One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep2_motifs50/results/discovered_motifs/oligos_7nt_mkv4_m9/peak-motifs_oligos_7nt_mkv4_m9.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_m9/peak-motifs_oligos_7nt_mkv4_m9_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m9_shift1 ; 4 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv4_m9_shift1 (oligos_7nt_mkv4_m9oligos_7nt_mkv4_m9) |
 |
|
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; oligos_7nt_mkv4_m9 (oligos_7nt_mkv4_m9oligos_7nt_mkv4_m9); m=0 (reference); ncol1=12; shift=1; ncol=13; -ssGCCAGCCCss
; Alignment reference
a 0 27 42 4 1 0 186 2 1 0 2 42 44
c 0 101 76 20 222 219 27 0 226 223 219 72 62
g 0 62 66 198 4 8 13 222 0 4 7 68 92
t 0 38 44 6 1 1 2 4 1 1 0 46 30
|
| MA1513.1_shift2 (KLF15) |
 |
|
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; oligos_7nt_mkv4_m9 versus MA1513.1 (KLF15); m=1/3; ncol2=11; w=11; offset=1; strand=D; shift=2; score=0.714224; --scCCCGCCCcs
; cor=; Ncor=
a 0 0 1184.0 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 1566.0 1067.0
c 0 0 2903.0 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 6267.0 5013.0
g 0 0 5538.0 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 1934.0 3124.0
t 0 0 1744.0 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0 1602.0 2165.0
|
| MA0597.1_shift5 (THAP1) |
 |
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; oligos_7nt_mkv4_m9 versus MA0597.1 (THAP1); m=2/3; ncol2=9; w=8; offset=4; strand=D; shift=5; score= 0.4617; -----ytGCCMky
; cor=; Ncor=
a 0 0 0 0 0 18.0 15.0 20.0 7.0 3.0 58.0 47.0 30.0
c 0 0 0 0 0 93.0 47.0 0.0 182.0 195.0 136.0 17.0 71.0
g 0 0 0 0 0 27.0 12.0 137.0 0.0 0.0 1.0 77.0 41.0
t 0 0 0 0 0 61.0 125.0 42.0 10.0 1.0 4.0 58.0 57.0
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| MA0671.1_shift0 (NFIX) |
 |
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; oligos_7nt_mkv4_m9 versus MA0671.1 (NFIX); m=3/3; ncol2=9; w=8; offset=-1; strand=D; shift=0; score=0.441171; sgtGCCArv----
; cor=; Ncor=
a 7951.0 7832.0 11279.0 132.0 3.0 0.0 32864.0 32864.0 8251.0 0 0 0 0
c 8810.0 6134.0 9695.0 186.0 32864.0 32864.0 2230.0 1356.0 9039.0 0 0 0 0
g 8725.0 10855.0 5911.0 32864.0 3257.0 0.0 180.0 12688.0 9135.0 0 0 0 0
t 7378.0 8043.0 32864.0 2539.0 29.0 0.0 110.0 2399.0 6439.0 0 0 0 0
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