One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep2_motifs50/results/discovered_motifs/oligos_6nt_mkv3_m31/peak-motifs_oligos_6nt_mkv3_m31.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_m31/peak-motifs_oligos_6nt_mkv3_m31_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m31_shift4 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m31_shift4 (oligos_6nt_mkv3_m31oligos_6nt_mkv3_m31)
; oligos_6nt_mkv3_m31 (oligos_6nt_mkv3_m31oligos_6nt_mkv3_m31); m=0 (reference); ncol1=12; shift=4; ncol=17; ----srgAAGCCAcvs- ; Alignment reference a 0 0 0 0 83 115 58 385 385 4 0 4 388 37 141 70 0 c 0 0 0 0 125 89 51 6 6 4 390 385 3 262 109 115 0 g 0 0 0 0 117 130 260 4 1 386 5 7 3 74 102 125 0 t 0 0 0 0 72 63 28 2 5 3 2 1 3 24 45 87 0

MA1597.1_shift0 (ZNF528)
; oligos_6nt_mkv3_m31 versus MA1597.1 (ZNF528); m=1/3; ncol2=17; w=12; offset=-4; strand=D; shift=0; score=0.508703; cccAGGGAAGcCATTtC ; cor=; Ncor= a 84.0 69.0 100.0 524.0 32.0 7.0 22.0 608.0 579.0 5.0 35.0 15.0 606.0 11.0 1.0 11.0 16.0 c 380.0 367.0 404.0 12.0 3.0 5.0 2.0 3.0 4.0 1.0 414.0 590.0 2.0 47.0 97.0 129.0 558.0 g 66.0 87.0 64.0 61.0 573.0 598.0 590.0 3.0 26.0 608.0 54.0 3.0 7.0 11.0 14.0 62.0 8.0 t 86.0 93.0 48.0 19.0 8.0 6.0 2.0 2.0 7.0 2.0 113.0 8.0 1.0 547.0 504.0 414.0 34.0

MA0002.2_rc_shift7 (RUNX1_rc)
; oligos_6nt_mkv3_m31 versus MA0002.2_rc (RUNX1_rc); m=2/3; ncol2=11; w=9; offset=3; strand=R; shift=7; score=0.469848; -------waaCCACAra ; cor=; Ncor= a 0 0 0 0 0 0 0 1053.0 1325.0 1339.0 93.0 13.0 1716.0 53.0 1936.0 656.0 814.0 c 0 0 0 0 0 0 0 289.0 81.0 251.0 1848.0 1987.0 70.0 1872.0 7.0 149.0 467.0 g 0 0 0 0 0 0 0 158.0 463.0 400.0 42.0 0.0 127.0 75.0 0.0 1072.0 485.0 t 0 0 0 0 0 0 0 500.0 131.0 10.0 17.0 0.0 87.0 0.0 57.0 123.0 234.0

MA0079.4_shift6 (SP1)
; oligos_6nt_mkv3_m31 versus MA0079.4 (SP1); m=3/3; ncol2=15; w=10; offset=2; strand=D; shift=6; score=0.418285; ------ywrRCCACGCC ; cor=; Ncor= a 0 0 0 0 0 0 7866.0 28233.0 28895.0 14584.0 962.0 55.0 42154.0 0.0 959.0 0.0 8.0 c 0 0 0 0 0 0 13273.0 1872.0 1530.0 0.0 48854.0 49649.0 12672.0 49660.0 0.0 49666.0 49662.0 g 0 0 0 0 0 0 9691.0 999.0 19477.0 37543.0 82.0 0.0 0.0 0.0 48957.0 0.0 0.0 t 0 0 0 0 0 0 18833.0 19877.0 1184.0 153.0 124.0 1670.0 0.0 31.0 867.0 17.0 0.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m31_shift4 (oligos_6nt_mkv3_m31oligos_6nt_mkv3_m31)				; oligos_6nt_mkv3_m31 (oligos_6nt_mkv3_m31oligos_6nt_mkv3_m31); m=0 (reference); ncol1=12; shift=4; ncol=17; ----srgAAGCCAcvs- ; Alignment reference a 0 0 0 0 83 115 58 385 385 4 0 4 388 37 141 70 0 c 0 0 0 0 125 89 51 6 6 4 390 385 3 262 109 115 0 g 0 0 0 0 117 130 260 4 1 386 5 7 3 74 102 125 0 t 0 0 0 0 72 63 28 2 5 3 2 1 3 24 45 87 0
MA1597.1_shift0 (ZNF528)				; oligos_6nt_mkv3_m31 versus MA1597.1 (ZNF528); m=1/3; ncol2=17; w=12; offset=-4; strand=D; shift=0; score=0.508703; cccAGGGAAGcCATTtC ; cor=; Ncor= a 84.0 69.0 100.0 524.0 32.0 7.0 22.0 608.0 579.0 5.0 35.0 15.0 606.0 11.0 1.0 11.0 16.0 c 380.0 367.0 404.0 12.0 3.0 5.0 2.0 3.0 4.0 1.0 414.0 590.0 2.0 47.0 97.0 129.0 558.0 g 66.0 87.0 64.0 61.0 573.0 598.0 590.0 3.0 26.0 608.0 54.0 3.0 7.0 11.0 14.0 62.0 8.0 t 86.0 93.0 48.0 19.0 8.0 6.0 2.0 2.0 7.0 2.0 113.0 8.0 1.0 547.0 504.0 414.0 34.0
MA0002.2_rc_shift7 (RUNX1_rc)				; oligos_6nt_mkv3_m31 versus MA0002.2_rc (RUNX1_rc); m=2/3; ncol2=11; w=9; offset=3; strand=R; shift=7; score=0.469848; -------waaCCACAra ; cor=; Ncor= a 0 0 0 0 0 0 0 1053.0 1325.0 1339.0 93.0 13.0 1716.0 53.0 1936.0 656.0 814.0 c 0 0 0 0 0 0 0 289.0 81.0 251.0 1848.0 1987.0 70.0 1872.0 7.0 149.0 467.0 g 0 0 0 0 0 0 0 158.0 463.0 400.0 42.0 0.0 127.0 75.0 0.0 1072.0 485.0 t 0 0 0 0 0 0 0 500.0 131.0 10.0 17.0 0.0 87.0 0.0 57.0 123.0 234.0
MA0079.4_shift6 (SP1)				; oligos_6nt_mkv3_m31 versus MA0079.4 (SP1); m=3/3; ncol2=15; w=10; offset=2; strand=D; shift=6; score=0.418285; ------ywrRCCACGCC ; cor=; Ncor= a 0 0 0 0 0 0 7866.0 28233.0 28895.0 14584.0 962.0 55.0 42154.0 0.0 959.0 0.0 8.0 c 0 0 0 0 0 0 13273.0 1872.0 1530.0 0.0 48854.0 49649.0 12672.0 49660.0 0.0 49666.0 49662.0 g 0 0 0 0 0 0 9691.0 999.0 19477.0 37543.0 82.0 0.0 0.0 0.0 48957.0 0.0 0.0 t 0 0 0 0 0 0 18833.0 19877.0 1184.0 153.0 124.0 1670.0 0.0 31.0 867.0 17.0 0.0