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.2026-01-05.075027_2026-01-05.075027_raWB4h/results/discovered_motifs/oligos_7nt_mkv5_m4/peak-motifs_oligos_7nt_mkv5_m4.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.2026-01-05.075027_2026-01-05.075027_raWB4h/results/discovered_motifs/oligos_7nt_mkv5_m4/peak-motifs_oligos_7nt_mkv5_m4_vs_db_JASPAR2024_CORE_vertebrates_non-redundant

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m4_shift3 ; 6 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m4_shift3 (oligos_7nt_mkv5_m4)
; oligos_7nt_mkv5_m4; m=0 (reference); ncol1=11; shift=3; ncol=14; ---waCAAAAACwa ; Alignment reference a 0 0 0 601 795 56 1632 1487 1581 1500 1670 44 779 614 c 0 0 0 292 316 1527 39 110 100 123 42 1554 262 407 g 0 0 0 324 283 39 29 81 34 41 22 18 234 327 t 0 0 0 570 393 165 87 109 72 123 53 171 512 439

MA1125.2_shift6 (ZNF384)
; oligos_7nt_mkv5_m4 versus MA1125.2 (ZNF384); m=1/5; ncol2=8; w=0; offset=3; strand=D; shift=6; score=0.559348; ------AAAAAAaa ; cor=; Ncor= a 0 0 0 0 0 0 30354.0 30191.0 30072.0 30252.0 30202.0 30406.0 20322.0 18916.0 c 0 0 0 0 0 0 7.0 35.0 21.0 13.0 26.0 6.0 2908.0 3963.0 g 0 0 0 0 0 0 13.0 19.0 26.0 15.0 14.0 0.0 2767.0 2898.0 t 0 0 0 0 0 0 59.0 188.0 314.0 153.0 191.0 21.0 4436.0 4656.0

MA1623.2_shift1 (Stat2)
; oligos_7nt_mkv5_m4 versus MA1623.2 (Stat2); m=2/5; ncol2=10; w=-2; offset=-2; strand=D; shift=1; score=0.432602; -gAAACAGAAA--- ; cor=; Ncor= a 0 969.0 3554.0 3736.0 3738.0 286.0 3146.0 152.0 3700.0 3747.0 3514.0 0 0 0 c 0 306.0 76.0 75.0 72.0 2907.0 151.0 45.0 49.0 45.0 147.0 0 0 0 g 0 2287.0 168.0 71.0 87.0 524.0 74.0 3707.0 163.0 98.0 157.0 0 0 0 t 0 397.0 161.0 77.0 62.0 242.0 588.0 55.0 47.0 69.0 141.0 0 0 0

MA0847.4_shift0 (FOXD2)
; oligos_7nt_mkv5_m4 versus MA0847.4 (FOXD2); m=3/5; ncol2=11; w=-3; offset=-3; strand=D; shift=0; score=0.419807; yTAAryAAACA--- ; cor=; Ncor= a 219.0 480.0 2484.0 2484.0 2484.0 84.0 2484.0 2484.0 2484.0 0.0 2484.0 0 0 0 c 906.0 19.0 16.0 285.0 23.0 1342.0 81.0 23.0 0.0 2484.0 24.0 0 0 0 g 131.0 0.0 137.0 292.0 1615.0 3.0 0.0 18.0 5.0 0.0 34.0 0 0 0 t 1578.0 2004.0 0.0 262.0 4.0 1141.0 79.0 1.0 2.0 768.0 232.0 0 0 0

MA0869.3_shift2 (Sox11)
; oligos_7nt_mkv5_m4 versus MA0869.3 (Sox11); m=4/5; ncol2=8; w=-1; offset=-1; strand=D; shift=2; score=0.41166; --GAACAAAG---- ; cor=; Ncor= a 0 0 1014.0 7912.0 9856.0 119.0 10020.0 9676.0 9276.0 506.0 0 0 0 0 c 0 0 764.0 766.0 100.0 9471.0 108.0 264.0 61.0 148.0 0 0 0 0 g 0 0 8063.0 1298.0 211.0 501.0 49.0 248.0 233.0 9486.0 0 0 0 0 t 0 0 407.0 272.0 81.0 157.0 71.0 60.0 678.0 108.0 0 0 0 0

MA1616.2_shift6 (Prdm15)
; oligos_7nt_mkv5_m4 versus MA1616.2 (Prdm15); m=5/5; ncol2=11; w=0; offset=3; strand=D; shift=6; score=0.400138; ------gAAAACCT ; cor=; Ncor= a 0 0 0 0 0 0 252.0 2011.0 2121.0 1942.0 1801.0 67.0 222.0 220.0 c 0 0 0 0 0 0 325.0 60.0 34.0 47.0 138.0 1941.0 1886.0 361.0 g 0 0 0 0 0 0 1333.0 135.0 58.0 200.0 152.0 101.0 107.0 28.0 t 0 0 0 0 0 0 327.0 31.0 24.0 48.0 146.0 128.0 22.0 1628.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m4_shift3 (oligos_7nt_mkv5_m4)				; oligos_7nt_mkv5_m4; m=0 (reference); ncol1=11; shift=3; ncol=14; ---waCAAAAACwa ; Alignment reference a 0 0 0 601 795 56 1632 1487 1581 1500 1670 44 779 614 c 0 0 0 292 316 1527 39 110 100 123 42 1554 262 407 g 0 0 0 324 283 39 29 81 34 41 22 18 234 327 t 0 0 0 570 393 165 87 109 72 123 53 171 512 439
MA1125.2_shift6 (ZNF384)				; oligos_7nt_mkv5_m4 versus MA1125.2 (ZNF384); m=1/5; ncol2=8; w=0; offset=3; strand=D; shift=6; score=0.559348; ------AAAAAAaa ; cor=; Ncor= a 0 0 0 0 0 0 30354.0 30191.0 30072.0 30252.0 30202.0 30406.0 20322.0 18916.0 c 0 0 0 0 0 0 7.0 35.0 21.0 13.0 26.0 6.0 2908.0 3963.0 g 0 0 0 0 0 0 13.0 19.0 26.0 15.0 14.0 0.0 2767.0 2898.0 t 0 0 0 0 0 0 59.0 188.0 314.0 153.0 191.0 21.0 4436.0 4656.0
MA1623.2_shift1 (Stat2)				; oligos_7nt_mkv5_m4 versus MA1623.2 (Stat2); m=2/5; ncol2=10; w=-2; offset=-2; strand=D; shift=1; score=0.432602; -gAAACAGAAA--- ; cor=; Ncor= a 0 969.0 3554.0 3736.0 3738.0 286.0 3146.0 152.0 3700.0 3747.0 3514.0 0 0 0 c 0 306.0 76.0 75.0 72.0 2907.0 151.0 45.0 49.0 45.0 147.0 0 0 0 g 0 2287.0 168.0 71.0 87.0 524.0 74.0 3707.0 163.0 98.0 157.0 0 0 0 t 0 397.0 161.0 77.0 62.0 242.0 588.0 55.0 47.0 69.0 141.0 0 0 0
MA0847.4_shift0 (FOXD2)				; oligos_7nt_mkv5_m4 versus MA0847.4 (FOXD2); m=3/5; ncol2=11; w=-3; offset=-3; strand=D; shift=0; score=0.419807; yTAAryAAACA--- ; cor=; Ncor= a 219.0 480.0 2484.0 2484.0 2484.0 84.0 2484.0 2484.0 2484.0 0.0 2484.0 0 0 0 c 906.0 19.0 16.0 285.0 23.0 1342.0 81.0 23.0 0.0 2484.0 24.0 0 0 0 g 131.0 0.0 137.0 292.0 1615.0 3.0 0.0 18.0 5.0 0.0 34.0 0 0 0 t 1578.0 2004.0 0.0 262.0 4.0 1141.0 79.0 1.0 2.0 768.0 232.0 0 0 0
MA0869.3_shift2 (Sox11)				; oligos_7nt_mkv5_m4 versus MA0869.3 (Sox11); m=4/5; ncol2=8; w=-1; offset=-1; strand=D; shift=2; score=0.41166; --GAACAAAG---- ; cor=; Ncor= a 0 0 1014.0 7912.0 9856.0 119.0 10020.0 9676.0 9276.0 506.0 0 0 0 0 c 0 0 764.0 766.0 100.0 9471.0 108.0 264.0 61.0 148.0 0 0 0 0 g 0 0 8063.0 1298.0 211.0 501.0 49.0 248.0 233.0 9486.0 0 0 0 0 t 0 0 407.0 272.0 81.0 157.0 71.0 60.0 678.0 108.0 0 0 0 0
MA1616.2_shift6 (Prdm15)				; oligos_7nt_mkv5_m4 versus MA1616.2 (Prdm15); m=5/5; ncol2=11; w=0; offset=3; strand=D; shift=6; score=0.400138; ------gAAAACCT ; cor=; Ncor= a 0 0 0 0 0 0 252.0 2011.0 2121.0 1942.0 1801.0 67.0 222.0 220.0 c 0 0 0 0 0 0 325.0 60.0 34.0 47.0 138.0 1941.0 1886.0 361.0 g 0 0 0 0 0 0 1333.0 135.0 58.0 200.0 152.0 101.0 107.0 28.0 t 0 0 0 0 0 0 327.0 31.0 24.0 48.0 146.0 128.0 22.0 1628.0