One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep2_motifs50/results/discovered_motifs/oligos_7nt_mkv4_m17/peak-motifs_oligos_7nt_mkv4_m17.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_m17/peak-motifs_oligos_7nt_mkv4_m17_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m17_shift0 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m17_shift0 (oligos_7nt_mkv4_m17oligos_7nt_mkv4_m17)
; oligos_7nt_mkv4_m17 (oligos_7nt_mkv4_m17oligos_7nt_mkv4_m17); m=0 (reference); ncol1=14; shift=0; ncol=15; sctGCCCTGCCChs- ; Alignment reference a 18 22 35 1 3 0 2 3 1 3 2 3 60 17 0 c 106 113 16 6 206 214 215 16 18 200 215 213 66 86 0 g 59 48 23 208 2 1 1 3 186 5 2 2 25 71 0 t 36 36 145 4 8 4 1 197 14 11 0 1 68 45 0

MA1513.1_shift3 (KLF15)
; oligos_7nt_mkv4_m17 versus MA1513.1 (KLF15); m=1/4; ncol2=11; w=11; offset=3; strand=D; shift=3; score=0.625281; ---scCCCGCCCcs- ; cor=; Ncor= a 0 0 0 1184.0 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 1566.0 1067.0 0 c 0 0 0 2903.0 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 6267.0 5013.0 0 g 0 0 0 5538.0 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 1934.0 3124.0 0 t 0 0 0 1744.0 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0 1602.0 2165.0 0

MA0599.1_shift3 (KLF5)
; oligos_7nt_mkv4_m17 versus MA0599.1 (KLF5); m=2/4; ncol2=10; w=10; offset=3; strand=D; shift=3; score=0.547342; ---gCCMCrCCCh-- ; cor=; Ncor= a 0 0 0 1429.0 0.0 0.0 3477.0 0.0 5051.0 0.0 0.0 0.0 3915.0 0 0 c 0 0 0 2023.0 11900.0 12008.0 9569.0 13611.0 0.0 13611.0 13611.0 13135.0 5595.0 0 0 g 0 0 0 7572.0 0.0 0.0 0.0 0.0 5182.0 0.0 0.0 0.0 0.0 0 0 t 0 0 0 2587.0 1711.0 1603.0 565.0 0.0 3378.0 0.0 0.0 476.0 4101.0 0 0

MA0597.1_shift6 (THAP1)
; oligos_7nt_mkv4_m17 versus MA0597.1 (THAP1); m=3/4; ncol2=9; w=8; offset=6; strand=D; shift=6; score=0.474343; ------ytGCCMkya ; cor=; Ncor= a 0 0 0 0 0 0 18.0 15.0 20.0 7.0 3.0 58.0 47.0 30.0 116.0 c 0 0 0 0 0 0 93.0 47.0 0.0 182.0 195.0 136.0 17.0 71.0 34.0 g 0 0 0 0 0 0 27.0 12.0 137.0 0.0 0.0 1.0 77.0 41.0 17.0 t 0 0 0 0 0 0 61.0 125.0 42.0 10.0 1.0 4.0 58.0 57.0 32.0

MA0738.1_shift6 (HIC2)
; oligos_7nt_mkv4_m17 versus MA0738.1 (HIC2); m=4/4; ncol2=9; w=8; offset=6; strand=D; shift=6; score=0.415384; ------rTGCCMrsy ; cor=; Ncor= a 0 0 0 0 0 0 2606.0 0.0 494.0 23.0 435.0 1466.0 2493.0 770.0 760.0 c 0 0 0 0 0 0 394.0 117.0 354.0 4891.0 4891.0 3425.0 710.0 2200.0 1732.0 g 0 0 0 0 0 0 2285.0 0.0 4891.0 14.0 0.0 0.0 1290.0 1237.0 1001.0 t 0 0 0 0 0 0 367.0 4891.0 151.0 0.0 59.0 0.0 399.0 684.0 1398.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv4_m17_shift0 (oligos_7nt_mkv4_m17oligos_7nt_mkv4_m17)				; oligos_7nt_mkv4_m17 (oligos_7nt_mkv4_m17oligos_7nt_mkv4_m17); m=0 (reference); ncol1=14; shift=0; ncol=15; sctGCCCTGCCChs- ; Alignment reference a 18 22 35 1 3 0 2 3 1 3 2 3 60 17 0 c 106 113 16 6 206 214 215 16 18 200 215 213 66 86 0 g 59 48 23 208 2 1 1 3 186 5 2 2 25 71 0 t 36 36 145 4 8 4 1 197 14 11 0 1 68 45 0
MA1513.1_shift3 (KLF15)				; oligos_7nt_mkv4_m17 versus MA1513.1 (KLF15); m=1/4; ncol2=11; w=11; offset=3; strand=D; shift=3; score=0.625281; ---scCCCGCCCcs- ; cor=; Ncor= a 0 0 0 1184.0 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 1566.0 1067.0 0 c 0 0 0 2903.0 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 6267.0 5013.0 0 g 0 0 0 5538.0 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 1934.0 3124.0 0 t 0 0 0 1744.0 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0 1602.0 2165.0 0
MA0599.1_shift3 (KLF5)				; oligos_7nt_mkv4_m17 versus MA0599.1 (KLF5); m=2/4; ncol2=10; w=10; offset=3; strand=D; shift=3; score=0.547342; ---gCCMCrCCCh-- ; cor=; Ncor= a 0 0 0 1429.0 0.0 0.0 3477.0 0.0 5051.0 0.0 0.0 0.0 3915.0 0 0 c 0 0 0 2023.0 11900.0 12008.0 9569.0 13611.0 0.0 13611.0 13611.0 13135.0 5595.0 0 0 g 0 0 0 7572.0 0.0 0.0 0.0 0.0 5182.0 0.0 0.0 0.0 0.0 0 0 t 0 0 0 2587.0 1711.0 1603.0 565.0 0.0 3378.0 0.0 0.0 476.0 4101.0 0 0
MA0597.1_shift6 (THAP1)				; oligos_7nt_mkv4_m17 versus MA0597.1 (THAP1); m=3/4; ncol2=9; w=8; offset=6; strand=D; shift=6; score=0.474343; ------ytGCCMkya ; cor=; Ncor= a 0 0 0 0 0 0 18.0 15.0 20.0 7.0 3.0 58.0 47.0 30.0 116.0 c 0 0 0 0 0 0 93.0 47.0 0.0 182.0 195.0 136.0 17.0 71.0 34.0 g 0 0 0 0 0 0 27.0 12.0 137.0 0.0 0.0 1.0 77.0 41.0 17.0 t 0 0 0 0 0 0 61.0 125.0 42.0 10.0 1.0 4.0 58.0 57.0 32.0
MA0738.1_shift6 (HIC2)				; oligos_7nt_mkv4_m17 versus MA0738.1 (HIC2); m=4/4; ncol2=9; w=8; offset=6; strand=D; shift=6; score=0.415384; ------rTGCCMrsy ; cor=; Ncor= a 0 0 0 0 0 0 2606.0 0.0 494.0 23.0 435.0 1466.0 2493.0 770.0 760.0 c 0 0 0 0 0 0 394.0 117.0 354.0 4891.0 4891.0 3425.0 710.0 2200.0 1732.0 g 0 0 0 0 0 0 2285.0 0.0 4891.0 14.0 0.0 0.0 1290.0 1237.0 1001.0 t 0 0 0 0 0 0 367.0 4891.0 151.0 0.0 59.0 0.0 399.0 684.0 1398.0