One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep2_motifs50/results/discovered_motifs/oligos_6nt_mkv3_m37/peak-motifs_oligos_6nt_mkv3_m37.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_6nt_mkv3_m37/peak-motifs_oligos_6nt_mkv3_m37_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m37_shift1 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m37_shift1 (oligos_6nt_mkv3_m37oligos_6nt_mkv3_m37)
; oligos_6nt_mkv3_m37 (oligos_6nt_mkv3_m37oligos_6nt_mkv3_m37); m=0 (reference); ncol1=11; shift=1; ncol=13; -ssCGmGCGCss- ; Alignment reference a 0 50 26 2 2 169 9 1 0 27 34 37 0 c 0 139 108 310 0 86 13 315 5 250 102 105 0 g 0 97 164 9 319 50 293 4 315 28 159 142 0 t 0 35 23 0 0 16 6 1 1 16 26 37 0

MA0506.1_shift0 (NRF1)
; oligos_6nt_mkv3_m37 versus MA0506.1 (NRF1); m=1/3; ncol2=11; w=10; offset=-1; strand=D; shift=0; score=0.598574; GCGCmTGCGCr-- ; cor=; Ncor= a 602.0 623.0 196.0 0.0 1514.0 0.0 0.0 0.0 0.0 74.0 2245.0 0 0 c 375.0 4001.0 189.0 4016.0 1862.0 403.0 0.0 4338.0 349.0 4550.0 804.0 0 0 g 3647.0 0.0 4239.0 468.0 935.0 528.0 4624.0 0.0 4275.0 0.0 1575.0 0 0 t 0.0 0.0 0.0 140.0 313.0 3693.0 0.0 286.0 0.0 0.0 0.0 0 0

MA1650.1_rc_shift2 (ZBTB14_rc)
; oligos_6nt_mkv3_m37 versus MA1650.1_rc (ZBTB14_rc); m=2/3; ncol2=12; w=10; offset=1; strand=R; shift=2; score=0.560882; --ssGTGCGCGGs ; cor=; Ncor= a 0 0 606.0 508.0 123.0 0.0 52.0 67.0 82.0 62.0 59.0 73.0 519.0 c 0 0 1239.0 1451.0 651.0 10.0 261.0 4043.0 319.0 4098.0 155.0 614.0 1555.0 g 0 0 2260.0 1618.0 3674.0 37.0 4178.0 305.0 4078.0 294.0 4292.0 3525.0 1972.0 t 0 0 442.0 970.0 99.0 4500.0 56.0 132.0 68.0 93.0 41.0 335.0 501.0

MA0632.2_rc_shift4 (TCFL5_rc)
; oligos_6nt_mkv3_m37 versus MA0632.2_rc (TCFL5_rc); m=3/3; ncol2=10; w=8; offset=3; strand=R; shift=4; score=0.486811; ----gkGCGCGyG ; cor=; Ncor= a 0 0 0 0 8670.0 25921.0 635.0 0.0 15451.0 0.0 1643.0 9359.0 0.0 c 0 0 0 0 5747.0 19096.0 4594.0 72543.0 0.0 72543.0 0.0 29710.0 0.0 g 0 0 0 0 47538.0 44394.0 72543.0 657.0 57092.0 0.0 72543.0 0.0 72543.0 t 0 0 0 0 10588.0 72543.0 1593.0 3520.0 1765.0 1566.0 0.0 72543.0 0.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m37_shift1 (oligos_6nt_mkv3_m37oligos_6nt_mkv3_m37)				; oligos_6nt_mkv3_m37 (oligos_6nt_mkv3_m37oligos_6nt_mkv3_m37); m=0 (reference); ncol1=11; shift=1; ncol=13; -ssCGmGCGCss- ; Alignment reference a 0 50 26 2 2 169 9 1 0 27 34 37 0 c 0 139 108 310 0 86 13 315 5 250 102 105 0 g 0 97 164 9 319 50 293 4 315 28 159 142 0 t 0 35 23 0 0 16 6 1 1 16 26 37 0
MA0506.1_shift0 (NRF1)				; oligos_6nt_mkv3_m37 versus MA0506.1 (NRF1); m=1/3; ncol2=11; w=10; offset=-1; strand=D; shift=0; score=0.598574; GCGCmTGCGCr-- ; cor=; Ncor= a 602.0 623.0 196.0 0.0 1514.0 0.0 0.0 0.0 0.0 74.0 2245.0 0 0 c 375.0 4001.0 189.0 4016.0 1862.0 403.0 0.0 4338.0 349.0 4550.0 804.0 0 0 g 3647.0 0.0 4239.0 468.0 935.0 528.0 4624.0 0.0 4275.0 0.0 1575.0 0 0 t 0.0 0.0 0.0 140.0 313.0 3693.0 0.0 286.0 0.0 0.0 0.0 0 0
MA1650.1_rc_shift2 (ZBTB14_rc)				; oligos_6nt_mkv3_m37 versus MA1650.1_rc (ZBTB14_rc); m=2/3; ncol2=12; w=10; offset=1; strand=R; shift=2; score=0.560882; --ssGTGCGCGGs ; cor=; Ncor= a 0 0 606.0 508.0 123.0 0.0 52.0 67.0 82.0 62.0 59.0 73.0 519.0 c 0 0 1239.0 1451.0 651.0 10.0 261.0 4043.0 319.0 4098.0 155.0 614.0 1555.0 g 0 0 2260.0 1618.0 3674.0 37.0 4178.0 305.0 4078.0 294.0 4292.0 3525.0 1972.0 t 0 0 442.0 970.0 99.0 4500.0 56.0 132.0 68.0 93.0 41.0 335.0 501.0
MA0632.2_rc_shift4 (TCFL5_rc)				; oligos_6nt_mkv3_m37 versus MA0632.2_rc (TCFL5_rc); m=3/3; ncol2=10; w=8; offset=3; strand=R; shift=4; score=0.486811; ----gkGCGCGyG ; cor=; Ncor= a 0 0 0 0 8670.0 25921.0 635.0 0.0 15451.0 0.0 1643.0 9359.0 0.0 c 0 0 0 0 5747.0 19096.0 4594.0 72543.0 0.0 72543.0 0.0 29710.0 0.0 g 0 0 0 0 47538.0 44394.0 72543.0 657.0 57092.0 0.0 72543.0 0.0 72543.0 t 0 0 0 0 10588.0 72543.0 1593.0 3520.0 1765.0 1566.0 0.0 72543.0 0.0