One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_8nt_mkv6_m29/peak-motifs_oligos_8nt_mkv6_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_Rep1_motifs50/results/discovered_motifs/oligos_8nt_mkv6_m29/peak-motifs_oligos_8nt_mkv6_m29_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: oligos_8nt_mkv6_m29_shift2 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_8nt_mkv6_m29_shift2 (oligos_8nt_mkv6_m29oligos_8nt_mkv6_m29) |
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; oligos_8nt_mkv6_m29 (oligos_8nt_mkv6_m29oligos_8nt_mkv6_m29); m=0 (reference); ncol1=12; shift=2; ncol=17; --ssCGaGGCCGss---
; Alignment reference
a 0 0 519 425 28 8 2573 103 95 142 2 33 510 591 0 0 0
c 0 0 1383 1554 3601 29 828 182 258 3345 3555 142 1562 1185 0 0 0
g 0 0 1500 1560 228 3814 341 3531 3435 319 321 3691 1370 1698 0 0 0
t 0 0 481 344 26 32 141 67 95 77 5 17 441 409 0 0 0
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| MA1516.1_rc_shift0 (KLF3_rc) |
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; oligos_8nt_mkv6_m29 versus MA1516.1_rc (KLF3_rc); m=1/2; ncol2=11; w=9; offset=-2; strand=R; shift=0; score=0.45549; wGGGCGyGGyc------
; cor=; Ncor=
a 14617.0 1218.0 0.0 0.0 1212.0 1409.0 419.0 335.0 705.0 207.0 6319.0 0 0 0 0 0 0
c 1514.0 48.0 29.0 31.0 43259.0 21.0 16503.0 248.0 1954.0 18489.0 26568.0 0 0 0 0 0 0
g 10099.0 43259.0 43259.0 43259.0 334.0 43259.0 707.0 43259.0 43259.0 615.0 2655.0 0 0 0 0 0 0
t 17029.0 77.0 83.0 202.0 4245.0 2261.0 26757.0 298.0 1442.0 24771.0 7717.0 0 0 0 0 0 0
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| MA0146.2_rc_shift5 (Zfx_rc) |
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; oligos_8nt_mkv6_m29 versus MA0146.2_rc (Zfx_rc); m=2/2; ncol2=14; w=9; offset=3; strand=R; shift=5; score=0.41043; -----sAGGCCbvGscs
; cor=; Ncor=
a 0 0 0 0 0 56.0 480.0 1.0 0.0 1.0 1.0 15.0 144.0 112.0 30.0 61.0 37.0
c 0 0 0 0 0 218.0 0.0 0.0 0.0 477.0 470.0 122.0 183.0 2.0 144.0 297.0 199.0
g 0 0 0 0 0 122.0 1.0 480.0 481.0 3.0 2.0 153.0 124.0 361.0 297.0 49.0 151.0
t 0 0 0 0 0 84.0 0.0 0.0 0.0 0.0 8.0 191.0 30.0 6.0 10.0 72.0 91.0
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