0 0 0 g 0 0 0 9.0 10.0 0.0 0.0 69.0 12.0 0.0 69.0 12.0 0.0 0 0 0 0 0 0 0 t 0 0 0 0.0 3.0 0.0 0.0 0.0 0.0 69.0 0.0 69.0 69.0 0 0 0 0 0 0 0

MA0691.1_rc_shift3 (TFAP4_rc)
; local_words_7nt_m18 versus MA0691.1_rc (TFAP4_rc); m=20/24; ncol2=10; w=10; offset=3; strand=R; shift=3; score=0.434313; ---AwCAGCTGwT------- ; cor=; Ncor= a 0 0 0 3423.0 1613.0 0.0 3423.0 6.0 14.0 0.0 0.0 1264.0 228.0 0 0 0 0 0 0 0 c 0 0 0 433.0 333.0 3423.0 0.0 49.0 3423.0 0.0 0.0 62.0 337.0 0 0 0 0 0 0 0 g 0 0 0 682.0 114.0 1.0 1.0 3423.0 85.0 2.0 3423.0 546.0 500.0 0 0 0 0 0 0 0 t 0 0 0 299.0 1810.0 0.0 1.0 21.0 2.0 3423.0 0.0 2159.0 3423.0 0 0 0 0 0 0 0

MA0782.2_rc_shift5 (PKNOX1_rc)
; local_words_7nt_m18 versus MA0782.2_rc (PKNOX1_rc); m=21/24; ncol2=15; w=12; offset=5; strand=R; shift=5; score=0.434307; -----yagCTGTCAcTCAwa ; cor=; Ncor= a 0 0 0 0 0 9877.0 12900.0 6042.0 5092.0 2629.0 886.0 720.0 691.0 36918.0 7333.0 1196.0 1043.0 29794.0 10355.0 11050.0 c 0 0 0 0 0 10296.0 9060.0 9128.0 27367.0 2408.0 580.0 2459.0 37713.0 1027.0 26182.0 1330.0 36106.0 3322.0 9535.0 9599.0 g 0 0 0 0 0 9268.0 9386.0 16341.0 4759.0 944.0 37846.0 410.0 1004.0 878.0 4123.0 678.0 1160.0 1625.0 9828.0 9503.0 t 0 0 0 0 0 10522.0 8617.0 8452.0 2745.0 33982.0 651.0 36374.0 555.0 1140.0 2325.0 36759.0 1654.0 5222.0 10245.0 9811.0

MA0667.1_shift3 (MYF6)
; local_words_7nt_m18 versus MA0667.1 (MYF6); m=22/24; ncol2=10; w=10; offset=3; strand=D; shift=3; score=0.418914; ---AACArCTGTY------- ; cor=; Ncor= a 0 0 0 444.0 444.0 0.0 444.0 159.0 12.0 11.0 0.0 2.0 0.0 0 0 0 0 0 0 0 c 0 0 0 12.0 18.0 444.0 3.0 30.0 353.0 0.0 2.0 22.0 159.0 0 0 0 0 0 0 0 g 0 0 0 70.0 24.0 0.0 7.0 256.0 35.0 0.0 444.0 0.0 7.0 0 0 0 0 0 0 0 t 0 0 0 7.0 1.0 0.0 0.0 12.0 56.0 444.0 0.0 444.0 444.0 0 0 0 0 0 0 0

MA0774.1_rc_shift7 (MEIS2_rc)
; local_words_7nt_m18 versus MA0774.1_rc (MEIS2_rc); m=23/24; ncol2=8; w=8; offset=7; strand=R; shift=7; score=0.414533; -------sCTGTCAa----- ; cor=; Ncor= a 0 0 0 0 0 0 0 88.0 67.0 0.0 5.0 62.0 0.0 1351.0 1351.0 0 0 0 0 0 c 0 0 0 0 0 0 0 650.0 1351.0 4.0 0.0 25.0 1351.0 40.0 314.0 0 0 0 0 0 g 0 0 0 0 0 0 0 701.0 98.0 7.0 1351.0 3.0 0.0 3.0 264.0 0 0 0 0 0 t 0 0 0 0 0 0 0 157.0 83.0 1351.0 9.0 1351.0 0.0 31.0 408.0 0 0 0 0 0

MA0775.1_rc_shift7 (MEIS3_rc)
; local_words_7nt_m18 versus MA0775.1_rc (MEIS3_rc); m=24/24; ncol2=8; w=8; offset=7; strand=R; shift=7; score=0.402005; -------scTGTCAw----- ; cor=; Ncor= a 0 0 0 0 0 0 0 975.0 2094.0 145.0 160.0 53.0 0.0 7165.0 3451.0 0 0 0 0 0 c 0 0 0 0 0 0 0 2888.0 7165.0 468.0 8.0 455.0 7165.0 260.0 1788.0 0 0 0 0 0 g 0 0 0 0 0 0 0 2342.0 1889.0 8.0 7165.0 20.0 6.0 383.0 60.0 0 0 0 0 0 t 0 0 0 0 0 0 0 960.0 1690.0 7165.0 53.0 7165.0 0.0 465.0 1866.0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
local_words_7nt_m18_shift0 (local_words_7nt_m18local_words_7nt_m18)				; local_words_7nt_m18 (local_words_7nt_m18local_words_7nt_m18); m=0 (reference); ncol1=17; shift=0; ncol=20; vsaGGCAGCTGTCAcys--- ; Alignment reference a 370 344 929 147 139 13 1427 16 20 11 8 39 29 1148 90 308 303 0 0 0 c 425 465 125 66 110 1427 13 49 1409 8 12 58 1293 158 974 510 391 0 0 0 g 424 429 205 1111 1122 15 15 1375 19 8 1435 62 72 49 248 260 445 0 0 0 t 243 224 203 138 91 7 7 22 14 1435 7 1303 68 107 150 384 323 0 0 0
MA1485.1_shift1 (FERD3L)				; local_words_7nt_m18 versus MA1485.1 (FERD3L); m=1/24; ncol2=14; w=14; offset=1; strand=D; shift=1; score=0.631438; -GyrmCAGCTGTyAC----- ; cor=; Ncor= a 0 2158.0 450.0 14384.0 15390.0 36.0 29605.0 0.0 3649.0 81.0 0.0 1268.0 103.0 29605.0 0.0 0 0 0 0 0 c 0 68.0 20049.0 2443.0 9363.0 29605.0 126.0 841.0 29605.0 129.0 0.0 3878.0 8664.0 809.0 29605.0 0 0 0 0 0 g 0 29605.0 348.0 12703.0 3142.0 0.0 118.0 29605.0 471.0 210.0 29605.0 3395.0 5920.0 9815.0 0.0 0 0 0 0 0 t 0 225.0 9557.0 74.0 1710.0 0.0 144.0 4691.0 0.0 29605.0 0.0 21065.0 14919.0 958.0 48.0 0 0 0 0 0
MA0499.2_shift2 (MYOD1)				; local_words_7nt_m18 versus MA0499.2 (MYOD1); m=2/24; ncol2=13; w=13; offset=2; strand=D; shift=2; score=0.619874; --cwgCACCTGTymy----- ; cor=; Ncor= a 0 0 7175.0 9462.0 4549.0 349.0 32281.0 463.0 534.0 241.0 208.0 402.0 1808.0 9462.0 5687.0 0 0 0 0 0 c 0 0 11279.0 7103.0 5622.0 33328.0 583.0 25275.0 32504.0 563.0 386.0 2555.0 19052.0 10485.0 11760.0 0 0 0 0 0 g 0 0 8118.0 8444.0 21884.0 354.0 849.0 7336.0 932.0 366.0 33468.0 1699.0 4440.0 6202.0 7495.0 0 0 0 0 0 t 0 0 7728.0 9291.0 2245.0 269.0 587.0 1226.0 330.0 33130.0 238.0 29644.0 9000.0 8151.0 9358.0 0 0 0 0 0
MA0796.1_rc_shift2 (TGIF1_rc)				; local_words_7nt_m18 versus MA0796.1_rc (TGIF1_rc); m=3/24; ncol2=12; w=12; offset=2; strand=R; shift=2; score=0.57927; --TGACAGCTGTCA------ ; cor=; Ncor= a 0 0 33.0 17.0 12656.0 9.0 12775.0 12.0 963.0 4.0 7.0 0.0 4.0 13221.0 0 0 0 0 0 0 c 0 0 32.0 13.0 3.0 13261.0 8.0 2520.0 12673.0 22.0 5.0 20.0 13499.0 1.0 0 0 0 0 0 0 g 0 0 17.0 13485.0 24.0 13.0 62.0 10562.0 20.0 5.0 13304.0 3.0 8.0 19.0 0 0 0 0 0 0 t 0 0 9034.0 36.0 45.0 11.0 1.0 452.0 14.0 8861.0 1.0 8828.0 9.0 39.0 0 0 0 0 0 0
MA1571.1_shift2 (TGIF2LX)				; local_words_7nt_m18 versus MA1571.1 (TGIF2LX); m=4/24; ncol2=12; w=12; offset=2; strand=D; shift=2; score=0.577755; --TGACAgcTGTCA------ ; cor=; Ncor= a 0 0 237.0 52.0 2539.0 32.0 2539.0 37.0 380.0 37.0 64.0 428.0 45.0 2539.0 0 0 0 0 0 0 c 0 0 355.0 187.0 64.0 2539.0 18.0 575.0 1568.0 318.0 23.0 127.0 2539.0 132.0 0 0 0 0 0 0 g 0 0 145.0 2539.0 132.0 29.0 316.0 1566.0 554.0 23.0 2539.0 72.0 172.0 361.0 0 0 0 0 0 0 t 0 0 2539.0 47.0 428.0 59.0 40.0 362.0 38.0 2539.0 22.0 2539.0 66.0 232.0 0 0 0 0 0 0
MA1641.1_rc_shift2 (MYF5_rc)				; local_words_7nt_m18 versus MA1641.1_rc (MYF5_rc); m=5/24; ncol2=12; w=12; offset=2; strand=R; shift=2; score=0.573623; --gvaCAGCTGtbc------ ; cor=; Ncor= a 0 0 2697.0 3507.0 7489.0 95.0 10966.0 100.0 222.0 129.0 43.0 578.0 1572.0 2554.0 0 0 0 0 0 0 c 0 0 2701.0 2985.0 1368.0 10912.0 47.0 230.0 10658.0 69.0 161.0 1774.0 3145.0 3258.0 0 0 0 0 0 0 g 0 0 3258.0 3146.0 1775.0 161.0 68.0 10657.0 230.0 47.0 10911.0 1368.0 2986.0 2700.0 0 0 0 0 0 0 t 0 0 2554.0 1572.0 578.0 42.0 129.0 223.0 100.0 10965.0 95.0 7490.0 3507.0 2698.0 0 0 0 0 0 0
MA0797.1_rc_shift2 (TGIF2_rc)				; local_words_7nt_m18 versus MA0797.1_rc (TGIF2_rc); m=6/24; ncol2=12; w=12; offset=2; strand=R; shift=2; score=0.573613; --TGACAsCTGTCA------ ; cor=; Ncor= a 0 0 420.0 113.0 11801.0 83.0 11801.0 91.0 2690.0 41.0 156.0 155.0 52.0 11801.0 0 0 0 0 0 0 c 0 0 395.0 136.0 123.0 11801.0 57.0 4341.0 11801.0 270.0 51.0 396.0 11801.0 153.0 0 0 0 0 0 0 g 0 0 172.0 11801.0 621.0 77.0 410.0 7459.0 262.0 25.0 11801.0 34.0 48.0 421.0 0 0 0 0 0 0 t 0 0 11801.0 70.0 601.0 150.0 71.0 1501.0 324.0 11801.0 127.0 11801.0 97.0 477.0 0 0 0 0 0 0
MA1572.1_shift2 (TGIF2LY)				; local_words_7nt_m18 versus MA1572.1 (TGIF2LY); m=7/24; ncol2=12; w=12; offset=2; strand=D; shift=2; score=0.572977; --TGACAgcTGTCA------ ; cor=; Ncor= a 0 0 736.0 162.0 5209.0 123.0 5209.0 130.0 1033.0 140.0 175.0 1084.0 135.0 5209.0 0 0 0 0 0 0 c 0 0 836.0 270.0 163.0 5209.0 37.0 1267.0 2850.0 848.0 61.0 371.0 5209.0 362.0 0 0 0 0 0 0 g 0 0 415.0 5209.0 349.0 66.0 833.0 2794.0 1188.0 73.0 5209.0 145.0 259.0 807.0 0 0 0 0 0 0 t 0 0 5209.0 104.0 1197.0 144.0 110.0 1018.0 138.0 5209.0 121.0 5209.0 172.0 679.0 0 0 0 0 0 0
MA0500.2_rc_shift2 (MYOG_rc)				; local_words_7nt_m18 versus MA0500.2_rc (MYOG_rc); m=8/24; ncol2=12; w=12; offset=2; strand=R; shift=2; score=0.571771; --sarCAGCTGyts------ ; cor=; Ncor= a 0 0 5310.0 8475.0 7192.0 88.0 21777.0 95.0 169.0 163.0 182.0 1678.0 4692.0 5070.0 0 0 0 0 0 0 c 0 0 6369.0 3718.0 2706.0 21985.0 179.0 131.0 21963.0 236.0 101.0 10790.0 5483.0 5596.0 0 0 0 0 0 0 g 0 0 5660.0 5497.0 10792.0 102.0 238.0 21964.0 130.0 176.0 21988.0 2730.0 3754.0 6381.0 0 0 0 0 0 0 t 0 0 5018.0 4667.0 1667.0 182.0 163.0 167.0 95.0 21782.0 86.0 7159.0 8428.0 5310.0 0 0 0 0 0 0
MA1619.1_rc_shift2 (Ptf1a(var.2)_rc)				; local_words_7nt_m18 versus MA1619.1_rc (Ptf1a(var.2)_rc); m=9/24; ncol2=12; w=12; offset=2; strand=R; shift=2; score=0.565706; --rmaCAGCTGtky------ ; cor=; Ncor= a 0 0 1871.0 1974.0 4341.0 49.0 7121.0 33.0 223.0 28.0 27.0 529.0 1216.0 1607.0 0 0 0 0 0 0 c 0 0 1803.0 2426.0 1065.0 7150.0 40.0 299.0 6689.0 65.0 28.0 1308.0 1629.0 1974.0 0 0 0 0 0 0 g 0 0 1977.0 1632.0 1312.0 27.0 66.0 6697.0 307.0 41.0 7149.0 1070.0 2430.0 1803.0 0 0 0 0 0 0 t 0 0 1602.0 1221.0 535.0 27.0 26.0 224.0 34.0 7119.0 49.0 4346.0 1978.0 1869.0 0 0 0 0 0 0
MA0521.1_rc_shift2 (Tcf12_rc)				; local_words_7nt_m18 versus MA0521.1_rc (Tcf12_rc); m=10/24; ncol2=11; w=11; offset=2; strand=R; shift=2; score=0.562671; --cwsCAGCTGYy------- ; cor=; Ncor= a 0 0 2191.0 3642.0 1682.0 0.0 12895.0 0.0 0.0 0.0 0.0 0.0 17.0 0 0 0 0 0 0 0 c 0 0 4836.0 2925.0 3811.0 12895.0 0.0 1889.0 12887.0 0.0 0.0 3951.0 5123.0 0 0 0 0 0 0 0 g 0 0 3005.0 2416.0 5527.0 0.0 0.0 10822.0 0.0 0.0 12895.0 124.0 1585.0 0 0 0 0 0 0 0 t 0 0 2863.0 3912.0 1875.0 0.0 0.0 184.0 8.0 12895.0 0.0 8820.0 6170.0 0 0 0 0 0 0 0
MA0745.2_shift2 (SNAI2)				; local_words_7nt_m18 versus MA0745.2 (SNAI2); m=11/24; ncol2=13; w=13; offset=2; strand=D; shift=2; score=0.557744; --aygCACCTGTmry----- ; cor=; Ncor= a 0 0 14658.0 7668.0 10322.0 408.0 44963.0 112.0 246.0 78.0 179.0 814.0 12017.0 13586.0 6215.0 0 0 0 0 0 c 0 0 10031.0 12314.0 6393.0 44463.0 202.0 45144.0 44739.0 313.0 254.0 6467.0 18771.0 11016.0 13476.0 0 0 0 0 0 g 0 0 11169.0 9490.0 26742.0 323.0 424.0 326.0 487.0 196.0 45257.0 1263.0 6281.0 12297.0 8219.0 0 0 0 0 0 t 0 0 9958.0 16344.0 2359.0 622.0 227.0 234.0 344.0 45229.0 126.0 37272.0 8747.0 8917.0 17906.0 0 0 0 0 0
MA0783.1_rc_shift2 (PKNOX2_rc)				; local_words_7nt_m18 versus MA0783.1_rc (PKNOX2_rc); m=12/24; ncol2=12; w=12; offset=2; strand=R; shift=2; score=0.543871; --TGACAsCTGTCA------ ; cor=; Ncor= a 0 0 9.0 3.0 1167.0 0.0 1204.0 0.0 118.0 4.0 9.0 6.0 0.0 1192.0 0 0 0 0 0 0 c 0 0 21.0 6.0 5.0 1370.0 0.0 702.0 1298.0 1.0 0.0 13.0 1389.0 9.0 0 0 0 0 0 0 g 0 0 1.0 1265.0 29.0 1.0 4.0 304.0 0.0 0.0 1250.0 3.0 6.0 0.0 0 0 0 0 0 0 t 0 0 1190.0 11.0 10.0 3.0 0.0 39.0 7.0 1169.0 0.0 1124.0 1.0 37.0 0 0 0 0 0 0
MA1467.1_rc_shift3 (ATOH1(var.2)_rc)				; local_words_7nt_m18 versus MA1467.1_rc (ATOH1(var.2)_rc); m=13/24; ncol2=10; w=10; offset=3; strand=R; shift=3; score=0.502891; ---RACAGCTGTT------- ; cor=; Ncor= a 0 0 0 426.0 944.0 0.0 1368.0 0.0 181.0 76.0 0.0 0.0 0.0 0 0 0 0 0 0 0 c 0 0 0 0.0 35.0 1368.0 0.0 0.0 1368.0 0.0 0.0 182.0 466.0 0 0 0 0 0 0 0 g 0 0 0 943.0 296.0 0.0 0.0 1368.0 0.0 0.0 1368.0 179.0 171.0 0 0 0 0 0 0 0 t 0 0 0 0.0 93.0 0.0 0.0 204.0 0.0 1368.0 0.0 1008.0 1368.0 0 0 0 0 0 0 0
MA1100.2_shift3 (ASCL1)				; local_words_7nt_m18 versus MA1100.2 (ASCL1); m=14/24; ncol2=10; w=10; offset=3; strand=D; shift=3; score=0.502433; ---rrCAGCTGcy------- ; cor=; Ncor= a 0 0 0 1267.0 1334.0 0.0 4413.0 107.0 729.0 118.0 52.0 177.0 843.0 0 0 0 0 0 0 0 c 0 0 0 926.0 521.0 4413.0 157.0 1288.0 4413.0 24.0 0.0 3065.0 1487.0 0 0 0 0 0 0 0 g 0 0 0 1495.0 3079.0 0.0 60.0 4413.0 1320.0 121.0 4413.0 814.0 889.0 0 0 0 0 0 0 0 t 0 0 0 726.0 354.0 14.0 218.0 625.0 20.0 4413.0 29.0 1349.0 1194.0 0 0 0 0 0 0 0
MA1635.1_rc_shift3 (BHLHE22(var.2)_rc)				; local_words_7nt_m18 versus MA1635.1_rc (BHLHE22(var.2)_rc); m=15/24; ncol2=10; w=10; offset=3; strand=R; shift=3; score=0.495108; ---csCAGCTGsg------- ; cor=; Ncor= a 0 0 0 3886.0 4449.0 0.0 18267.0 1.0 14.0 0.0 14.0 1526.0 4402.0 0 0 0 0 0 0 0 c 0 0 0 5625.0 5112.0 18327.0 37.0 53.0 18288.0 52.0 11.0 7267.0 4447.0 0 0 0 0 0 0 0 g 0 0 0 4447.0 7269.0 15.0 52.0 18288.0 53.0 37.0 18331.0 5110.0 5621.0 0 0 0 0 0 0 0 t 0 0 0 4398.0 1526.0 14.0 0.0 14.0 1.0 18267.0 0.0 4453.0 3886.0 0 0 0 0 0 0 0
MA1472.1_shift3 (BHLHA15(var.2))				; local_words_7nt_m18 versus MA1472.1 (BHLHA15(var.2)); m=16/24; ncol2=10; w=10; offset=3; strand=D; shift=3; score=0.49187; ---avCAGCTGyy------- ; cor=; Ncor= a 0 0 0 697.0 897.0 47.0 1504.0 11.0 445.0 54.0 0.0 54.0 202.0 0 0 0 0 0 0 0 c 0 0 0 281.0 607.0 1504.0 33.0 30.0 1504.0 4.0 0.0 610.0 410.0 0 0 0 0 0 0 0 g 0 0 0 357.0 591.0 6.0 33.0 1504.0 72.0 0.0 1504.0 489.0 316.0 0 0 0 0 0 0 0 t 0 0 0 170.0 81.0 33.0 137.0 467.0 11.0 1504.0 0.0 1015.0 577.0 0 0 0 0 0 0 0
MA0816.1_rc_shift3 (Ascl2_rc)				; local_words_7nt_m18 versus MA0816.1_rc (Ascl2_rc); m=17/24; ncol2=10; w=10; offset=3; strand=R; shift=3; score=0.487443; ---rrCAGCTGyt------- ; cor=; Ncor= a 0 0 0 199.0 94.0 2.0 300.0 1.0 18.0 15.0 1.0 1.0 16.0 0 0 0 0 0 0 0 c 0 0 0 28.0 15.0 300.0 0.0 2.0 300.0 0.0 0.0 172.0 63.0 0 0 0 0 0 0 0 g 0 0 0 101.0 206.0 1.0 0.0 300.0 23.0 0.0 300.0 41.0 36.0 0 0 0 0 0 0 0 t 0 0 0 34.0 6.0 0.0 4.0 3.0 7.0 300.0 3.0 128.0 237.0 0 0 0 0 0 0 0
MA0048.2_rc_shift3 (NHLH1_rc)				; local_words_7nt_m18 versus MA0048.2_rc (NHLH1_rc); m=18/24; ncol2=10; w=10; offset=3; strand=R; shift=3; score=0.442185; ---mGCAGCTGCg------- ; cor=; Ncor= a 0 0 0 1489.0 350.0 1.0 2166.0 0.0 114.0 0.0 0.0 142.0 111.0 0 0 0 0 0 0 0 c 0 0 0 2166.0 102.0 2166.0 4.0 124.0 2166.0 1.0 0.0 2166.0 181.0 0 0 0 0 0 0 0 g 0 0 0 736.0 2166.0 4.0 4.0 2166.0 301.0 3.0 2166.0 179.0 2166.0 0 0 0 0 0 0 0 t 0 0 0 308.0 296.0 2.0 0.0 96.0 0.0 2166.0 3.0 461.0 788.0 0 0 0 0 0 0 0
MA0665.1_rc_shift3 (MSC_rc)				; local_words_7nt_m18 versus MA0665.1_rc (MSC_rc); m=19/24; ncol2=10; w=10; offset=3; strand=R; shift=3; score=0.439865; ---AACAGCTGTT------- ; cor=; Ncor= a 0 0 0 69.0 69.0 4.0 69.0 0.0 0.0 0.0 1.0 0.0 7.0 0 0 0 0 0 0 0 c 0 0 0 4.0 4.0 69.0 0.0 3.0 69.0 0.0 3.0 3.0 18.0 0 0 0 0 0 0 0 g 0 0 0 9.0 10.0 0.0 0.0 69.0 12.0 0.0 69.0 12.0 0.0 0 0 0 0 0 0 0 t 0 0 0 0.0 3.0 0.0 0.0 0.0 0.0 69.0 0.0 69.0 69.0 0 0 0 0 0 0 0
MA0691.1_rc_shift3 (TFAP4_rc)				; local_words_7nt_m18 versus MA0691.1_rc (TFAP4_rc); m=20/24; ncol2=10; w=10; offset=3; strand=R; shift=3; score=0.434313; ---AwCAGCTGwT------- ; cor=; Ncor= a 0 0 0 3423.0 1613.0 0.0 3423.0 6.0 14.0 0.0 0.0 1264.0 228.0 0 0 0 0 0 0 0 c 0 0 0 433.0 333.0 3423.0 0.0 49.0 3423.0 0.0 0.0 62.0 337.0 0 0 0 0 0 0 0 g 0 0 0 682.0 114.0 1.0 1.0 3423.0 85.0 2.0 3423.0 546.0 500.0 0 0 0 0 0 0 0 t 0 0 0 299.0 1810.0 0.0 1.0 21.0 2.0 3423.0 0.0 2159.0 3423.0 0 0 0 0 0 0 0
MA0782.2_rc_shift5 (PKNOX1_rc)				; local_words_7nt_m18 versus MA0782.2_rc (PKNOX1_rc); m=21/24; ncol2=15; w=12; offset=5; strand=R; shift=5; score=0.434307; -----yagCTGTCAcTCAwa ; cor=; Ncor= a 0 0 0 0 0 9877.0 12900.0 6042.0 5092.0 2629.0 886.0 720.0 691.0 36918.0 7333.0 1196.0 1043.0 29794.0 10355.0 11050.0 c 0 0 0 0 0 10296.0 9060.0 9128.0 27367.0 2408.0 580.0 2459.0 37713.0 1027.0 26182.0 1330.0 36106.0 3322.0 9535.0 9599.0 g 0 0 0 0 0 9268.0 9386.0 16341.0 4759.0 944.0 37846.0 410.0 1004.0 878.0 4123.0 678.0 1160.0 1625.0 9828.0 9503.0 t 0 0 0 0 0 10522.0 8617.0 8452.0 2745.0 33982.0 651.0 36374.0 555.0 1140.0 2325.0 36759.0 1654.0 5222.0 10245.0 9811.0
MA0667.1_shift3 (MYF6)				; local_words_7nt_m18 versus MA0667.1 (MYF6); m=22/24; ncol2=10; w=10; offset=3; strand=D; shift=3; score=0.418914; ---AACArCTGTY------- ; cor=; Ncor= a 0 0 0 444.0 444.0 0.0 444.0 159.0 12.0 11.0 0.0 2.0 0.0 0 0 0 0 0 0 0 c 0 0 0 12.0 18.0 444.0 3.0 30.0 353.0 0.0 2.0 22.0 159.0 0 0 0 0 0 0 0 g 0 0 0 70.0 24.0 0.0 7.0 256.0 35.0 0.0 444.0 0.0 7.0 0 0 0 0 0 0 0 t 0 0 0 7.0 1.0 0.0 0.0 12.0 56.0 444.0 0.0 444.0 444.0 0 0 0 0 0 0 0
MA0774.1_rc_shift7 (MEIS2_rc)				; local_words_7nt_m18 versus MA0774.1_rc (MEIS2_rc); m=23/24; ncol2=8; w=8; offset=7; strand=R; shift=7; score=0.414533; -------sCTGTCAa----- ; cor=; Ncor= a 0 0 0 0 0 0 0 88.0 67.0 0.0 5.0 62.0 0.0 1351.0 1351.0 0 0 0 0 0 c 0 0 0 0 0 0 0 650.0 1351.0 4.0 0.0 25.0 1351.0 40.0 314.0 0 0 0 0 0 g 0 0 0 0 0 0 0 701.0 98.0 7.0 1351.0 3.0 0.0 3.0 264.0 0 0 0 0 0 t 0 0 0 0 0 0 0 157.0 83.0 1351.0 9.0 1351.0 0.0 31.0 408.0 0 0 0 0 0
MA0775.1_rc_shift7 (MEIS3_rc)				; local_words_7nt_m18 versus MA0775.1_rc (MEIS3_rc); m=24/24; ncol2=8; w=8; offset=7; strand=R; shift=7; score=0.402005; -------scTGTCAw----- ; cor=; Ncor= a 0 0 0 0 0 0 0 975.0 2094.0 145.0 160.0 53.0 0.0 7165.0 3451.0 0 0 0 0 0 c 0 0 0 0 0 0 0 2888.0 7165.0 468.0 8.0 455.0 7165.0 260.0 1788.0 0 0 0 0 0 g 0 0 0 0 0 0 0 2342.0 1889.0 8.0 7165.0 20.0 6.0 383.0 60.0 0 0 0 0 0 t 0 0 0 0 0 0 0 960.0 1690.0 7165.0 53.0 7165.0 0.0 465.0 1866.0 0 0 0 0 0