One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep2_motifs50/results/discovered_motifs/oligos_7nt_mkv4_m29/peak-motifs_oligos_7nt_mkv4_m29.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_7nt_mkv4_m29/peak-motifs_oligos_7nt_mkv4_m29_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m29_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv4_m29_shift0 (oligos_7nt_mkv4_m29oligos_7nt_mkv4_m29) |
 |
|
|
; oligos_7nt_mkv4_m29 (oligos_7nt_mkv4_m29oligos_7nt_mkv4_m29); m=0 (reference); ncol1=12; shift=0; ncol=12; stGACCACAGsy
; Alignment reference
a 41 39 8 201 2 3 196 2 191 4 37 37
c 68 33 0 0 200 175 1 198 3 6 60 67
g 76 49 189 1 1 17 5 2 9 191 73 42
t 19 83 7 2 1 9 2 2 1 3 34 58
|
| MA0002.2_rc_shift1 (RUNX1_rc) |
 |
|
|
; oligos_7nt_mkv4_m29 versus MA0002.2_rc (RUNX1_rc); m=1/2; ncol2=11; w=11; offset=1; strand=R; shift=1; score=0.764577; -waaCCACAram
; cor=; Ncor=
a 0 1053.0 1325.0 1339.0 93.0 13.0 1716.0 53.0 1936.0 656.0 814.0 521.0
c 0 289.0 81.0 251.0 1848.0 1987.0 70.0 1872.0 7.0 149.0 467.0 696.0
g 0 158.0 463.0 400.0 42.0 0.0 127.0 75.0 0.0 1072.0 485.0 496.0
t 0 500.0 131.0 10.0 17.0 0.0 87.0 0.0 57.0 123.0 234.0 287.0
|
| MA0695.1_shift0 (ZBTB7C) |
 |
|
|
; oligos_7nt_mkv4_m29 versus MA0695.1 (ZBTB7C); m=2/2; ncol2=12; w=12; offset=0; strand=D; shift=0; score=0.731106; rcgACCACCgam
; cor=; Ncor=
a 272.0 183.0 351.0 1018.0 39.0 0.0 1018.0 18.0 90.0 253.0 1018.0 333.0
c 118.0 1018.0 128.0 225.0 1018.0 1018.0 269.0 1018.0 1018.0 138.0 444.0 315.0
g 463.0 215.0 1018.0 8.0 0.0 5.0 8.0 7.0 54.0 527.0 251.0 196.0
t 164.0 110.0 137.0 24.0 0.0 14.0 10.0 17.0 90.0 100.0 419.0 174.0
|