One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep2_motifs50/results/discovered_motifs/oligos_6nt_mkv3_m44/peak-motifs_oligos_6nt_mkv3_m44.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_6nt_mkv3_m44/peak-motifs_oligos_6nt_mkv3_m44_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m44_shift3 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m44_shift3 (oligos_6nt_mkv3_m44oligos_6nt_mkv3_m44)
; oligos_6nt_mkv3_m44 (oligos_6nt_mkv3_m44oligos_6nt_mkv3_m44); m=0 (reference); ncol1=12; shift=3; ncol=17; ---svcAAGCCACms-- ; Alignment reference a 0 0 0 72 94 60 357 361 5 3 0 359 28 144 60 0 0 c 0 0 0 114 122 213 1 2 3 356 358 0 259 95 104 0 0 g 0 0 0 114 97 62 5 0 354 1 3 5 55 76 133 0 0 t 0 0 0 64 51 29 1 1 2 4 3 0 22 49 67 0 0

MA0479.1_shift3 (FOXH1)
; oligos_6nt_mkv3_m44 versus MA0479.1 (FOXH1); m=1/4; ncol2=11; w=11; offset=0; strand=D; shift=3; score=0.65904; ---ybsAATMCACA--- ; cor=; Ncor= a 0 0 0 939.0 1578.0 973.0 8211.0 7547.0 0.0 2374.0 1414.0 8211.0 0.0 7138.0 0 0 0 c 0 0 0 2840.0 2333.0 3261.0 0.0 0.0 0.0 5773.0 6797.0 0.0 8211.0 0.0 0 0 0 g 0 0 0 1490.0 2137.0 3156.0 0.0 229.0 0.0 0.0 0.0 0.0 0.0 0.0 0 0 0 t 0 0 0 2942.0 2163.0 821.0 0.0 435.0 8211.0 64.0 0.0 0.0 0.0 1073.0 0 0 0

MA1599.1_shift0 (ZNF682)
; oligos_6nt_mkv3_m44 versus MA1599.1 (ZNF682); m=2/4; ncol2=16; w=12; offset=-3; strand=D; shift=0; score=0.546958; crGGCyAAGCCCCwrt- ; cor=; Ncor= a 205.0 304.0 110.0 103.0 100.0 48.0 953.0 999.0 6.0 13.0 5.0 7.0 66.0 367.0 324.0 192.0 0 c 423.0 234.0 85.0 42.0 795.0 597.0 72.0 31.0 7.0 999.0 1033.0 1034.0 896.0 117.0 254.0 260.0 0 g 214.0 349.0 774.0 877.0 105.0 55.0 20.0 22.0 1038.0 13.0 9.0 10.0 32.0 118.0 300.0 194.0 0 t 216.0 171.0 89.0 36.0 58.0 358.0 13.0 6.0 7.0 33.0 11.0 7.0 64.0 456.0 180.0 412.0 0

MA0002.2_rc_shift6 (RUNX1_rc)
; oligos_6nt_mkv3_m44 versus MA0002.2_rc (RUNX1_rc); m=3/4; ncol2=11; w=9; offset=3; strand=R; shift=6; score=0.48242; ------waaCCACAram ; cor=; Ncor= a 0 0 0 0 0 0 1053.0 1325.0 1339.0 93.0 13.0 1716.0 53.0 1936.0 656.0 814.0 521.0 c 0 0 0 0 0 0 289.0 81.0 251.0 1848.0 1987.0 70.0 1872.0 7.0 149.0 467.0 696.0 g 0 0 0 0 0 0 158.0 463.0 400.0 42.0 0.0 127.0 75.0 0.0 1072.0 485.0 496.0 t 0 0 0 0 0 0 500.0 131.0 10.0 17.0 0.0 87.0 0.0 57.0 123.0 234.0 287.0

MA0079.4_shift5 (SP1)
; oligos_6nt_mkv3_m44 versus MA0079.4 (SP1); m=4/4; ncol2=15; w=10; offset=2; strand=D; shift=5; score=0.421818; -----ywrRCCACGCCC ; cor=; Ncor= a 0 0 0 0 0 7866.0 28233.0 28895.0 14584.0 962.0 55.0 42154.0 0.0 959.0 0.0 8.0 0.0 c 0 0 0 0 0 13273.0 1872.0 1530.0 0.0 48854.0 49649.0 12672.0 49660.0 0.0 49666.0 49662.0 48772.0 g 0 0 0 0 0 9691.0 999.0 19477.0 37543.0 82.0 0.0 0.0 0.0 48957.0 0.0 0.0 0.0 t 0 0 0 0 0 18833.0 19877.0 1184.0 153.0 124.0 1670.0 0.0 31.0 867.0 17.0 0.0 1440.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m44_shift3 (oligos_6nt_mkv3_m44oligos_6nt_mkv3_m44)				; oligos_6nt_mkv3_m44 (oligos_6nt_mkv3_m44oligos_6nt_mkv3_m44); m=0 (reference); ncol1=12; shift=3; ncol=17; ---svcAAGCCACms-- ; Alignment reference a 0 0 0 72 94 60 357 361 5 3 0 359 28 144 60 0 0 c 0 0 0 114 122 213 1 2 3 356 358 0 259 95 104 0 0 g 0 0 0 114 97 62 5 0 354 1 3 5 55 76 133 0 0 t 0 0 0 64 51 29 1 1 2 4 3 0 22 49 67 0 0
MA0479.1_shift3 (FOXH1)				; oligos_6nt_mkv3_m44 versus MA0479.1 (FOXH1); m=1/4; ncol2=11; w=11; offset=0; strand=D; shift=3; score=0.65904; ---ybsAATMCACA--- ; cor=; Ncor= a 0 0 0 939.0 1578.0 973.0 8211.0 7547.0 0.0 2374.0 1414.0 8211.0 0.0 7138.0 0 0 0 c 0 0 0 2840.0 2333.0 3261.0 0.0 0.0 0.0 5773.0 6797.0 0.0 8211.0 0.0 0 0 0 g 0 0 0 1490.0 2137.0 3156.0 0.0 229.0 0.0 0.0 0.0 0.0 0.0 0.0 0 0 0 t 0 0 0 2942.0 2163.0 821.0 0.0 435.0 8211.0 64.0 0.0 0.0 0.0 1073.0 0 0 0
MA1599.1_shift0 (ZNF682)				; oligos_6nt_mkv3_m44 versus MA1599.1 (ZNF682); m=2/4; ncol2=16; w=12; offset=-3; strand=D; shift=0; score=0.546958; crGGCyAAGCCCCwrt- ; cor=; Ncor= a 205.0 304.0 110.0 103.0 100.0 48.0 953.0 999.0 6.0 13.0 5.0 7.0 66.0 367.0 324.0 192.0 0 c 423.0 234.0 85.0 42.0 795.0 597.0 72.0 31.0 7.0 999.0 1033.0 1034.0 896.0 117.0 254.0 260.0 0 g 214.0 349.0 774.0 877.0 105.0 55.0 20.0 22.0 1038.0 13.0 9.0 10.0 32.0 118.0 300.0 194.0 0 t 216.0 171.0 89.0 36.0 58.0 358.0 13.0 6.0 7.0 33.0 11.0 7.0 64.0 456.0 180.0 412.0 0
MA0002.2_rc_shift6 (RUNX1_rc)				; oligos_6nt_mkv3_m44 versus MA0002.2_rc (RUNX1_rc); m=3/4; ncol2=11; w=9; offset=3; strand=R; shift=6; score=0.48242; ------waaCCACAram ; cor=; Ncor= a 0 0 0 0 0 0 1053.0 1325.0 1339.0 93.0 13.0 1716.0 53.0 1936.0 656.0 814.0 521.0 c 0 0 0 0 0 0 289.0 81.0 251.0 1848.0 1987.0 70.0 1872.0 7.0 149.0 467.0 696.0 g 0 0 0 0 0 0 158.0 463.0 400.0 42.0 0.0 127.0 75.0 0.0 1072.0 485.0 496.0 t 0 0 0 0 0 0 500.0 131.0 10.0 17.0 0.0 87.0 0.0 57.0 123.0 234.0 287.0
MA0079.4_shift5 (SP1)				; oligos_6nt_mkv3_m44 versus MA0079.4 (SP1); m=4/4; ncol2=15; w=10; offset=2; strand=D; shift=5; score=0.421818; -----ywrRCCACGCCC ; cor=; Ncor= a 0 0 0 0 0 7866.0 28233.0 28895.0 14584.0 962.0 55.0 42154.0 0.0 959.0 0.0 8.0 0.0 c 0 0 0 0 0 13273.0 1872.0 1530.0 0.0 48854.0 49649.0 12672.0 49660.0 0.0 49666.0 49662.0 48772.0 g 0 0 0 0 0 9691.0 999.0 19477.0 37543.0 82.0 0.0 0.0 0.0 48957.0 0.0 0.0 0.0 t 0 0 0 0 0 18833.0 19877.0 1184.0 153.0 124.0 1670.0 0.0 31.0 867.0 17.0 0.0 1440.0