One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep2_motifs50/results/discovered_motifs/oligos_8nt_mkv5_m26/peak-motifs_oligos_8nt_mkv5_m26.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_8nt_mkv5_m26/peak-motifs_oligos_8nt_mkv5_m26_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_8nt_mkv5_m26_shift1 ; 6 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_8nt_mkv5_m26_shift1 (oligos_8nt_mkv5_m26oligos_8nt_mkv5_m26)
; oligos_8nt_mkv5_m26 (oligos_8nt_mkv5_m26oligos_8nt_mkv5_m26); m=0 (reference); ncol1=12; shift=1; ncol=18; -rrAAGCCACAsc----- ; Alignment reference a 0 84 77 246 248 33 5 1 255 5 239 48 56 0 0 0 0 0 c 0 57 59 0 6 4 242 245 0 250 5 70 92 0 0 0 0 0 g 0 67 68 4 1 210 6 10 2 2 14 95 53 0 0 0 0 0 t 0 51 55 9 4 12 6 3 2 2 1 46 58 0 0 0 0 0

MA0002.2_rc_shift3 (RUNX1_rc)
; oligos_8nt_mkv5_m26 versus MA0002.2_rc (RUNX1_rc); m=1/5; ncol2=11; w=10; offset=2; strand=R; shift=3; score=0.665801; ---waaCCACAram---- ; cor=; Ncor= a 0 0 0 1053.0 1325.0 1339.0 93.0 13.0 1716.0 53.0 1936.0 656.0 814.0 521.0 0 0 0 0 c 0 0 0 289.0 81.0 251.0 1848.0 1987.0 70.0 1872.0 7.0 149.0 467.0 696.0 0 0 0 0 g 0 0 0 158.0 463.0 400.0 42.0 0.0 127.0 75.0 0.0 1072.0 485.0 496.0 0 0 0 0 t 0 0 0 500.0 131.0 10.0 17.0 0.0 87.0 0.0 57.0 123.0 234.0 287.0 0 0 0 0

MA0479.1_shift0 (FOXH1)
; oligos_8nt_mkv5_m26 versus MA0479.1 (FOXH1); m=2/5; ncol2=11; w=10; offset=-1; strand=D; shift=0; score=0.623561; ybsAATMCACA------- ; cor=; Ncor= a 939.0 1578.0 973.0 8211.0 7547.0 0.0 2374.0 1414.0 8211.0 0.0 7138.0 0 0 0 0 0 0 0 c 2840.0 2333.0 3261.0 0.0 0.0 0.0 5773.0 6797.0 0.0 8211.0 0.0 0 0 0 0 0 0 0 g 1490.0 2137.0 3156.0 0.0 229.0 0.0 0.0 0.0 0.0 0.0 0.0 0 0 0 0 0 0 0 t 2942.0 2163.0 821.0 0.0 435.0 8211.0 64.0 0.0 0.0 0.0 1073.0 0 0 0 0 0 0 0

MA0493.1_shift4 (Klf1)
; oligos_8nt_mkv5_m26 versus MA0493.1 (Klf1); m=3/5; ncol2=11; w=9; offset=3; strand=D; shift=4; score=0.474858; ----rrCCACACCCw--- ; cor=; Ncor= a 0 0 0 0 150.0 167.0 67.0 13.0 404.0 0.0 400.0 0.0 0.0 0.0 280.0 0 0 0 c 0 0 0 0 76.0 40.0 396.0 461.0 118.0 526.0 0.0 526.0 526.0 508.0 35.0 0 0 0 g 0 0 0 0 202.0 305.0 32.0 0.0 0.0 0.0 97.0 0.0 0.0 0.0 0.0 0 0 0 t 0 0 0 0 98.0 14.0 31.0 52.0 4.0 0.0 29.0 0.0 0.0 18.0 211.0 0 0 0

MA1511.1_shift5 (KLF10)
; oligos_8nt_mkv5_m26 versus MA1511.1 (KLF10); m=4/5; ncol2=11; w=8; offset=4; strand=D; shift=5; score=0.415634; -----gmCACrCCCmy-- ; cor=; Ncor= a 0 0 0 0 0 4746.0 6633.0 633.0 18751.0 238.0 13506.0 1.0 0.0 0.0 7545.0 934.0 0 0 c 0 0 0 0 0 2435.0 12654.0 19619.0 1663.0 19907.0 11.0 19995.0 19994.0 19244.0 11403.0 13118.0 0 0 g 0 0 0 0 0 14086.0 1299.0 98.0 1723.0 3.0 6234.0 2.0 0.0 0.0 587.0 770.0 0 0 t 0 0 0 0 0 1251.0 1373.0 485.0 6.0 157.0 543.0 0.0 0.0 2198.0 2686.0 6274.0 0 0

MA1107.2_shift3 (KLF9)
; oligos_8nt_mkv5_m26 versus MA1107.2 (KLF9); m=5/5; ncol2=16; w=10; offset=2; strand=D; shift=3; score=0.402569; ---crgCCACACCCAChy ; cor=; Ncor= a 0 0 0 5359.0 8015.0 2862.0 4664.0 287.0 21899.0 221.0 19187.0 224.0 2428.0 146.0 18837.0 792.0 6948.0 4110.0 c 0 0 0 10412.0 5108.0 4342.0 17839.0 24709.0 2559.0 24863.0 1070.0 24365.0 22117.0 24682.0 4339.0 20644.0 8797.0 10520.0 g 0 0 0 5200.0 7779.0 16852.0 1660.0 291.0 708.0 353.0 4340.0 735.0 605.0 205.0 852.0 1778.0 3289.0 4423.0 t 0 0 0 4608.0 4677.0 1523.0 1416.0 292.0 413.0 142.0 982.0 255.0 429.0 546.0 1551.0 2365.0 6545.0 6526.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_8nt_mkv5_m26_shift1 (oligos_8nt_mkv5_m26oligos_8nt_mkv5_m26)				; oligos_8nt_mkv5_m26 (oligos_8nt_mkv5_m26oligos_8nt_mkv5_m26); m=0 (reference); ncol1=12; shift=1; ncol=18; -rrAAGCCACAsc----- ; Alignment reference a 0 84 77 246 248 33 5 1 255 5 239 48 56 0 0 0 0 0 c 0 57 59 0 6 4 242 245 0 250 5 70 92 0 0 0 0 0 g 0 67 68 4 1 210 6 10 2 2 14 95 53 0 0 0 0 0 t 0 51 55 9 4 12 6 3 2 2 1 46 58 0 0 0 0 0
MA0002.2_rc_shift3 (RUNX1_rc)				; oligos_8nt_mkv5_m26 versus MA0002.2_rc (RUNX1_rc); m=1/5; ncol2=11; w=10; offset=2; strand=R; shift=3; score=0.665801; ---waaCCACAram---- ; cor=; Ncor= a 0 0 0 1053.0 1325.0 1339.0 93.0 13.0 1716.0 53.0 1936.0 656.0 814.0 521.0 0 0 0 0 c 0 0 0 289.0 81.0 251.0 1848.0 1987.0 70.0 1872.0 7.0 149.0 467.0 696.0 0 0 0 0 g 0 0 0 158.0 463.0 400.0 42.0 0.0 127.0 75.0 0.0 1072.0 485.0 496.0 0 0 0 0 t 0 0 0 500.0 131.0 10.0 17.0 0.0 87.0 0.0 57.0 123.0 234.0 287.0 0 0 0 0
MA0479.1_shift0 (FOXH1)				; oligos_8nt_mkv5_m26 versus MA0479.1 (FOXH1); m=2/5; ncol2=11; w=10; offset=-1; strand=D; shift=0; score=0.623561; ybsAATMCACA------- ; cor=; Ncor= a 939.0 1578.0 973.0 8211.0 7547.0 0.0 2374.0 1414.0 8211.0 0.0 7138.0 0 0 0 0 0 0 0 c 2840.0 2333.0 3261.0 0.0 0.0 0.0 5773.0 6797.0 0.0 8211.0 0.0 0 0 0 0 0 0 0 g 1490.0 2137.0 3156.0 0.0 229.0 0.0 0.0 0.0 0.0 0.0 0.0 0 0 0 0 0 0 0 t 2942.0 2163.0 821.0 0.0 435.0 8211.0 64.0 0.0 0.0 0.0 1073.0 0 0 0 0 0 0 0
MA0493.1_shift4 (Klf1)				; oligos_8nt_mkv5_m26 versus MA0493.1 (Klf1); m=3/5; ncol2=11; w=9; offset=3; strand=D; shift=4; score=0.474858; ----rrCCACACCCw--- ; cor=; Ncor= a 0 0 0 0 150.0 167.0 67.0 13.0 404.0 0.0 400.0 0.0 0.0 0.0 280.0 0 0 0 c 0 0 0 0 76.0 40.0 396.0 461.0 118.0 526.0 0.0 526.0 526.0 508.0 35.0 0 0 0 g 0 0 0 0 202.0 305.0 32.0 0.0 0.0 0.0 97.0 0.0 0.0 0.0 0.0 0 0 0 t 0 0 0 0 98.0 14.0 31.0 52.0 4.0 0.0 29.0 0.0 0.0 18.0 211.0 0 0 0
MA1511.1_shift5 (KLF10)				; oligos_8nt_mkv5_m26 versus MA1511.1 (KLF10); m=4/5; ncol2=11; w=8; offset=4; strand=D; shift=5; score=0.415634; -----gmCACrCCCmy-- ; cor=; Ncor= a 0 0 0 0 0 4746.0 6633.0 633.0 18751.0 238.0 13506.0 1.0 0.0 0.0 7545.0 934.0 0 0 c 0 0 0 0 0 2435.0 12654.0 19619.0 1663.0 19907.0 11.0 19995.0 19994.0 19244.0 11403.0 13118.0 0 0 g 0 0 0 0 0 14086.0 1299.0 98.0 1723.0 3.0 6234.0 2.0 0.0 0.0 587.0 770.0 0 0 t 0 0 0 0 0 1251.0 1373.0 485.0 6.0 157.0 543.0 0.0 0.0 2198.0 2686.0 6274.0 0 0
MA1107.2_shift3 (KLF9)				; oligos_8nt_mkv5_m26 versus MA1107.2 (KLF9); m=5/5; ncol2=16; w=10; offset=2; strand=D; shift=3; score=0.402569; ---crgCCACACCCAChy ; cor=; Ncor= a 0 0 0 5359.0 8015.0 2862.0 4664.0 287.0 21899.0 221.0 19187.0 224.0 2428.0 146.0 18837.0 792.0 6948.0 4110.0 c 0 0 0 10412.0 5108.0 4342.0 17839.0 24709.0 2559.0 24863.0 1070.0 24365.0 22117.0 24682.0 4339.0 20644.0 8797.0 10520.0 g 0 0 0 5200.0 7779.0 16852.0 1660.0 291.0 708.0 353.0 4340.0 735.0 605.0 205.0 852.0 1778.0 3289.0 4423.0 t 0 0 0 4608.0 4677.0 1523.0 1416.0 292.0 413.0 142.0 982.0 255.0 429.0 546.0 1551.0 2365.0 6545.0 6526.0