One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_8nt_mkv6_m6/peak-motifs_oligos_8nt_mkv6_m6.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_m6/peak-motifs_oligos_8nt_mkv6_m6_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_8nt_mkv6_m6_shift3 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_8nt_mkv6_m6_shift3 (oligos_8nt_mkv6_m6oligos_8nt_mkv6_m6)
; oligos_8nt_mkv6_m6 (oligos_8nt_mkv6_m6oligos_8nt_mkv6_m6); m=0 (reference); ncol1=12; shift=3; ncol=15; ---ygCGCATGCGcr ; Alignment reference a 0 0 0 282 449 31 44 28 1854 72 14 7 23 186 779 c 0 0 0 1117 403 2637 31 2600 300 500 84 2644 35 1688 548 g 0 0 0 548 1688 35 2644 84 500 300 2600 31 2637 403 1117 t 0 0 0 779 186 23 7 14 72 1854 28 44 31 449 282

MA0506.1_shift4 (NRF1)
; oligos_8nt_mkv6_m6 versus MA0506.1 (NRF1); m=1/3; ncol2=11; w=11; offset=1; strand=D; shift=4; score=0.866495; ----GCGCmTGCGCr ; cor=; Ncor= a 0 0 0 0 602.0 623.0 196.0 0.0 1514.0 0.0 0.0 0.0 0.0 74.0 2245.0 c 0 0 0 0 375.0 4001.0 189.0 4016.0 1862.0 403.0 0.0 4338.0 349.0 4550.0 804.0 g 0 0 0 0 3647.0 0.0 4239.0 468.0 935.0 528.0 4624.0 0.0 4275.0 0.0 1575.0 t 0 0 0 0 0.0 0.0 0.0 140.0 313.0 3693.0 0.0 286.0 0.0 0.0 0.0

MA0632.2_rc_shift2 (TCFL5_rc)
; oligos_8nt_mkv6_m6 versus MA0632.2_rc (TCFL5_rc); m=2/3; ncol2=10; w=9; offset=-1; strand=R; shift=2; score=0.515345; --gkGCGCGyGm--- ; cor=; Ncor= a 0 0 8670.0 25921.0 635.0 0.0 15451.0 0.0 1643.0 9359.0 0.0 36854.0 0 0 0 c 0 0 5747.0 19096.0 4594.0 72543.0 0.0 72543.0 0.0 29710.0 0.0 22297.0 0 0 0 g 0 0 47538.0 44394.0 72543.0 657.0 57092.0 0.0 72543.0 0.0 72543.0 10582.0 0 0 0 t 0 0 10588.0 72543.0 1593.0 3520.0 1765.0 1566.0 0.0 72543.0 0.0 2810.0 0 0 0

MA1650.1_shift0 (ZBTB14)
; oligos_8nt_mkv6_m6 versus MA1650.1 (ZBTB14); m=3/3; ncol2=12; w=9; offset=-3; strand=D; shift=0; score=0.430312; ssCCGCGCACss--- ; cor=; Ncor= a 570.0 501.0 335.0 41.0 93.0 68.0 132.0 56.0 4500.0 99.0 970.0 442.0 0 0 0 c 1779.0 1972.0 3525.0 4292.0 294.0 4078.0 305.0 4178.0 37.0 3674.0 1618.0 2260.0 0 0 0 g 1668.0 1555.0 614.0 155.0 4098.0 319.0 4043.0 261.0 10.0 651.0 1451.0 1239.0 0 0 0 t 530.0 519.0 73.0 59.0 62.0 82.0 67.0 52.0 0.0 123.0 508.0 606.0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_8nt_mkv6_m6_shift3 (oligos_8nt_mkv6_m6oligos_8nt_mkv6_m6)				; oligos_8nt_mkv6_m6 (oligos_8nt_mkv6_m6oligos_8nt_mkv6_m6); m=0 (reference); ncol1=12; shift=3; ncol=15; ---ygCGCATGCGcr ; Alignment reference a 0 0 0 282 449 31 44 28 1854 72 14 7 23 186 779 c 0 0 0 1117 403 2637 31 2600 300 500 84 2644 35 1688 548 g 0 0 0 548 1688 35 2644 84 500 300 2600 31 2637 403 1117 t 0 0 0 779 186 23 7 14 72 1854 28 44 31 449 282
MA0506.1_shift4 (NRF1)				; oligos_8nt_mkv6_m6 versus MA0506.1 (NRF1); m=1/3; ncol2=11; w=11; offset=1; strand=D; shift=4; score=0.866495; ----GCGCmTGCGCr ; cor=; Ncor= a 0 0 0 0 602.0 623.0 196.0 0.0 1514.0 0.0 0.0 0.0 0.0 74.0 2245.0 c 0 0 0 0 375.0 4001.0 189.0 4016.0 1862.0 403.0 0.0 4338.0 349.0 4550.0 804.0 g 0 0 0 0 3647.0 0.0 4239.0 468.0 935.0 528.0 4624.0 0.0 4275.0 0.0 1575.0 t 0 0 0 0 0.0 0.0 0.0 140.0 313.0 3693.0 0.0 286.0 0.0 0.0 0.0
MA0632.2_rc_shift2 (TCFL5_rc)				; oligos_8nt_mkv6_m6 versus MA0632.2_rc (TCFL5_rc); m=2/3; ncol2=10; w=9; offset=-1; strand=R; shift=2; score=0.515345; --gkGCGCGyGm--- ; cor=; Ncor= a 0 0 8670.0 25921.0 635.0 0.0 15451.0 0.0 1643.0 9359.0 0.0 36854.0 0 0 0 c 0 0 5747.0 19096.0 4594.0 72543.0 0.0 72543.0 0.0 29710.0 0.0 22297.0 0 0 0 g 0 0 47538.0 44394.0 72543.0 657.0 57092.0 0.0 72543.0 0.0 72543.0 10582.0 0 0 0 t 0 0 10588.0 72543.0 1593.0 3520.0 1765.0 1566.0 0.0 72543.0 0.0 2810.0 0 0 0
MA1650.1_shift0 (ZBTB14)				; oligos_8nt_mkv6_m6 versus MA1650.1 (ZBTB14); m=3/3; ncol2=12; w=9; offset=-3; strand=D; shift=0; score=0.430312; ssCCGCGCACss--- ; cor=; Ncor= a 570.0 501.0 335.0 41.0 93.0 68.0 132.0 56.0 4500.0 99.0 970.0 442.0 0 0 0 c 1779.0 1972.0 3525.0 4292.0 294.0 4078.0 305.0 4178.0 37.0 3674.0 1618.0 2260.0 0 0 0 g 1668.0 1555.0 614.0 155.0 4098.0 319.0 4043.0 261.0 10.0 651.0 1451.0 1239.0 0 0 0 t 530.0 519.0 73.0 59.0 62.0 82.0 67.0 52.0 0.0 123.0 508.0 606.0 0 0 0