One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.022353_2026-04-21.022353_CcghX5/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1.tf -format2 tf -file2 $RSAT/public_html/motif_databases/cisBP2/cisBP_Caenorhabditis_elegans_2019.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 $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.022353_2026-04-21.022353_CcghX5/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1_vs_db_cisBP_Caenorhabditis_elegans
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m1_shift1 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv2_m1_shift1 (oligos_7nt_mkv2_m1) |
 |
|
|
; oligos_7nt_mkv2_m1; m=0 (reference); ncol1=11; shift=1; ncol=12; -bmGCAAGACdr
; Alignment reference
a 0 2 43 0 19 115 116 0 132 3 51 64
c 0 38 48 0 113 0 0 16 0 113 2 20
g 0 56 17 116 0 1 16 111 0 16 41 48
t 0 36 24 16 0 16 0 5 0 0 38 0
|
| M00591_2.00_shift0 (Y48G1C.6) |
 |
|
|
; oligos_7nt_mkv2_m1 versus M00591_2.00 (Y48G1C.6); m=1/1; ncol2=10; w=-1; offset=-1; strand=D; shift=0; score=0.55986; svyGCAAkwt--
; cor=; Ncor=
a 24.1923 28.552 12.639 9.25583 6.43456 83.0881 78.5091 14.4739 31.88 24.2259 0 0
c 26.7367 31.872 28.1286 2.11315e-05 84.0728 12.1813 6.84292 13.6311 16.6428 23.7462 0 0
g 27.8278 31.872 7.97879 88.6994 1.06362 0.158802 5.94895 45.2567 18.9533 22.1408 0 0
t 21.2432 7.70391 51.2536 2.04471 8.42904 4.57178 8.69905 26.6383 32.524 29.887 0 0
|