One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep2_motifs50/results/discovered_motifs/dyads_m44/peak-motifs_dyads_m44.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/dyads_m44/peak-motifs_dyads_m44_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: dyads_m44_shift1 ; 6 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
dyads_m44_shift1 (dyads_m44dyads_m44)
; dyads_m44 (dyads_m44dyads_m44); m=0 (reference); ncol1=12; shift=1; ncol=13; -rgCAGCAGCAgc ; Alignment reference a 0 118 47 10 311 0 0 315 0 0 285 36 36 c 0 65 73 284 2 0 314 0 0 314 10 36 176 g 0 91 136 10 2 314 0 0 315 1 19 210 67 t 0 41 59 11 0 1 1 0 0 0 1 33 36

MA1628.1_shift1 (Zic1::Zic2)
; dyads_m44 versus MA1628.1 (Zic1::Zic2); m=1/5; ncol2=11; w=11; offset=0; strand=D; shift=1; score=0.676587; -cvCAGCAGGsr- ; cor=; Ncor= a 0 2072.0 3057.0 29.0 9238.0 96.0 75.0 8950.0 11.0 46.0 2429.0 2524.0 0 c 0 4620.0 2589.0 9594.0 384.0 195.0 9293.0 311.0 512.0 91.0 2516.0 2154.0 0 g 0 2206.0 2773.0 106.0 266.0 9527.0 96.0 627.0 9279.0 9631.0 2775.0 3506.0 0 t 0 994.0 1473.0 163.0 4.0 74.0 428.0 4.0 90.0 124.0 2172.0 1708.0 0

MA1646.1_shift0 (OSR2)
; dyads_m44 versus MA1646.1 (OSR2); m=2/5; ncol2=12; w=11; offset=-1; strand=D; shift=0; score=0.638512; amaCAGAAGChr- ; cor=; Ncor= a 4437.0 4244.0 8520.0 254.0 13599.0 216.0 11678.0 13725.0 416.0 666.0 4386.0 4048.0 0 c 3641.0 4206.0 2221.0 13937.0 197.0 229.0 703.0 288.0 170.0 12109.0 4274.0 3304.0 0 g 3246.0 3006.0 2117.0 406.0 737.0 14206.0 901.0 516.0 13982.0 841.0 2266.0 4726.0 0 t 3484.0 3352.0 1950.0 211.0 275.0 157.0 1526.0 279.0 240.0 1192.0 3882.0 2730.0 0

MA1542.1_rc_shift1 (OSR1_rc)
; dyads_m44 versus MA1542.1_rc (OSR1_rc); m=3/5; ncol2=10; w=10; offset=0; strand=R; shift=1; score=0.584168; -mACrGTAGCr-- ; cor=; Ncor= a 0 1731.0 4890.0 24.0 2787.0 0.0 444.0 4890.0 18.0 17.0 1843.0 0 0 c 0 1512.0 504.0 4890.0 5.0 0.0 38.0 0.0 0.0 4890.0 717.0 0 0 g 0 545.0 612.0 4.0 2103.0 4890.0 83.0 99.0 4890.0 235.0 1302.0 0 0 t 0 1102.0 407.0 62.0 0.0 10.0 4890.0 4.0 0.0 448.0 1028.0 0 0

MA0816.1_rc_shift4 (Ascl2_rc)
; dyads_m44 versus MA0816.1_rc (Ascl2_rc); m=4/5; ncol2=10; w=9; offset=3; strand=R; shift=4; score=0.528508; ----rrCAGCTGy ; cor=; Ncor= a 0 0 0 0 199.0 94.0 2.0 300.0 1.0 18.0 15.0 1.0 1.0 c 0 0 0 0 28.0 15.0 300.0 0.0 2.0 300.0 0.0 0.0 172.0 g 0 0 0 0 101.0 206.0 1.0 0.0 300.0 23.0 0.0 300.0 41.0 t 0 0 0 0 34.0 6.0 0.0 4.0 3.0 7.0 300.0 3.0 128.0

MA0048.2_rc_shift4 (NHLH1_rc)
; dyads_m44 versus MA0048.2_rc (NHLH1_rc); m=5/5; ncol2=10; w=9; offset=3; strand=R; shift=4; score=0.499421; ----mGCAGCTGC ; cor=; Ncor= a 0 0 0 0 1489.0 350.0 1.0 2166.0 0.0 114.0 0.0 0.0 142.0 c 0 0 0 0 2166.0 102.0 2166.0 4.0 124.0 2166.0 1.0 0.0 2166.0 g 0 0 0 0 736.0 2166.0 4.0 4.0 2166.0 301.0 3.0 2166.0 179.0 t 0 0 0 0 308.0 296.0 2.0 0.0 96.0 0.0 2166.0 3.0 461.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
dyads_m44_shift1 (dyads_m44dyads_m44)				; dyads_m44 (dyads_m44dyads_m44); m=0 (reference); ncol1=12; shift=1; ncol=13; -rgCAGCAGCAgc ; Alignment reference a 0 118 47 10 311 0 0 315 0 0 285 36 36 c 0 65 73 284 2 0 314 0 0 314 10 36 176 g 0 91 136 10 2 314 0 0 315 1 19 210 67 t 0 41 59 11 0 1 1 0 0 0 1 33 36
MA1628.1_shift1 (Zic1::Zic2)				; dyads_m44 versus MA1628.1 (Zic1::Zic2); m=1/5; ncol2=11; w=11; offset=0; strand=D; shift=1; score=0.676587; -cvCAGCAGGsr- ; cor=; Ncor= a 0 2072.0 3057.0 29.0 9238.0 96.0 75.0 8950.0 11.0 46.0 2429.0 2524.0 0 c 0 4620.0 2589.0 9594.0 384.0 195.0 9293.0 311.0 512.0 91.0 2516.0 2154.0 0 g 0 2206.0 2773.0 106.0 266.0 9527.0 96.0 627.0 9279.0 9631.0 2775.0 3506.0 0 t 0 994.0 1473.0 163.0 4.0 74.0 428.0 4.0 90.0 124.0 2172.0 1708.0 0
MA1646.1_shift0 (OSR2)				; dyads_m44 versus MA1646.1 (OSR2); m=2/5; ncol2=12; w=11; offset=-1; strand=D; shift=0; score=0.638512; amaCAGAAGChr- ; cor=; Ncor= a 4437.0 4244.0 8520.0 254.0 13599.0 216.0 11678.0 13725.0 416.0 666.0 4386.0 4048.0 0 c 3641.0 4206.0 2221.0 13937.0 197.0 229.0 703.0 288.0 170.0 12109.0 4274.0 3304.0 0 g 3246.0 3006.0 2117.0 406.0 737.0 14206.0 901.0 516.0 13982.0 841.0 2266.0 4726.0 0 t 3484.0 3352.0 1950.0 211.0 275.0 157.0 1526.0 279.0 240.0 1192.0 3882.0 2730.0 0
MA1542.1_rc_shift1 (OSR1_rc)				; dyads_m44 versus MA1542.1_rc (OSR1_rc); m=3/5; ncol2=10; w=10; offset=0; strand=R; shift=1; score=0.584168; -mACrGTAGCr-- ; cor=; Ncor= a 0 1731.0 4890.0 24.0 2787.0 0.0 444.0 4890.0 18.0 17.0 1843.0 0 0 c 0 1512.0 504.0 4890.0 5.0 0.0 38.0 0.0 0.0 4890.0 717.0 0 0 g 0 545.0 612.0 4.0 2103.0 4890.0 83.0 99.0 4890.0 235.0 1302.0 0 0 t 0 1102.0 407.0 62.0 0.0 10.0 4890.0 4.0 0.0 448.0 1028.0 0 0
MA0816.1_rc_shift4 (Ascl2_rc)				; dyads_m44 versus MA0816.1_rc (Ascl2_rc); m=4/5; ncol2=10; w=9; offset=3; strand=R; shift=4; score=0.528508; ----rrCAGCTGy ; cor=; Ncor= a 0 0 0 0 199.0 94.0 2.0 300.0 1.0 18.0 15.0 1.0 1.0 c 0 0 0 0 28.0 15.0 300.0 0.0 2.0 300.0 0.0 0.0 172.0 g 0 0 0 0 101.0 206.0 1.0 0.0 300.0 23.0 0.0 300.0 41.0 t 0 0 0 0 34.0 6.0 0.0 4.0 3.0 7.0 300.0 3.0 128.0
MA0048.2_rc_shift4 (NHLH1_rc)				; dyads_m44 versus MA0048.2_rc (NHLH1_rc); m=5/5; ncol2=10; w=9; offset=3; strand=R; shift=4; score=0.499421; ----mGCAGCTGC ; cor=; Ncor= a 0 0 0 0 1489.0 350.0 1.0 2166.0 0.0 114.0 0.0 0.0 142.0 c 0 0 0 0 2166.0 102.0 2166.0 4.0 124.0 2166.0 1.0 0.0 2166.0 g 0 0 0 0 736.0 2166.0 4.0 4.0 2166.0 301.0 3.0 2166.0 179.0 t 0 0 0 0 308.0 296.0 2.0 0.0 96.0 0.0 2166.0 3.0 461.0