One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/local_words_6nt_m1/peak-motifs_local_words_6nt_m1.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_6nt_m1/peak-motifs_local_words_6nt_m1_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: local_words_6nt_m1_shift0 ; 10 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
local_words_6nt_m1_shift0 (local_words_6nt_m1local_words_6nt_m1)
; local_words_6nt_m1 (local_words_6nt_m1local_words_6nt_m1); m=0 (reference); ncol1=24; shift=0; ncol=24; ctGCTGCTGTGACAGCTGTCasys ; Alignment reference a 6 8 2 3 3 2 1 3 0 2 1 28 0 32 0 1 1 0 2 0 21 1 3 7 c 19 4 2 24 2 3 28 0 2 1 5 0 31 1 2 29 1 0 4 30 6 19 12 9 g 4 6 27 0 2 27 1 1 30 1 24 1 1 0 31 2 0 33 1 1 2 9 8 13 t 4 15 2 6 26 1 3 29 1 29 3 4 1 0 0 1 31 0 26 2 4 4 10 4

MA1485.1_rc_shift8 (FERD3L_rc)
; local_words_6nt_m1 versus MA1485.1_rc (FERD3L_rc); m=1/9; ncol2=14; w=14; offset=8; strand=R; shift=8; score=0.504696; --------GTrACAGCTGkyrC-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 48.0 958.0 14919.0 21065.0 0.0 29605.0 0.0 4691.0 144.0 0.0 1710.0 74.0 9557.0 225.0 0 0 c 0 0 0 0 0 0 0 0 0.0 9815.0 5920.0 3395.0 29605.0 210.0 471.0 29605.0 118.0 0.0 3142.0 12703.0 348.0 29605.0 0 0 g 0 0 0 0 0 0 0 0 29605.0 809.0 8664.0 3878.0 0.0 129.0 29605.0 841.0 126.0 29605.0 9363.0 2443.0 20049.0 68.0 0 0 t 0 0 0 0 0 0 0 0 0.0 29605.0 103.0 1268.0 0.0 81.0 3649.0 0.0 29605.0 36.0 15390.0 14384.0 450.0 2158.0 0 0

MA0796.1_shift9 (TGIF1)
; local_words_6nt_m1 versus MA0796.1 (TGIF1); m=2/9; ncol2=12; w=12; offset=9; strand=D; shift=9; score=0.489306; ---------TGACAGCTGTCA--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 39.0 9.0 8828.0 1.0 8861.0 14.0 452.0 1.0 11.0 45.0 36.0 9034.0 0 0 0 c 0 0 0 0 0 0 0 0 0 19.0 8.0 3.0 13304.0 5.0 20.0 10562.0 62.0 13.0 24.0 13485.0 17.0 0 0 0 g 0 0 0 0 0 0 0 0 0 1.0 13499.0 20.0 5.0 22.0 12673.0 2520.0 8.0 13261.0 3.0 13.0 32.0 0 0 0 t 0 0 0 0 0 0 0 0 0 13221.0 4.0 0.0 7.0 4.0 963.0 12.0 12775.0 9.0 12656.0 17.0 33.0 0 0 0

MA1571.1_shift9 (TGIF2LX)
; local_words_6nt_m1 versus MA1571.1 (TGIF2LX); m=3/9; ncol2=12; w=12; offset=9; strand=D; shift=9; score=0.483715; ---------TGACAgcTGTCA--- ; cor=; Ncor= a 0 0 0 0 0 0 0 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 c 0 0 0 0 0 0 0 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 g 0 0 0 0 0 0 0 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 t 0 0 0 0 0 0 0 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

MA0797.1_shift9 (TGIF2)
; local_words_6nt_m1 versus MA0797.1 (TGIF2); m=4/9; ncol2=12; w=12; offset=9; strand=D; shift=9; score=0.482011; ---------TGACAGsTGTCA--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 477.0 97.0 11801.0 127.0 11801.0 324.0 1501.0 71.0 150.0 601.0 70.0 11801.0 0 0 0 c 0 0 0 0 0 0 0 0 0 421.0 48.0 34.0 11801.0 25.0 262.0 7459.0 410.0 77.0 621.0 11801.0 172.0 0 0 0 g 0 0 0 0 0 0 0 0 0 153.0 11801.0 396.0 51.0 270.0 11801.0 4341.0 57.0 11801.0 123.0 136.0 395.0 0 0 0 t 0 0 0 0 0 0 0 0 0 11801.0 52.0 155.0 156.0 41.0 2690.0 91.0 11801.0 83.0 11801.0 113.0 420.0 0 0 0

MA1572.1_rc_shift9 (TGIF2LY_rc)
; local_words_6nt_m1 versus MA1572.1_rc (TGIF2LY_rc); m=5/9; ncol2=12; w=12; offset=9; strand=R; shift=9; score=0.477465; ---------TGACAgcTGTCA--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 679.0 172.0 5209.0 121.0 5209.0 138.0 1018.0 110.0 144.0 1197.0 104.0 5209.0 0 0 0 c 0 0 0 0 0 0 0 0 0 807.0 259.0 145.0 5209.0 73.0 1188.0 2794.0 833.0 66.0 349.0 5209.0 415.0 0 0 0 g 0 0 0 0 0 0 0 0 0 362.0 5209.0 371.0 61.0 848.0 2850.0 1267.0 37.0 5209.0 163.0 270.0 836.0 0 0 0 t 0 0 0 0 0 0 0 0 0 5209.0 135.0 1084.0 175.0 140.0 1033.0 130.0 5209.0 123.0 5209.0 162.0 736.0 0 0 0

MA0783.1_shift9 (PKNOX2)
; local_words_6nt_m1 versus MA0783.1 (PKNOX2); m=6/9; ncol2=12; w=12; offset=9; strand=D; shift=9; score=0.465097; ---------TGACAGsTGTCA--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 37.0 1.0 1124.0 0.0 1169.0 7.0 39.0 0.0 3.0 10.0 11.0 1190.0 0 0 0 c 0 0 0 0 0 0 0 0 0 0.0 6.0 3.0 1250.0 0.0 0.0 304.0 4.0 1.0 29.0 1265.0 1.0 0 0 0 g 0 0 0 0 0 0 0 0 0 9.0 1389.0 13.0 0.0 1.0 1298.0 702.0 0.0 1370.0 5.0 6.0 21.0 0 0 0 t 0 0 0 0 0 0 0 0 0 1192.0 0.0 6.0 9.0 4.0 118.0 0.0 1204.0 0.0 1167.0 3.0 9.0 0 0 0

MA1641.1_shift9 (MYF5)
; local_words_6nt_m1 versus MA1641.1 (MYF5); m=7/9; ncol2=12; w=12; offset=9; strand=D; shift=9; score=0.426728; ---------gvaCAGCTGtbc--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 2698.0 3507.0 7490.0 95.0 10965.0 100.0 223.0 129.0 42.0 578.0 1572.0 2554.0 0 0 0 c 0 0 0 0 0 0 0 0 0 2700.0 2986.0 1368.0 10911.0 47.0 230.0 10657.0 68.0 161.0 1775.0 3146.0 3258.0 0 0 0 g 0 0 0 0 0 0 0 0 0 3258.0 3145.0 1774.0 161.0 69.0 10658.0 230.0 47.0 10912.0 1368.0 2985.0 2701.0 0 0 0 t 0 0 0 0 0 0 0 0 0 2554.0 1572.0 578.0 43.0 129.0 222.0 100.0 10966.0 95.0 7489.0 3507.0 2697.0 0 0 0

MA0832.1_shift8 (Tcf21)
; local_words_6nt_m1 versus MA0832.1 (Tcf21); m=8/9; ncol2=14; w=14; offset=8; strand=D; shift=8; score=0.423293; --------ryAACAGCTGTTry-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 55.0 28.0 171.0 171.0 0.0 171.0 0.0 0.0 0.0 0.0 0.0 5.0 50.0 30.0 0 0 c 0 0 0 0 0 0 0 0 29.0 76.0 1.0 10.0 171.0 1.0 0.0 171.0 0.0 0.0 4.0 23.0 23.0 49.0 0 0 g 0 0 0 0 0 0 0 0 70.0 22.0 23.0 0.0 0.0 0.0 171.0 1.0 0.0 171.0 20.0 0.0 80.0 32.0 0 0 t 0 0 0 0 0 0 0 0 17.0 46.0 3.0 0.0 0.0 0.0 2.0 1.0 171.0 0.0 171.0 171.0 19.0 60.0 0 0

MA1619.1_shift9 (Ptf1a(var.2))
; local_words_6nt_m1 versus MA1619.1 (Ptf1a(var.2)); m=9/9; ncol2=12; w=12; offset=9; strand=D; shift=9; score=0.415607; ---------rmaCAGCTGtky--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1869.0 1978.0 4346.0 49.0 7119.0 34.0 224.0 26.0 27.0 535.0 1221.0 1602.0 0 0 0 c 0 0 0 0 0 0 0 0 0 1803.0 2430.0 1070.0 7149.0 41.0 307.0 6697.0 66.0 27.0 1312.0 1632.0 1977.0 0 0 0 g 0 0 0 0 0 0 0 0 0 1974.0 1629.0 1308.0 28.0 65.0 6689.0 299.0 40.0 7150.0 1065.0 2426.0 1803.0 0 0 0 t 0 0 0 0 0 0 0 0 0 1607.0 1216.0 529.0 27.0 28.0 223.0 33.0 7121.0 49.0 4341.0 1974.0 1871.0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
local_words_6nt_m1_shift0 (local_words_6nt_m1local_words_6nt_m1)				; local_words_6nt_m1 (local_words_6nt_m1local_words_6nt_m1); m=0 (reference); ncol1=24; shift=0; ncol=24; ctGCTGCTGTGACAGCTGTCasys ; Alignment reference a 6 8 2 3 3 2 1 3 0 2 1 28 0 32 0 1 1 0 2 0 21 1 3 7 c 19 4 2 24 2 3 28 0 2 1 5 0 31 1 2 29 1 0 4 30 6 19 12 9 g 4 6 27 0 2 27 1 1 30 1 24 1 1 0 31 2 0 33 1 1 2 9 8 13 t 4 15 2 6 26 1 3 29 1 29 3 4 1 0 0 1 31 0 26 2 4 4 10 4
MA1485.1_rc_shift8 (FERD3L_rc)				; local_words_6nt_m1 versus MA1485.1_rc (FERD3L_rc); m=1/9; ncol2=14; w=14; offset=8; strand=R; shift=8; score=0.504696; --------GTrACAGCTGkyrC-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 48.0 958.0 14919.0 21065.0 0.0 29605.0 0.0 4691.0 144.0 0.0 1710.0 74.0 9557.0 225.0 0 0 c 0 0 0 0 0 0 0 0 0.0 9815.0 5920.0 3395.0 29605.0 210.0 471.0 29605.0 118.0 0.0 3142.0 12703.0 348.0 29605.0 0 0 g 0 0 0 0 0 0 0 0 29605.0 809.0 8664.0 3878.0 0.0 129.0 29605.0 841.0 126.0 29605.0 9363.0 2443.0 20049.0 68.0 0 0 t 0 0 0 0 0 0 0 0 0.0 29605.0 103.0 1268.0 0.0 81.0 3649.0 0.0 29605.0 36.0 15390.0 14384.0 450.0 2158.0 0 0
MA0796.1_shift9 (TGIF1)				; local_words_6nt_m1 versus MA0796.1 (TGIF1); m=2/9; ncol2=12; w=12; offset=9; strand=D; shift=9; score=0.489306; ---------TGACAGCTGTCA--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 39.0 9.0 8828.0 1.0 8861.0 14.0 452.0 1.0 11.0 45.0 36.0 9034.0 0 0 0 c 0 0 0 0 0 0 0 0 0 19.0 8.0 3.0 13304.0 5.0 20.0 10562.0 62.0 13.0 24.0 13485.0 17.0 0 0 0 g 0 0 0 0 0 0 0 0 0 1.0 13499.0 20.0 5.0 22.0 12673.0 2520.0 8.0 13261.0 3.0 13.0 32.0 0 0 0 t 0 0 0 0 0 0 0 0 0 13221.0 4.0 0.0 7.0 4.0 963.0 12.0 12775.0 9.0 12656.0 17.0 33.0 0 0 0
MA1571.1_shift9 (TGIF2LX)				; local_words_6nt_m1 versus MA1571.1 (TGIF2LX); m=3/9; ncol2=12; w=12; offset=9; strand=D; shift=9; score=0.483715; ---------TGACAgcTGTCA--- ; cor=; Ncor= a 0 0 0 0 0 0 0 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 c 0 0 0 0 0 0 0 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 g 0 0 0 0 0 0 0 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 t 0 0 0 0 0 0 0 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
MA0797.1_shift9 (TGIF2)				; local_words_6nt_m1 versus MA0797.1 (TGIF2); m=4/9; ncol2=12; w=12; offset=9; strand=D; shift=9; score=0.482011; ---------TGACAGsTGTCA--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 477.0 97.0 11801.0 127.0 11801.0 324.0 1501.0 71.0 150.0 601.0 70.0 11801.0 0 0 0 c 0 0 0 0 0 0 0 0 0 421.0 48.0 34.0 11801.0 25.0 262.0 7459.0 410.0 77.0 621.0 11801.0 172.0 0 0 0 g 0 0 0 0 0 0 0 0 0 153.0 11801.0 396.0 51.0 270.0 11801.0 4341.0 57.0 11801.0 123.0 136.0 395.0 0 0 0 t 0 0 0 0 0 0 0 0 0 11801.0 52.0 155.0 156.0 41.0 2690.0 91.0 11801.0 83.0 11801.0 113.0 420.0 0 0 0
MA1572.1_rc_shift9 (TGIF2LY_rc)				; local_words_6nt_m1 versus MA1572.1_rc (TGIF2LY_rc); m=5/9; ncol2=12; w=12; offset=9; strand=R; shift=9; score=0.477465; ---------TGACAgcTGTCA--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 679.0 172.0 5209.0 121.0 5209.0 138.0 1018.0 110.0 144.0 1197.0 104.0 5209.0 0 0 0 c 0 0 0 0 0 0 0 0 0 807.0 259.0 145.0 5209.0 73.0 1188.0 2794.0 833.0 66.0 349.0 5209.0 415.0 0 0 0 g 0 0 0 0 0 0 0 0 0 362.0 5209.0 371.0 61.0 848.0 2850.0 1267.0 37.0 5209.0 163.0 270.0 836.0 0 0 0 t 0 0 0 0 0 0 0 0 0 5209.0 135.0 1084.0 175.0 140.0 1033.0 130.0 5209.0 123.0 5209.0 162.0 736.0 0 0 0
MA0783.1_shift9 (PKNOX2)				; local_words_6nt_m1 versus MA0783.1 (PKNOX2); m=6/9; ncol2=12; w=12; offset=9; strand=D; shift=9; score=0.465097; ---------TGACAGsTGTCA--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 37.0 1.0 1124.0 0.0 1169.0 7.0 39.0 0.0 3.0 10.0 11.0 1190.0 0 0 0 c 0 0 0 0 0 0 0 0 0 0.0 6.0 3.0 1250.0 0.0 0.0 304.0 4.0 1.0 29.0 1265.0 1.0 0 0 0 g 0 0 0 0 0 0 0 0 0 9.0 1389.0 13.0 0.0 1.0 1298.0 702.0 0.0 1370.0 5.0 6.0 21.0 0 0 0 t 0 0 0 0 0 0 0 0 0 1192.0 0.0 6.0 9.0 4.0 118.0 0.0 1204.0 0.0 1167.0 3.0 9.0 0 0 0
MA1641.1_shift9 (MYF5)				; local_words_6nt_m1 versus MA1641.1 (MYF5); m=7/9; ncol2=12; w=12; offset=9; strand=D; shift=9; score=0.426728; ---------gvaCAGCTGtbc--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 2698.0 3507.0 7490.0 95.0 10965.0 100.0 223.0 129.0 42.0 578.0 1572.0 2554.0 0 0 0 c 0 0 0 0 0 0 0 0 0 2700.0 2986.0 1368.0 10911.0 47.0 230.0 10657.0 68.0 161.0 1775.0 3146.0 3258.0 0 0 0 g 0 0 0 0 0 0 0 0 0 3258.0 3145.0 1774.0 161.0 69.0 10658.0 230.0 47.0 10912.0 1368.0 2985.0 2701.0 0 0 0 t 0 0 0 0 0 0 0 0 0 2554.0 1572.0 578.0 43.0 129.0 222.0 100.0 10966.0 95.0 7489.0 3507.0 2697.0 0 0 0
MA0832.1_shift8 (Tcf21)				; local_words_6nt_m1 versus MA0832.1 (Tcf21); m=8/9; ncol2=14; w=14; offset=8; strand=D; shift=8; score=0.423293; --------ryAACAGCTGTTry-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 55.0 28.0 171.0 171.0 0.0 171.0 0.0 0.0 0.0 0.0 0.0 5.0 50.0 30.0 0 0 c 0 0 0 0 0 0 0 0 29.0 76.0 1.0 10.0 171.0 1.0 0.0 171.0 0.0 0.0 4.0 23.0 23.0 49.0 0 0 g 0 0 0 0 0 0 0 0 70.0 22.0 23.0 0.0 0.0 0.0 171.0 1.0 0.0 171.0 20.0 0.0 80.0 32.0 0 0 t 0 0 0 0 0 0 0 0 17.0 46.0 3.0 0.0 0.0 0.0 2.0 1.0 171.0 0.0 171.0 171.0 19.0 60.0 0 0
MA1619.1_shift9 (Ptf1a(var.2))				; local_words_6nt_m1 versus MA1619.1 (Ptf1a(var.2)); m=9/9; ncol2=12; w=12; offset=9; strand=D; shift=9; score=0.415607; ---------rmaCAGCTGtky--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1869.0 1978.0 4346.0 49.0 7119.0 34.0 224.0 26.0 27.0 535.0 1221.0 1602.0 0 0 0 c 0 0 0 0 0 0 0 0 0 1803.0 2430.0 1070.0 7149.0 41.0 307.0 6697.0 66.0 27.0 1312.0 1632.0 1977.0 0 0 0 g 0 0 0 0 0 0 0 0 0 1974.0 1629.0 1308.0 28.0 65.0 6689.0 299.0 40.0 7150.0 1065.0 2426.0 1803.0 0 0 0 t 0 0 0 0 0 0 0 0 0 1607.0 1216.0 529.0 27.0 28.0 223.0 33.0 7121.0 49.0 4341.0 1974.0 1871.0 0 0 0