One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep2_motifs50/results/discovered_motifs/oligos_8nt_mkv5_m15/peak-motifs_oligos_8nt_mkv5_m15.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_Rep2_motifs50/results/discovered_motifs/oligos_8nt_mkv5_m15/peak-motifs_oligos_8nt_mkv5_m15_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_8nt_mkv5_m15_shift0 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_8nt_mkv5_m15_shift0 (oligos_8nt_mkv5_m15oligos_8nt_mkv5_m15)
; oligos_8nt_mkv5_m15 (oligos_8nt_mkv5_m15oligos_8nt_mkv5_m15); m=0 (reference); ncol1=13; shift=0; ncol=16; bsAGAGCTGAGsm--- ; Alignment reference a 29 46 177 4 172 3 10 5 5 176 15 41 56 0 0 0 c 50 54 6 43 4 6 169 1 1 6 11 52 52 0 0 0 g 57 60 1 136 3 175 6 3 175 3 157 56 44 0 0 0 t 50 26 2 3 7 2 1 177 5 1 3 37 34 0 0 0

MA1619.1_shift0 (Ptf1a(var.2))
; oligos_8nt_mkv5_m15 versus MA1619.1 (Ptf1a(var.2)); m=1/4; ncol2=12; w=12; offset=0; strand=D; shift=0; score=0.656873; rmaCAGCTGtky---- ; cor=; Ncor= a 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 0 c 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 0 g 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 0 t 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 0

MA1641.1_shift0 (MYF5)
; oligos_8nt_mkv5_m15 versus MA1641.1 (MYF5); m=2/4; ncol2=12; w=12; offset=0; strand=D; shift=0; score=0.649333; gvaCAGCTGtbc---- ; cor=; Ncor= a 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 0 c 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 0 g 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 0 t 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 0

MA0521.1_shift1 (Tcf12)
; oligos_8nt_mkv5_m15 versus MA0521.1 (Tcf12); m=3/4; ncol2=11; w=11; offset=1; strand=D; shift=1; score=0.606195; -rRCAGCTGswg---- ; cor=; Ncor= a 0 6170.0 8820.0 0.0 12895.0 8.0 184.0 0.0 0.0 1875.0 3912.0 2863.0 0 0 0 0 c 0 1585.0 124.0 12895.0 0.0 0.0 10822.0 0.0 0.0 5527.0 2416.0 3005.0 0 0 0 0 g 0 5123.0 3951.0 0.0 0.0 12887.0 1889.0 0.0 12895.0 3811.0 2925.0 4836.0 0 0 0 0 t 0 17.0 0.0 0.0 0.0 0.0 0.0 12895.0 0.0 1682.0 3642.0 2191.0 0 0 0 0

MA1633.1_rc_shift3 (BACH1_rc)
; oligos_8nt_mkv5_m15 versus MA1633.1_rc (BACH1_rc); m=4/4; ncol2=13; w=10; offset=3; strand=R; shift=3; score=0.445683; ---wtGCTGAGTCAts ; cor=; Ncor= a 0 0 0 3938.0 2620.0 548.0 1545.0 275.0 240.0 14421.0 434.0 114.0 480.0 15036.0 947.0 3519.0 c 0 0 0 3553.0 1971.0 858.0 13050.0 310.0 178.0 266.0 2083.0 167.0 14831.0 149.0 3848.0 4835.0 g 0 0 0 3574.0 2167.0 13382.0 623.0 194.0 14563.0 220.0 12597.0 230.0 149.0 267.0 3833.0 3946.0 t 0 0 0 4492.0 8799.0 769.0 339.0 14778.0 576.0 650.0 443.0 15046.0 97.0 105.0 6929.0 3257.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_8nt_mkv5_m15_shift0 (oligos_8nt_mkv5_m15oligos_8nt_mkv5_m15)				; oligos_8nt_mkv5_m15 (oligos_8nt_mkv5_m15oligos_8nt_mkv5_m15); m=0 (reference); ncol1=13; shift=0; ncol=16; bsAGAGCTGAGsm--- ; Alignment reference a 29 46 177 4 172 3 10 5 5 176 15 41 56 0 0 0 c 50 54 6 43 4 6 169 1 1 6 11 52 52 0 0 0 g 57 60 1 136 3 175 6 3 175 3 157 56 44 0 0 0 t 50 26 2 3 7 2 1 177 5 1 3 37 34 0 0 0
MA1619.1_shift0 (Ptf1a(var.2))				; oligos_8nt_mkv5_m15 versus MA1619.1 (Ptf1a(var.2)); m=1/4; ncol2=12; w=12; offset=0; strand=D; shift=0; score=0.656873; rmaCAGCTGtky---- ; cor=; Ncor= a 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 0 c 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 0 g 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 0 t 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 0
MA1641.1_shift0 (MYF5)				; oligos_8nt_mkv5_m15 versus MA1641.1 (MYF5); m=2/4; ncol2=12; w=12; offset=0; strand=D; shift=0; score=0.649333; gvaCAGCTGtbc---- ; cor=; Ncor= a 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 0 c 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 0 g 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 0 t 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 0
MA0521.1_shift1 (Tcf12)				; oligos_8nt_mkv5_m15 versus MA0521.1 (Tcf12); m=3/4; ncol2=11; w=11; offset=1; strand=D; shift=1; score=0.606195; -rRCAGCTGswg---- ; cor=; Ncor= a 0 6170.0 8820.0 0.0 12895.0 8.0 184.0 0.0 0.0 1875.0 3912.0 2863.0 0 0 0 0 c 0 1585.0 124.0 12895.0 0.0 0.0 10822.0 0.0 0.0 5527.0 2416.0 3005.0 0 0 0 0 g 0 5123.0 3951.0 0.0 0.0 12887.0 1889.0 0.0 12895.0 3811.0 2925.0 4836.0 0 0 0 0 t 0 17.0 0.0 0.0 0.0 0.0 0.0 12895.0 0.0 1682.0 3642.0 2191.0 0 0 0 0
MA1633.1_rc_shift3 (BACH1_rc)				; oligos_8nt_mkv5_m15 versus MA1633.1_rc (BACH1_rc); m=4/4; ncol2=13; w=10; offset=3; strand=R; shift=3; score=0.445683; ---wtGCTGAGTCAts ; cor=; Ncor= a 0 0 0 3938.0 2620.0 548.0 1545.0 275.0 240.0 14421.0 434.0 114.0 480.0 15036.0 947.0 3519.0 c 0 0 0 3553.0 1971.0 858.0 13050.0 310.0 178.0 266.0 2083.0 167.0 14831.0 149.0 3848.0 4835.0 g 0 0 0 3574.0 2167.0 13382.0 623.0 194.0 14563.0 220.0 12597.0 230.0 149.0 267.0 3833.0 3946.0 t 0 0 0 4492.0 8799.0 769.0 339.0 14778.0 576.0 650.0 443.0 15046.0 97.0 105.0 6929.0 3257.0