One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep2_motifs50/results/discovered_motifs/dyads_m15/peak-motifs_dyads_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/dyads_m15/peak-motifs_dyads_m15_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: dyads_m15_shift1 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| dyads_m15_shift1 (dyads_m15dyads_m15) |
 |
|
|
; dyads_m15 (dyads_m15dyads_m15); m=0 (reference); ncol1=11; shift=1; ncol=14; -ssCCGCCGCss--
; Alignment reference
a 0 60 60 17 0 15 11 0 10 7 36 60 0 0
c 0 314 166 479 539 12 537 534 15 558 265 169 0 0
g 0 154 316 73 55 567 35 60 564 19 245 308 0 0
t 0 66 52 25 0 0 11 0 5 10 48 57 0 0
|
| MA1513.1_shift0 (KLF15) |
 |
|
|
; dyads_m15 versus MA1513.1 (KLF15); m=1/2; ncol2=11; w=10; offset=-1; strand=D; shift=0; score=0.588135; scCCCGCCCcs---
; cor=; Ncor=
a 1184.0 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 1566.0 1067.0 0 0 0
c 2903.0 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 6267.0 5013.0 0 0 0
g 5538.0 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 1934.0 3124.0 0 0 0
t 1744.0 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0 1602.0 2165.0 0 0 0
|
| MA0748.2_rc_shift4 (YY2_rc) |
 |
|
|
; dyads_m15 versus MA0748.2_rc (YY2_rc); m=2/2; ncol2=11; w=8; offset=3; strand=R; shift=4; score=0.419854; ----sgCCGCCATs
; cor=; Ncor=
a 0 0 0 0 857.0 947.0 303.0 79.0 186.0 101.0 27.0 5248.0 36.0 674.0
c 0 0 0 0 2373.0 920.0 4474.0 5231.0 25.0 5376.0 5509.0 125.0 359.0 2143.0
g 0 0 0 0 1535.0 2876.0 516.0 330.0 5384.0 101.0 120.0 273.0 46.0 1607.0
t 0 0 0 0 939.0 961.0 411.0 64.0 109.0 126.0 48.0 58.0 5263.0 1280.0
|