One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.175219_2025-05-16.175219_UyZibC/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -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 $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.175219_2025-05-16.175219_UyZibC/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1_vs_db_JASPAR2024_CORE_vertebrates_non-redundant

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m1_shift0 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1)
; oligos_7nt_mkv2_m1; m=0 (reference); ncol1=14; shift=0; ncol=14; AyTCCACTCCActc ; Alignment reference a 73 15 0 4 2 93 9 5 4 1 87 8 12 9 c 9 43 3 85 90 2 72 5 87 93 4 66 17 62 g 10 9 2 7 2 0 3 1 2 0 3 13 5 14 t 6 31 93 2 4 3 14 87 5 4 4 11 64 13

MA1645.2_shift3 (NKX2-2)
; oligos_7nt_mkv2_m1 versus MA1645.2 (NKX2-2); m=1/6; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.474014; ---CCACTCAA--- ; cor=; Ncor= a 0 0 0 2438.0 618.0 23748.0 478.0 490.0 397.0 21326.0 20003.0 0 0 0 c 0 0 0 20232.0 24341.0 463.0 24693.0 452.0 24058.0 2772.0 2104.0 0 0 0 g 0 0 0 2293.0 176.0 257.0 420.0 295.0 838.0 580.0 2266.0 0 0 0 t 0 0 0 1060.0 888.0 1555.0 432.0 24786.0 730.0 1345.0 1650.0 0 0 0

MA2003.2_shift3 (NKX2-4)
; oligos_7nt_mkv2_m1 versus MA2003.2 (NKX2-4); m=2/6; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.448667; ---cCACTTsA--- ; cor=; Ncor= a 0 0 0 385.0 14.0 1185.0 0.0 0.0 52.0 243.0 1185.0 0 0 0 c 0 0 0 1185.0 1185.0 127.0 1185.0 25.0 409.0 545.0 56.0 0 0 0 g 0 0 0 485.0 7.0 17.0 0.0 1.0 13.0 640.0 57.0 0 0 0 t 0 0 0 61.0 129.0 207.0 0.0 1185.0 1185.0 58.0 153.0 0 0 0

MA0673.2_shift3 (NKX2-8)
; oligos_7nt_mkv2_m1 versus MA0673.2 (NKX2-8); m=3/6; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.416956; ---sCACTYsA--- ; cor=; Ncor= a 0 0 0 1942.0 70.0 8562.0 14.0 0.0 23.0 1738.0 8562.0 0 0 0 c 0 0 0 3529.0 8562.0 595.0 8562.0 91.0 3197.0 2267.0 908.0 0 0 0 g 0 0 0 2843.0 0.0 0.0 0.0 0.0 0.0 4286.0 696.0 0 0 0 t 0 0 0 249.0 2155.0 516.0 110.0 8562.0 8562.0 271.0 2158.0 0 0 0

MA0479.2_shift5 (FOXH1)
; oligos_7nt_mkv2_m1 versus MA0479.2 (FOXH1); m=4/6; ncol2=8; w=0; offset=5; strand=D; shift=5; score=0.41532; -----AATMCACA- ; cor=; Ncor= a 0 0 0 0 0 8211.0 7547.0 0.0 2374.0 1414.0 8211.0 0.0 7138.0 0 c 0 0 0 0 0 0.0 0.0 0.0 5773.0 6797.0 0.0 8211.0 0.0 0 g 0 0 0 0 0 0.0 229.0 0.0 0.0 0.0 0.0 0.0 0.0 0 t 0 0 0 0 0 0.0 435.0 8211.0 64.0 0.0 0.0 0.0 1073.0 0

MA0809.3_shift3 (TEAD4)
; oligos_7nt_mkv2_m1 versus MA0809.3 (TEAD4); m=5/6; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.410905; ---ACATTCCA--- ; cor=; Ncor= a 0 0 0 61263.0 7543.0 74797.0 965.0 2673.0 1366.0 1314.0 61802.0 0 0 0 c 0 0 0 2414.0 66205.0 1218.0 1129.0 1176.0 72555.0 75066.0 3874.0 0 0 0 g 0 0 0 11265.0 3295.0 569.0 1025.0 2100.0 1580.0 212.0 1191.0 0 0 0 t 0 0 0 3144.0 1043.0 1502.0 74967.0 72137.0 2585.0 1494.0 11219.0 0 0 0

MA0130.1_shift1 (ZNF354C)
; oligos_7nt_mkv2_m1 versus MA0130.1 (ZNF354C); m=6/6; ncol2=6; w=0; offset=1; strand=D; shift=1; score=0.400438; -mTCCAC------- ; cor=; Ncor= a 0 7.0 3.0 0.0 0.0 16.0 0.0 0 0 0 0 0 0 0 c 0 6.0 2.0 16.0 16.0 0.0 15.0 0 0 0 0 0 0 0 g 0 3.0 0.0 0.0 0.0 0.0 1.0 0 0 0 0 0 0 0 t 0 0.0 11.0 0.0 0.0 0.0 0.0 0 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1)				; oligos_7nt_mkv2_m1; m=0 (reference); ncol1=14; shift=0; ncol=14; AyTCCACTCCActc ; Alignment reference a 73 15 0 4 2 93 9 5 4 1 87 8 12 9 c 9 43 3 85 90 2 72 5 87 93 4 66 17 62 g 10 9 2 7 2 0 3 1 2 0 3 13 5 14 t 6 31 93 2 4 3 14 87 5 4 4 11 64 13
MA1645.2_shift3 (NKX2-2)				; oligos_7nt_mkv2_m1 versus MA1645.2 (NKX2-2); m=1/6; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.474014; ---CCACTCAA--- ; cor=; Ncor= a 0 0 0 2438.0 618.0 23748.0 478.0 490.0 397.0 21326.0 20003.0 0 0 0 c 0 0 0 20232.0 24341.0 463.0 24693.0 452.0 24058.0 2772.0 2104.0 0 0 0 g 0 0 0 2293.0 176.0 257.0 420.0 295.0 838.0 580.0 2266.0 0 0 0 t 0 0 0 1060.0 888.0 1555.0 432.0 24786.0 730.0 1345.0 1650.0 0 0 0
MA2003.2_shift3 (NKX2-4)				; oligos_7nt_mkv2_m1 versus MA2003.2 (NKX2-4); m=2/6; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.448667; ---cCACTTsA--- ; cor=; Ncor= a 0 0 0 385.0 14.0 1185.0 0.0 0.0 52.0 243.0 1185.0 0 0 0 c 0 0 0 1185.0 1185.0 127.0 1185.0 25.0 409.0 545.0 56.0 0 0 0 g 0 0 0 485.0 7.0 17.0 0.0 1.0 13.0 640.0 57.0 0 0 0 t 0 0 0 61.0 129.0 207.0 0.0 1185.0 1185.0 58.0 153.0 0 0 0
MA0673.2_shift3 (NKX2-8)				; oligos_7nt_mkv2_m1 versus MA0673.2 (NKX2-8); m=3/6; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.416956; ---sCACTYsA--- ; cor=; Ncor= a 0 0 0 1942.0 70.0 8562.0 14.0 0.0 23.0 1738.0 8562.0 0 0 0 c 0 0 0 3529.0 8562.0 595.0 8562.0 91.0 3197.0 2267.0 908.0 0 0 0 g 0 0 0 2843.0 0.0 0.0 0.0 0.0 0.0 4286.0 696.0 0 0 0 t 0 0 0 249.0 2155.0 516.0 110.0 8562.0 8562.0 271.0 2158.0 0 0 0
MA0479.2_shift5 (FOXH1)				; oligos_7nt_mkv2_m1 versus MA0479.2 (FOXH1); m=4/6; ncol2=8; w=0; offset=5; strand=D; shift=5; score=0.41532; -----AATMCACA- ; cor=; Ncor= a 0 0 0 0 0 8211.0 7547.0 0.0 2374.0 1414.0 8211.0 0.0 7138.0 0 c 0 0 0 0 0 0.0 0.0 0.0 5773.0 6797.0 0.0 8211.0 0.0 0 g 0 0 0 0 0 0.0 229.0 0.0 0.0 0.0 0.0 0.0 0.0 0 t 0 0 0 0 0 0.0 435.0 8211.0 64.0 0.0 0.0 0.0 1073.0 0
MA0809.3_shift3 (TEAD4)				; oligos_7nt_mkv2_m1 versus MA0809.3 (TEAD4); m=5/6; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.410905; ---ACATTCCA--- ; cor=; Ncor= a 0 0 0 61263.0 7543.0 74797.0 965.0 2673.0 1366.0 1314.0 61802.0 0 0 0 c 0 0 0 2414.0 66205.0 1218.0 1129.0 1176.0 72555.0 75066.0 3874.0 0 0 0 g 0 0 0 11265.0 3295.0 569.0 1025.0 2100.0 1580.0 212.0 1191.0 0 0 0 t 0 0 0 3144.0 1043.0 1502.0 74967.0 72137.0 2585.0 1494.0 11219.0 0 0 0
MA0130.1_shift1 (ZNF354C)				; oligos_7nt_mkv2_m1 versus MA0130.1 (ZNF354C); m=6/6; ncol2=6; w=0; offset=1; strand=D; shift=1; score=0.400438; -mTCCAC------- ; cor=; Ncor= a 0 7.0 3.0 0.0 0.0 16.0 0.0 0 0 0 0 0 0 0 c 0 6.0 2.0 16.0 16.0 0.0 15.0 0 0 0 0 0 0 0 g 0 3.0 0.0 0.0 0.0 0.0 1.0 0 0 0 0 0 0 0 t 0 0.0 11.0 0.0 0.0 0.0 0.0 0 0 0 0 0 0 0