One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.115003_2026-01-05.115003_UARk68/results/discovered_motifs/oligos_6nt_mkv4_m2/peak-motifs_oligos_6nt_mkv4_m2.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/2026/01/05/peak-motifs.2026-01-05.115003_2026-01-05.115003_UARk68/results/discovered_motifs/oligos_6nt_mkv4_m2/peak-motifs_oligos_6nt_mkv4_m2_vs_db_JASPAR2024_CORE_vertebrates_non-redundant

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m2_shift0 ; 10 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m2_shift0 (oligos_6nt_mkv4_m2)
; oligos_6nt_mkv4_m2; m=0 (reference); ncol1=10; shift=0; ncol=10; ssCGaGCGcs ; Alignment reference a 431 358 62 33 1318 80 53 64 363 402 c 972 973 2745 58 646 117 2860 106 1296 953 g 1260 1366 178 2896 650 2779 60 2824 746 1293 t 373 339 51 49 422 60 63 42 631 388

MA1959.2_shift3 (KLF7)
; oligos_6nt_mkv4_m2 versus MA1959.2 (KLF7); m=1/9; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.505266; ---GGGCGKg ; cor=; Ncor= a 0 0 0 1.0 1.0 1.0 45.0 1.0 1.0 150.0 c 0 0 0 1.0 1.0 1.0 788.0 1.0 25.0 42.0 g 0 0 0 997.0 997.0 997.0 1.0 997.0 720.0 642.0 t 0 0 0 1.0 1.0 1.0 167.0 1.0 254.0 167.0

MA1513.2_rc_shift3 (KLF15_rc)
; oligos_6nt_mkv4_m2 versus MA1513.2_rc (KLF15_rc); m=2/9; ncol2=8; w=0; offset=3; strand=R; shift=3; score=0.496704; ---GGGCGGG ; cor=; Ncor= a 0 0 0 3.0 1.0 11.0 0.0 0.0 3.0 9.0 c 0 0 0 100.0 359.0 2.0 11369.0 1.0 333.0 86.0 g 0 0 0 11254.0 10954.0 11345.0 0.0 11368.0 10940.0 11234.0 t 0 0 0 12.0 55.0 11.0 0.0 0.0 93.0 40.0

MA0632.3_rc_shift3 (TCFL5_rc)
; oligos_6nt_mkv4_m2 versus MA0632.3_rc (TCFL5_rc); m=3/9; ncol2=8; w=0; offset=3; strand=R; shift=3; score=0.496217; ---GCGCGyG ; cor=; Ncor= a 0 0 0 635.0 0.0 15451.0 0.0 1643.0 9359.0 0.0 c 0 0 0 4594.0 72543.0 0.0 72543.0 0.0 29710.0 0.0 g 0 0 0 72543.0 657.0 57092.0 0.0 72543.0 0.0 72543.0 t 0 0 0 1593.0 3520.0 1765.0 1566.0 0.0 72543.0 0.0

MA2126.1_shift3 (Zfp961)
; oligos_6nt_mkv4_m2 versus MA2126.1 (Zfp961); m=4/9; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.493456; ---GGGCGCC ; cor=; Ncor= a 0 0 0 18.0 13.0 11.0 8.0 23.0 12.0 9.0 c 0 0 0 20.0 22.0 13.0 1219.0 8.0 1367.0 1353.0 g 0 0 0 1372.0 1312.0 1278.0 9.0 1372.0 23.0 30.0 t 0 0 0 8.0 71.0 116.0 182.0 15.0 16.0 26.0

MA1515.2_rc_shift3 (KLF2_rc)
; oligos_6nt_mkv4_m2 versus MA1515.2_rc (KLF2_rc); m=5/9; ncol2=8; w=0; offset=3; strand=R; shift=3; score=0.484924; ---GGGyGkG ; cor=; Ncor= a 0 0 0 444.0 9.0 22.0 167.0 78.0 214.0 312.0 c 0 0 0 105.0 195.0 49.0 2920.0 0.0 1060.0 186.0 g 0 0 0 4622.0 4622.0 4622.0 274.0 4622.0 2265.0 4622.0 t 0 0 0 68.0 128.0 0.0 1702.0 0.0 4622.0 403.0

MA1650.2_rc_shift3 (ZBTB14_rc)
; oligos_6nt_mkv4_m2 versus MA1650.2_rc (ZBTB14_rc); m=6/9; ncol2=8; w=0; offset=3; strand=R; shift=3; score=0.484134; ---GTGCGCG ; cor=; Ncor= a 0 0 0 123.0 0.0 52.0 67.0 82.0 62.0 59.0 c 0 0 0 651.0 10.0 261.0 4043.0 319.0 4098.0 155.0 g 0 0 0 3674.0 37.0 4178.0 305.0 4078.0 294.0 4292.0 t 0 0 0 99.0 4500.0 56.0 132.0 68.0 93.0 41.0

MA0493.3_shift3 (KLF1)
; oligos_6nt_mkv4_m2 versus MA0493.3 (KLF1); m=7/9; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.46518; ---GGGyGkG ; cor=; Ncor= a 0 0 0 1.0 1.0 1.0 125.0 1.0 1.0 82.0 c 0 0 0 1.0 1.0 1.0 529.0 1.0 1.0 1.0 g 0 0 0 998.0 998.0 998.0 1.0 998.0 675.0 896.0 t 0 0 0 1.0 1.0 1.0 346.0 1.0 324.0 21.0

MA1516.2_rc_shift3 (KLF3_rc)
; oligos_6nt_mkv4_m2 versus MA1516.2_rc (KLF3_rc); m=8/9; ncol2=10; w=0; offset=3; strand=R; shift=3; score=0.430558; ---GGGCGyG ; cor=; Ncor= a 0 0 0 1218.0 0.0 0.0 1212.0 1409.0 419.0 335.0 c 0 0 0 48.0 29.0 31.0 43259.0 21.0 16503.0 248.0 g 0 0 0 43259.0 43259.0 43259.0 334.0 43259.0 707.0 43259.0 t 0 0 0 77.0 83.0 202.0 4245.0 2261.0 26757.0 298.0

MA1727.2_shift4 (ZNF417)
; oligos_6nt_mkv4_m2 versus MA1727.2 (ZNF417); m=9/9; ncol2=7; w=0; offset=4; strand=D; shift=4; score=0.404535; ----GGCGCC ; cor=; Ncor= a 0 0 0 0 1.0 1.0 7.0 1.0 1.0 31.0 c 0 0 0 0 1.0 1.0 936.0 1.0 990.0 954.0 g 0 0 0 0 996.0 996.0 1.0 996.0 1.0 1.0 t 0 0 0 0 1.0 1.0 55.0 1.0 7.0 13.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv4_m2_shift0 (oligos_6nt_mkv4_m2)				; oligos_6nt_mkv4_m2; m=0 (reference); ncol1=10; shift=0; ncol=10; ssCGaGCGcs ; Alignment reference a 431 358 62 33 1318 80 53 64 363 402 c 972 973 2745 58 646 117 2860 106 1296 953 g 1260 1366 178 2896 650 2779 60 2824 746 1293 t 373 339 51 49 422 60 63 42 631 388
MA1959.2_shift3 (KLF7)				; oligos_6nt_mkv4_m2 versus MA1959.2 (KLF7); m=1/9; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.505266; ---GGGCGKg ; cor=; Ncor= a 0 0 0 1.0 1.0 1.0 45.0 1.0 1.0 150.0 c 0 0 0 1.0 1.0 1.0 788.0 1.0 25.0 42.0 g 0 0 0 997.0 997.0 997.0 1.0 997.0 720.0 642.0 t 0 0 0 1.0 1.0 1.0 167.0 1.0 254.0 167.0
MA1513.2_rc_shift3 (KLF15_rc)				; oligos_6nt_mkv4_m2 versus MA1513.2_rc (KLF15_rc); m=2/9; ncol2=8; w=0; offset=3; strand=R; shift=3; score=0.496704; ---GGGCGGG ; cor=; Ncor= a 0 0 0 3.0 1.0 11.0 0.0 0.0 3.0 9.0 c 0 0 0 100.0 359.0 2.0 11369.0 1.0 333.0 86.0 g 0 0 0 11254.0 10954.0 11345.0 0.0 11368.0 10940.0 11234.0 t 0 0 0 12.0 55.0 11.0 0.0 0.0 93.0 40.0
MA0632.3_rc_shift3 (TCFL5_rc)				; oligos_6nt_mkv4_m2 versus MA0632.3_rc (TCFL5_rc); m=3/9; ncol2=8; w=0; offset=3; strand=R; shift=3; score=0.496217; ---GCGCGyG ; cor=; Ncor= a 0 0 0 635.0 0.0 15451.0 0.0 1643.0 9359.0 0.0 c 0 0 0 4594.0 72543.0 0.0 72543.0 0.0 29710.0 0.0 g 0 0 0 72543.0 657.0 57092.0 0.0 72543.0 0.0 72543.0 t 0 0 0 1593.0 3520.0 1765.0 1566.0 0.0 72543.0 0.0
MA2126.1_shift3 (Zfp961)				; oligos_6nt_mkv4_m2 versus MA2126.1 (Zfp961); m=4/9; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.493456; ---GGGCGCC ; cor=; Ncor= a 0 0 0 18.0 13.0 11.0 8.0 23.0 12.0 9.0 c 0 0 0 20.0 22.0 13.0 1219.0 8.0 1367.0 1353.0 g 0 0 0 1372.0 1312.0 1278.0 9.0 1372.0 23.0 30.0 t 0 0 0 8.0 71.0 116.0 182.0 15.0 16.0 26.0
MA1515.2_rc_shift3 (KLF2_rc)				; oligos_6nt_mkv4_m2 versus MA1515.2_rc (KLF2_rc); m=5/9; ncol2=8; w=0; offset=3; strand=R; shift=3; score=0.484924; ---GGGyGkG ; cor=; Ncor= a 0 0 0 444.0 9.0 22.0 167.0 78.0 214.0 312.0 c 0 0 0 105.0 195.0 49.0 2920.0 0.0 1060.0 186.0 g 0 0 0 4622.0 4622.0 4622.0 274.0 4622.0 2265.0 4622.0 t 0 0 0 68.0 128.0 0.0 1702.0 0.0 4622.0 403.0
MA1650.2_rc_shift3 (ZBTB14_rc)				; oligos_6nt_mkv4_m2 versus MA1650.2_rc (ZBTB14_rc); m=6/9; ncol2=8; w=0; offset=3; strand=R; shift=3; score=0.484134; ---GTGCGCG ; cor=; Ncor= a 0 0 0 123.0 0.0 52.0 67.0 82.0 62.0 59.0 c 0 0 0 651.0 10.0 261.0 4043.0 319.0 4098.0 155.0 g 0 0 0 3674.0 37.0 4178.0 305.0 4078.0 294.0 4292.0 t 0 0 0 99.0 4500.0 56.0 132.0 68.0 93.0 41.0
MA0493.3_shift3 (KLF1)				; oligos_6nt_mkv4_m2 versus MA0493.3 (KLF1); m=7/9; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.46518; ---GGGyGkG ; cor=; Ncor= a 0 0 0 1.0 1.0 1.0 125.0 1.0 1.0 82.0 c 0 0 0 1.0 1.0 1.0 529.0 1.0 1.0 1.0 g 0 0 0 998.0 998.0 998.0 1.0 998.0 675.0 896.0 t 0 0 0 1.0 1.0 1.0 346.0 1.0 324.0 21.0
MA1516.2_rc_shift3 (KLF3_rc)				; oligos_6nt_mkv4_m2 versus MA1516.2_rc (KLF3_rc); m=8/9; ncol2=10; w=0; offset=3; strand=R; shift=3; score=0.430558; ---GGGCGyG ; cor=; Ncor= a 0 0 0 1218.0 0.0 0.0 1212.0 1409.0 419.0 335.0 c 0 0 0 48.0 29.0 31.0 43259.0 21.0 16503.0 248.0 g 0 0 0 43259.0 43259.0 43259.0 334.0 43259.0 707.0 43259.0 t 0 0 0 77.0 83.0 202.0 4245.0 2261.0 26757.0 298.0
MA1727.2_shift4 (ZNF417)				; oligos_6nt_mkv4_m2 versus MA1727.2 (ZNF417); m=9/9; ncol2=7; w=0; offset=4; strand=D; shift=4; score=0.404535; ----GGCGCC ; cor=; Ncor= a 0 0 0 0 1.0 1.0 7.0 1.0 1.0 31.0 c 0 0 0 0 1.0 1.0 936.0 1.0 990.0 954.0 g 0 0 0 0 996.0 996.0 1.0 996.0 1.0 1.0 t 0 0 0 0 1.0 1.0 55.0 1.0 7.0 13.0