One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep3_motifs50/results/discovered_motifs/oligos_8nt_mkv2_m4/peak-motifs_oligos_8nt_mkv2_m4.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/oligos_8nt_mkv2_m4/peak-motifs_oligos_8nt_mkv2_m4_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_8nt_mkv2_m4_shift4 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_8nt_mkv2_m4_shift4 (oligos_8nt_mkv2_m4oligos_8nt_mkv2_m4)
; oligos_8nt_mkv2_m4 (oligos_8nt_mkv2_m4oligos_8nt_mkv2_m4); m=0 (reference); ncol1=13; shift=4; ncol=17; ----WAmACTGAAAAwC ; Alignment reference a 0 0 0 0 90 95 51 131 14 2 3 130 130 127 126 83 5 c 0 0 0 0 6 1 77 0 115 0 0 0 1 1 3 3 92 g 0 0 0 0 2 11 0 0 2 11 126 1 0 2 1 1 30 t 0 0 0 0 33 24 3 0 0 118 2 0 0 1 1 44 4

MA1623.1_shift3 (Stat2)
; oligos_8nt_mkv2_m4 versus MA1623.1 (Stat2); m=1/3; ncol2=13; w=12; offset=-1; strand=D; shift=3; score=0.609155; ---rgAAACAGAAAsw- ; cor=; Ncor= a 0 0 0 1605.0 969.0 3554.0 3736.0 3738.0 286.0 3146.0 152.0 3700.0 3747.0 3514.0 740.0 1262.0 0 c 0 0 0 538.0 306.0 76.0 75.0 72.0 2907.0 151.0 45.0 49.0 45.0 147.0 1502.0 758.0 0 g 0 0 0 1125.0 2287.0 168.0 71.0 87.0 524.0 74.0 3707.0 163.0 98.0 157.0 1180.0 591.0 0 t 0 0 0 691.0 397.0 161.0 77.0 62.0 242.0 588.0 55.0 47.0 69.0 141.0 537.0 1348.0 0

MA1155.1_shift0 (ZSCAN4)
; oligos_8nt_mkv2_m4 versus MA1155.1 (ZSCAN4); m=2/3; ncol2=15; w=11; offset=-4; strand=D; shift=0; score=0.500037; tGCACACmCTGaAAa-- ; cor=; Ncor= a 257.0 290.0 0.0 1292.0 0.0 1281.0 3.0 772.0 7.0 8.0 3.0 1118.0 1225.0 1269.0 1000.0 0 0 c 383.0 2.0 1676.0 0.0 1665.0 0.0 1702.0 374.0 1684.0 11.0 50.0 107.0 279.0 0.0 200.0 0 0 g 112.0 1737.0 1.0 0.0 0.0 2.0 0.0 320.0 0.0 75.0 1873.0 230.0 0.0 2.0 365.0 0 0 t 1373.0 0.0 0.0 2.0 0.0 2.0 73.0 8.0 2.0 1699.0 218.0 362.0 6.0 1.0 229.0 0 0

MA0152.1_rc_shift9 (NFATC2_rc)
; oligos_8nt_mkv2_m4 versus MA0152.1_rc (NFATC2_rc); m=3/3; ncol2=7; w=7; offset=5; strand=R; shift=9; score=0.402833; ---------TGGAAAA- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 4.0 0.0 0.0 26.0 24.0 21.0 20.0 0 c 0 0 0 0 0 0 0 0 0 1.0 0.0 0.0 0.0 0.0 2.0 2.0 0 g 0 0 0 0 0 0 0 0 0 3.0 26.0 25.0 0.0 1.0 2.0 1.0 0 t 0 0 0 0 0 0 0 0 0 18.0 0.0 1.0 0.0 1.0 1.0 3.0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_8nt_mkv2_m4_shift4 (oligos_8nt_mkv2_m4oligos_8nt_mkv2_m4)				; oligos_8nt_mkv2_m4 (oligos_8nt_mkv2_m4oligos_8nt_mkv2_m4); m=0 (reference); ncol1=13; shift=4; ncol=17; ----WAmACTGAAAAwC ; Alignment reference a 0 0 0 0 90 95 51 131 14 2 3 130 130 127 126 83 5 c 0 0 0 0 6 1 77 0 115 0 0 0 1 1 3 3 92 g 0 0 0 0 2 11 0 0 2 11 126 1 0 2 1 1 30 t 0 0 0 0 33 24 3 0 0 118 2 0 0 1 1 44 4
MA1623.1_shift3 (Stat2)				; oligos_8nt_mkv2_m4 versus MA1623.1 (Stat2); m=1/3; ncol2=13; w=12; offset=-1; strand=D; shift=3; score=0.609155; ---rgAAACAGAAAsw- ; cor=; Ncor= a 0 0 0 1605.0 969.0 3554.0 3736.0 3738.0 286.0 3146.0 152.0 3700.0 3747.0 3514.0 740.0 1262.0 0 c 0 0 0 538.0 306.0 76.0 75.0 72.0 2907.0 151.0 45.0 49.0 45.0 147.0 1502.0 758.0 0 g 0 0 0 1125.0 2287.0 168.0 71.0 87.0 524.0 74.0 3707.0 163.0 98.0 157.0 1180.0 591.0 0 t 0 0 0 691.0 397.0 161.0 77.0 62.0 242.0 588.0 55.0 47.0 69.0 141.0 537.0 1348.0 0
MA1155.1_shift0 (ZSCAN4)				; oligos_8nt_mkv2_m4 versus MA1155.1 (ZSCAN4); m=2/3; ncol2=15; w=11; offset=-4; strand=D; shift=0; score=0.500037; tGCACACmCTGaAAa-- ; cor=; Ncor= a 257.0 290.0 0.0 1292.0 0.0 1281.0 3.0 772.0 7.0 8.0 3.0 1118.0 1225.0 1269.0 1000.0 0 0 c 383.0 2.0 1676.0 0.0 1665.0 0.0 1702.0 374.0 1684.0 11.0 50.0 107.0 279.0 0.0 200.0 0 0 g 112.0 1737.0 1.0 0.0 0.0 2.0 0.0 320.0 0.0 75.0 1873.0 230.0 0.0 2.0 365.0 0 0 t 1373.0 0.0 0.0 2.0 0.0 2.0 73.0 8.0 2.0 1699.0 218.0 362.0 6.0 1.0 229.0 0 0
MA0152.1_rc_shift9 (NFATC2_rc)				; oligos_8nt_mkv2_m4 versus MA0152.1_rc (NFATC2_rc); m=3/3; ncol2=7; w=7; offset=5; strand=R; shift=9; score=0.402833; ---------TGGAAAA- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 4.0 0.0 0.0 26.0 24.0 21.0 20.0 0 c 0 0 0 0 0 0 0 0 0 1.0 0.0 0.0 0.0 0.0 2.0 2.0 0 g 0 0 0 0 0 0 0 0 0 3.0 26.0 25.0 0.0 1.0 2.0 1.0 0 t 0 0 0 0 0 0 0 0 0 18.0 0.0 1.0 0.0 1.0 1.0 3.0 0