One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_7nt_mkv5_m42/peak-motifs_oligos_7nt_mkv5_m42.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_7nt_mkv5_m42/peak-motifs_oligos_7nt_mkv5_m42_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m42_shift5 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv5_m42_shift5 (oligos_7nt_mkv5_m42oligos_7nt_mkv5_m42) |
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; oligos_7nt_mkv5_m42 (oligos_7nt_mkv5_m42oligos_7nt_mkv5_m42); m=0 (reference); ncol1=11; shift=5; ncol=16; -----csCGGCCTCss
; Alignment reference
a 0 0 0 0 0 206 251 0 0 17 21 9 0 7 312 247
c 0 0 0 0 0 1110 634 2180 0 0 2135 1910 0 2173 807 684
g 0 0 0 0 0 542 948 0 2180 2134 0 260 213 0 728 956
t 0 0 0 0 0 322 347 0 0 29 24 1 1967 0 333 293
|
| MA1596.1_shift3 (ZNF460) |
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; oligos_7nt_mkv5_m42 versus MA1596.1 (ZNF460); m=1/2; ncol2=16; w=11; offset=-2; strand=D; shift=3; score=0.506395; ---rCCTCmGCCTCCC
; cor=; Ncor=
a 0 0 0 412.0 49.0 19.0 27.0 17.0 851.0 61.0 6.0 1.0 13.0 3.0 5.0 12.0
c 0 0 0 131.0 1264.0 1460.0 218.0 1519.0 495.0 23.0 1588.0 1596.0 12.0 1584.0 1583.0 1533.0
g 0 0 0 1023.0 185.0 67.0 83.0 47.0 181.0 1493.0 7.0 9.0 17.0 15.0 15.0 27.0
t 0 0 0 46.0 114.0 66.0 1284.0 29.0 85.0 35.0 11.0 6.0 1570.0 10.0 9.0 40.0
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| MA0146.2_shift0 (Zfx) |
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; oligos_7nt_mkv5_m42 versus MA0146.2 (Zfx); m=2/2; ncol2=14; w=9; offset=-5; strand=D; shift=0; score=0.459739; sssgsCbvGGCCTs--
; cor=; Ncor=
a 50.0 59.0 91.0 72.0 10.0 6.0 30.0 191.0 8.0 0.0 0.0 0.0 0.0 84.0 0 0
c 178.0 170.0 151.0 49.0 297.0 361.0 124.0 153.0 2.0 3.0 481.0 480.0 1.0 122.0 0 0
g 179.0 173.0 199.0 297.0 144.0 2.0 183.0 122.0 470.0 477.0 0.0 0.0 0.0 218.0 0 0
t 70.0 75.0 37.0 61.0 30.0 112.0 144.0 15.0 1.0 1.0 0.0 1.0 480.0 56.0 0 0
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