One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/local_words_7nt_m6/peak-motifs_local_words_7nt_m6.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_m6/peak-motifs_local_words_7nt_m6_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: local_words_7nt_m6_shift0 ; 6 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
local_words_7nt_m6_shift0 (local_words_7nt_m6local_words_7nt_m6)
; local_words_7nt_m6 (local_words_7nt_m6local_words_7nt_m6); m=0 (reference); ncol1=24; shift=0; ncol=24; ckgTGrCAGCTGTGGCAGCTGygg ; Alignment reference a 18 38 10 9 7 99 1 148 8 4 4 2 11 7 21 5 129 8 4 12 16 20 29 27 c 74 22 30 8 11 3 149 1 2 142 3 1 4 4 4 134 6 6 136 6 14 64 29 34 g 37 48 104 12 137 41 4 1 145 8 3 152 8 136 120 10 6 126 6 7 108 24 62 68 t 26 47 11 126 0 12 1 5 0 1 145 0 132 8 10 6 14 15 9 130 17 47 35 26

MA1485.1_rc_shift2 (FERD3L_rc)
; local_words_7nt_m6 versus MA1485.1_rc (FERD3L_rc); m=1/5; ncol2=14; w=14; offset=2; strand=R; shift=2; score=0.496127; --GTrACAGCTGkyrC-------- ; cor=; Ncor= a 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 0 0 0 0 0 0 c 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 0 0 0 0 0 0 g 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 0 0 0 0 0 0 t 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 0 0 0 0 0 0

MA1641.1_rc_shift3 (MYF5_rc)
; local_words_7nt_m6 versus MA1641.1_rc (MYF5_rc); m=2/5; ncol2=12; w=12; offset=3; strand=R; shift=3; score=0.418061; ---gvaCAGCTGtbc--------- ; cor=; Ncor= a 0 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 0 0 0 c 0 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 0 0 0 g 0 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 0 0 0 t 0 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 0 0 0

MA0832.1_rc_shift2 (Tcf21_rc)
; local_words_7nt_m6 versus MA0832.1_rc (Tcf21_rc); m=3/5; ncol2=14; w=14; offset=2; strand=R; shift=2; score=0.417853; --ryAACAGCTGTTry-------- ; cor=; Ncor= a 0 0 60.0 19.0 171.0 171.0 0.0 171.0 1.0 2.0 0.0 0.0 0.0 3.0 46.0 17.0 0 0 0 0 0 0 0 0 c 0 0 32.0 80.0 0.0 20.0 171.0 0.0 1.0 171.0 0.0 0.0 0.0 23.0 22.0 70.0 0 0 0 0 0 0 0 0 g 0 0 49.0 23.0 23.0 4.0 0.0 0.0 171.0 0.0 1.0 171.0 10.0 1.0 76.0 29.0 0 0 0 0 0 0 0 0 t 0 0 30.0 50.0 5.0 0.0 0.0 0.0 0.0 0.0 171.0 0.0 171.0 171.0 28.0 55.0 0 0 0 0 0 0 0 0

MA1619.1_rc_shift3 (Ptf1a(var.2)_rc)
; local_words_7nt_m6 versus MA1619.1_rc (Ptf1a(var.2)_rc); m=4/5; ncol2=12; w=12; offset=3; strand=R; shift=3; score=0.417434; ---rmaCAGCTGtky--------- ; cor=; Ncor= a 0 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 0 0 0 c 0 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 0 0 0 g 0 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 0 0 0 t 0 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 0 0 0

MA0500.2_shift12 (MYOG)
; local_words_7nt_m6 versus MA0500.2 (MYOG); m=5/5; ncol2=12; w=12; offset=12; strand=D; shift=12; score=0.409918; ------------sarCAGCTGyts ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 5310.0 8428.0 7159.0 86.0 21782.0 95.0 167.0 163.0 182.0 1667.0 4667.0 5018.0 c 0 0 0 0 0 0 0 0 0 0 0 0 6381.0 3754.0 2730.0 21988.0 176.0 130.0 21964.0 238.0 102.0 10792.0 5497.0 5660.0 g 0 0 0 0 0 0 0 0 0 0 0 0 5596.0 5483.0 10790.0 101.0 236.0 21963.0 131.0 179.0 21985.0 2706.0 3718.0 6369.0 t 0 0 0 0 0 0 0 0 0 0 0 0 5070.0 4692.0 1678.0 182.0 163.0 169.0 95.0 21777.0 88.0 7192.0 8475.0 5310.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
local_words_7nt_m6_shift0 (local_words_7nt_m6local_words_7nt_m6)				; local_words_7nt_m6 (local_words_7nt_m6local_words_7nt_m6); m=0 (reference); ncol1=24; shift=0; ncol=24; ckgTGrCAGCTGTGGCAGCTGygg ; Alignment reference a 18 38 10 9 7 99 1 148 8 4 4 2 11 7 21 5 129 8 4 12 16 20 29 27 c 74 22 30 8 11 3 149 1 2 142 3 1 4 4 4 134 6 6 136 6 14 64 29 34 g 37 48 104 12 137 41 4 1 145 8 3 152 8 136 120 10 6 126 6 7 108 24 62 68 t 26 47 11 126 0 12 1 5 0 1 145 0 132 8 10 6 14 15 9 130 17 47 35 26
MA1485.1_rc_shift2 (FERD3L_rc)				; local_words_7nt_m6 versus MA1485.1_rc (FERD3L_rc); m=1/5; ncol2=14; w=14; offset=2; strand=R; shift=2; score=0.496127; --GTrACAGCTGkyrC-------- ; cor=; Ncor= a 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 0 0 0 0 0 0 c 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 0 0 0 0 0 0 g 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 0 0 0 0 0 0 t 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 0 0 0 0 0 0
MA1641.1_rc_shift3 (MYF5_rc)				; local_words_7nt_m6 versus MA1641.1_rc (MYF5_rc); m=2/5; ncol2=12; w=12; offset=3; strand=R; shift=3; score=0.418061; ---gvaCAGCTGtbc--------- ; cor=; Ncor= a 0 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 0 0 0 c 0 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 0 0 0 g 0 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 0 0 0 t 0 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 0 0 0
MA0832.1_rc_shift2 (Tcf21_rc)				; local_words_7nt_m6 versus MA0832.1_rc (Tcf21_rc); m=3/5; ncol2=14; w=14; offset=2; strand=R; shift=2; score=0.417853; --ryAACAGCTGTTry-------- ; cor=; Ncor= a 0 0 60.0 19.0 171.0 171.0 0.0 171.0 1.0 2.0 0.0 0.0 0.0 3.0 46.0 17.0 0 0 0 0 0 0 0 0 c 0 0 32.0 80.0 0.0 20.0 171.0 0.0 1.0 171.0 0.0 0.0 0.0 23.0 22.0 70.0 0 0 0 0 0 0 0 0 g 0 0 49.0 23.0 23.0 4.0 0.0 0.0 171.0 0.0 1.0 171.0 10.0 1.0 76.0 29.0 0 0 0 0 0 0 0 0 t 0 0 30.0 50.0 5.0 0.0 0.0 0.0 0.0 0.0 171.0 0.0 171.0 171.0 28.0 55.0 0 0 0 0 0 0 0 0
MA1619.1_rc_shift3 (Ptf1a(var.2)_rc)				; local_words_7nt_m6 versus MA1619.1_rc (Ptf1a(var.2)_rc); m=4/5; ncol2=12; w=12; offset=3; strand=R; shift=3; score=0.417434; ---rmaCAGCTGtky--------- ; cor=; Ncor= a 0 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 0 0 0 c 0 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 0 0 0 g 0 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 0 0 0 t 0 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 0 0 0
MA0500.2_shift12 (MYOG)				; local_words_7nt_m6 versus MA0500.2 (MYOG); m=5/5; ncol2=12; w=12; offset=12; strand=D; shift=12; score=0.409918; ------------sarCAGCTGyts ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 5310.0 8428.0 7159.0 86.0 21782.0 95.0 167.0 163.0 182.0 1667.0 4667.0 5018.0 c 0 0 0 0 0 0 0 0 0 0 0 0 6381.0 3754.0 2730.0 21988.0 176.0 130.0 21964.0 238.0 102.0 10792.0 5497.0 5660.0 g 0 0 0 0 0 0 0 0 0 0 0 0 5596.0 5483.0 10790.0 101.0 236.0 21963.0 131.0 179.0 21985.0 2706.0 3718.0 6369.0 t 0 0 0 0 0 0 0 0 0 0 0 0 5070.0 4692.0 1678.0 182.0 163.0 169.0 95.0 21777.0 88.0 7192.0 8475.0 5310.0