One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep3_motifs50/results/discovered_motifs/dyads_m23/peak-motifs_dyads_m23.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_Rep3_motifs50/results/discovered_motifs/dyads_m23/peak-motifs_dyads_m23_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: dyads_m23_shift2 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
dyads_m23_shift2 (dyads_m23dyads_m23)
; dyads_m23 (dyads_m23dyads_m23); m=0 (reference); ncol1=12; shift=2; ncol=14; --gMACAcTGTAGr ; Alignment reference a 0 0 21 26 95 0 95 5 6 0 0 95 10 47 c 0 0 21 67 0 95 0 55 1 0 0 0 2 3 g 0 0 50 0 0 0 0 14 4 95 0 0 67 44 t 0 0 3 2 0 0 0 21 84 0 95 0 16 1

MA1580.1_rc_shift4 (ZBTB32_rc)
; dyads_m23 versus MA1580.1_rc (ZBTB32_rc); m=1/3; ncol2=10; w=10; offset=2; strand=R; shift=4; score=0.59564; ----wtACTGTACa ; cor=; Ncor= a 0 0 0 0 1574.0 339.0 3558.0 6.0 8.0 0.0 0.0 3563.0 156.0 1849.0 c 0 0 0 0 215.0 723.0 0.0 3562.0 4.0 1.0 0.0 3.0 3057.0 65.0 g 0 0 0 0 213.0 109.0 4.0 3.0 3.0 3560.0 5.0 1.0 3.0 764.0 t 0 0 0 0 1559.0 2390.0 0.0 0.0 3556.0 0.0 3560.0 5.0 356.0 882.0

MA1585.1_shift6 (ZKSCAN1)
; dyads_m23 versus MA1585.1 (ZKSCAN1); m=2/3; ncol2=10; w=8; offset=4; strand=D; shift=6; score=0.415471; ------AyAGTAGG ; cor=; Ncor= a 0 0 0 0 0 0 4633.0 187.0 6054.0 18.0 0.0 6079.0 12.0 13.0 c 0 0 0 0 0 0 456.0 2268.0 53.0 5.0 0.0 48.0 101.0 12.0 g 0 0 0 0 0 0 584.0 364.0 20.0 6092.0 0.0 0.0 5980.0 6075.0 t 0 0 0 0 0 0 454.0 3308.0 0.0 12.0 6127.0 0.0 34.0 27.0

MA1562.1_shift0 (SOX14)
; dyads_m23 versus MA1562.1 (SOX14); m=3/3; ncol2=10; w=8; offset=-2; strand=D; shift=0; score=0.413424; cCGAACAATg---- ; cor=; Ncor= a 265.0 68.0 44.0 594.0 594.0 4.0 594.0 594.0 0.0 75.0 0 0 0 0 c 594.0 594.0 18.0 8.0 13.0 594.0 0.0 17.0 2.0 67.0 0 0 0 0 g 214.0 44.0 594.0 27.0 0.0 10.0 0.0 0.0 16.0 372.0 0 0 0 0 t 182.0 99.0 70.0 37.0 19.0 17.0 0.0 5.0 594.0 80.0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
dyads_m23_shift2 (dyads_m23dyads_m23)				; dyads_m23 (dyads_m23dyads_m23); m=0 (reference); ncol1=12; shift=2; ncol=14; --gMACAcTGTAGr ; Alignment reference a 0 0 21 26 95 0 95 5 6 0 0 95 10 47 c 0 0 21 67 0 95 0 55 1 0 0 0 2 3 g 0 0 50 0 0 0 0 14 4 95 0 0 67 44 t 0 0 3 2 0 0 0 21 84 0 95 0 16 1
MA1580.1_rc_shift4 (ZBTB32_rc)				; dyads_m23 versus MA1580.1_rc (ZBTB32_rc); m=1/3; ncol2=10; w=10; offset=2; strand=R; shift=4; score=0.59564; ----wtACTGTACa ; cor=; Ncor= a 0 0 0 0 1574.0 339.0 3558.0 6.0 8.0 0.0 0.0 3563.0 156.0 1849.0 c 0 0 0 0 215.0 723.0 0.0 3562.0 4.0 1.0 0.0 3.0 3057.0 65.0 g 0 0 0 0 213.0 109.0 4.0 3.0 3.0 3560.0 5.0 1.0 3.0 764.0 t 0 0 0 0 1559.0 2390.0 0.0 0.0 3556.0 0.0 3560.0 5.0 356.0 882.0
MA1585.1_shift6 (ZKSCAN1)				; dyads_m23 versus MA1585.1 (ZKSCAN1); m=2/3; ncol2=10; w=8; offset=4; strand=D; shift=6; score=0.415471; ------AyAGTAGG ; cor=; Ncor= a 0 0 0 0 0 0 4633.0 187.0 6054.0 18.0 0.0 6079.0 12.0 13.0 c 0 0 0 0 0 0 456.0 2268.0 53.0 5.0 0.0 48.0 101.0 12.0 g 0 0 0 0 0 0 584.0 364.0 20.0 6092.0 0.0 0.0 5980.0 6075.0 t 0 0 0 0 0 0 454.0 3308.0 0.0 12.0 6127.0 0.0 34.0 27.0
MA1562.1_shift0 (SOX14)				; dyads_m23 versus MA1562.1 (SOX14); m=3/3; ncol2=10; w=8; offset=-2; strand=D; shift=0; score=0.413424; cCGAACAATg---- ; cor=; Ncor= a 265.0 68.0 44.0 594.0 594.0 4.0 594.0 594.0 0.0 75.0 0 0 0 0 c 594.0 594.0 18.0 8.0 13.0 594.0 0.0 17.0 2.0 67.0 0 0 0 0 g 214.0 44.0 594.0 27.0 0.0 10.0 0.0 0.0 16.0 372.0 0 0 0 0 t 182.0 99.0 70.0 37.0 19.0 17.0 0.0 5.0 594.0 80.0 0 0 0 0