One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_8nt_mkv6_m17/peak-motifs_oligos_8nt_mkv6_m17.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/oligos_8nt_mkv6_m17/peak-motifs_oligos_8nt_mkv6_m17_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: oligos_8nt_mkv6_m17_shift1 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_8nt_mkv6_m17_shift1 (oligos_8nt_mkv6_m17oligos_8nt_mkv6_m17) |
 |
|
|
; oligos_8nt_mkv6_m17 (oligos_8nt_mkv6_m17oligos_8nt_mkv6_m17); m=0 (reference); ncol1=12; shift=1; ncol=14; -ssCGCCaGCGss-
; Alignment reference
a 0 456 414 6 1 92 72 1808 50 4 1 419 369 0
c 0 1053 1164 3093 18 2801 2690 704 389 3107 40 1481 1245 0
g 0 1206 1212 33 3107 145 299 480 2587 18 3087 836 1139 0
t 0 418 343 1 7 95 72 141 107 4 5 397 380 0
|
| MA0506.1_shift2 (NRF1) |
 |
|
|
; oligos_8nt_mkv6_m17 versus MA0506.1 (NRF1); m=1/2; ncol2=11; w=11; offset=1; strand=D; shift=2; score=0.721895; --GCGCmTGCGCr-
; cor=; Ncor=
a 0 0 602.0 623.0 196.0 0.0 1514.0 0.0 0.0 0.0 0.0 74.0 2245.0 0
c 0 0 375.0 4001.0 189.0 4016.0 1862.0 403.0 0.0 4338.0 349.0 4550.0 804.0 0
g 0 0 3647.0 0.0 4239.0 468.0 935.0 528.0 4624.0 0.0 4275.0 0.0 1575.0 0
t 0 0 0.0 0.0 0.0 140.0 313.0 3693.0 0.0 286.0 0.0 0.0 0.0 0
|
| MA0162.4_shift0 (EGR1) |
 |
|
|
; oligos_8nt_mkv6_m17 versus MA0162.4 (EGR1); m=2/2; ncol2=14; w=12; offset=-1; strand=D; shift=0; score=0.617293; ccmCGCCCACgCms
; cor=; Ncor=
a 7087.0 3997.0 14508.0 642.0 5110.0 227.0 1440.0 314.0 22297.0 153.0 4696.0 969.0 8903.0 3809.0
c 11610.0 14749.0 10303.0 28403.0 1131.0 29338.0 27321.0 28958.0 5420.0 29507.0 2806.0 25196.0 10441.0 13686.0
g 6621.0 7211.0 3854.0 756.0 22237.0 665.0 1455.0 698.0 2122.0 699.0 20544.0 2157.0 6345.0 7852.0
t 5280.0 4641.0 1933.0 797.0 2120.0 368.0 382.0 628.0 759.0 239.0 2552.0 2276.0 4909.0 5251.0
|