One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/01/04/peak-motifs.2026-01-04.175405_2026-01-04.175405_YulKOI/results/discovered_motifs/oligos_7nt_test_vs_ctrl_m4/peak-motifs_oligos_7nt_test_vs_ctrl_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/2026/01/04/peak-motifs.2026-01-04.175405_2026-01-04.175405_YulKOI/results/discovered_motifs/oligos_7nt_test_vs_ctrl_m4/peak-motifs_oligos_7nt_test_vs_ctrl_m4_vs_db_JASPAR2024_CORE_vertebrates_non-redundant

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m4_shift3 ; 6 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m4_shift3 (oligos_7nt_test_vs_ctrl_m4)
; oligos_7nt_test_vs_ctrl_m4; m=0 (reference); ncol1=11; shift=3; ncol=14; ---wwAAACTGTww ; Alignment reference a 0 0 0 2455 2281 6683 6199 6810 614 446 562 283 3077 2461 c 0 0 0 1169 1058 168 355 199 6562 173 111 127 1042 1485 g 0 0 0 1672 1546 163 201 173 162 115 6769 118 1521 1134 t 0 0 0 2298 2709 580 839 412 256 6860 152 7066 1954 2514

MA1580.1_rc_shift5 (ZBTB32_rc)
; oligos_7nt_test_vs_ctrl_m4 versus MA1580.1_rc (ZBTB32_rc); m=1/5; ncol2=10; w=0; offset=2; strand=R; shift=5; score=0.568261; -----wtACTGTAC ; cor=; Ncor= a 0 0 0 0 0 1574.0 339.0 3558.0 6.0 8.0 0.0 0.0 3563.0 156.0 c 0 0 0 0 0 215.0 723.0 0.0 3562.0 4.0 1.0 0.0 3.0 3057.0 g 0 0 0 0 0 213.0 109.0 4.0 3.0 3.0 3560.0 5.0 1.0 3.0 t 0 0 0 0 0 1559.0 2390.0 0.0 0.0 3556.0 0.0 3560.0 5.0 356.0

MA1105.3_rc_shift5 (GRHL2_rc)
; oligos_7nt_test_vs_ctrl_m4 versus MA1105.3_rc (GRHL2_rc); m=2/5; ncol2=8; w=0; offset=2; strand=R; shift=5; score=0.532711; -----AACCTGTT- ; cor=; Ncor= a 0 0 0 0 0 36906.0 36921.0 625.0 1247.0 5826.0 320.0 1260.0 1618.0 0 c 0 0 0 0 0 1220.0 748.0 39624.0 37226.0 485.0 609.0 2841.0 2646.0 0 g 0 0 0 0 0 2000.0 2331.0 987.0 581.0 1543.0 40446.0 712.0 1147.0 0 t 0 0 0 0 0 1752.0 1878.0 642.0 2824.0 34024.0 503.0 37065.0 36467.0 0

MA1647.3_shift0 (Prdm4)
; oligos_7nt_test_vs_ctrl_m4 versus MA1647.3 (Prdm4); m=3/5; ncol2=11; w=-3; offset=-3; strand=D; shift=0; score=0.452862; cCTtGAAACyg--- ; cor=; Ncor= a 220.0 33.0 21.0 202.0 30.0 1155.0 1140.0 1161.0 16.0 223.0 170.0 0 0 0 c 745.0 1098.0 40.0 37.0 4.0 12.0 10.0 6.0 1147.0 434.0 184.0 0 0 0 g 76.0 14.0 13.0 203.0 1141.0 7.0 27.0 9.0 8.0 39.0 715.0 0 0 0 t 140.0 36.0 1107.0 739.0 6.0 7.0 4.0 5.0 10.0 485.0 112.0 0 0 0

MA1509.1_shift1 (IRF6)
; oligos_7nt_test_vs_ctrl_m4 versus MA1509.1 (IRF6); m=4/5; ncol2=9; w=-2; offset=-2; strand=D; shift=1; score=0.418336; -ACCGAAACT---- ; cor=; Ncor= a 0 2652.0 67.0 0.0 48.0 2652.0 2314.0 2652.0 0.0 98.0 0 0 0 0 c 0 164.0 2652.0 2652.0 5.0 0.0 0.0 0.0 2652.0 368.0 0 0 0 0 g 0 648.0 62.0 22.0 2652.0 0.0 9.0 17.0 12.0 7.0 0 0 0 0 t 0 89.0 561.0 19.0 9.0 26.0 338.0 2.0 0.0 2284.0 0 0 0 0

MA0100.4_shift5 (MYB)
; oligos_7nt_test_vs_ctrl_m4 versus MA0100.4 (MYB); m=5/5; ncol2=6; w=0; offset=2; strand=D; shift=5; score=0.415955; -----CAACTG--- ; cor=; Ncor= a 0 0 0 0 0 0.0 1478.0 1519.0 0.0 1.0 8.0 0 0 0 c 0 0 0 0 0 1513.0 3.0 2.0 1527.0 60.0 3.0 0 0 0 g 0 0 0 0 0 5.0 39.0 0.0 0.0 68.0 1516.0 0 0 0 t 0 0 0 0 0 9.0 7.0 6.0 0.0 1398.0 0.0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_test_vs_ctrl_m4_shift3 (oligos_7nt_test_vs_ctrl_m4)				; oligos_7nt_test_vs_ctrl_m4; m=0 (reference); ncol1=11; shift=3; ncol=14; ---wwAAACTGTww ; Alignment reference a 0 0 0 2455 2281 6683 6199 6810 614 446 562 283 3077 2461 c 0 0 0 1169 1058 168 355 199 6562 173 111 127 1042 1485 g 0 0 0 1672 1546 163 201 173 162 115 6769 118 1521 1134 t 0 0 0 2298 2709 580 839 412 256 6860 152 7066 1954 2514
MA1580.1_rc_shift5 (ZBTB32_rc)				; oligos_7nt_test_vs_ctrl_m4 versus MA1580.1_rc (ZBTB32_rc); m=1/5; ncol2=10; w=0; offset=2; strand=R; shift=5; score=0.568261; -----wtACTGTAC ; cor=; Ncor= a 0 0 0 0 0 1574.0 339.0 3558.0 6.0 8.0 0.0 0.0 3563.0 156.0 c 0 0 0 0 0 215.0 723.0 0.0 3562.0 4.0 1.0 0.0 3.0 3057.0 g 0 0 0 0 0 213.0 109.0 4.0 3.0 3.0 3560.0 5.0 1.0 3.0 t 0 0 0 0 0 1559.0 2390.0 0.0 0.0 3556.0 0.0 3560.0 5.0 356.0
MA1105.3_rc_shift5 (GRHL2_rc)				; oligos_7nt_test_vs_ctrl_m4 versus MA1105.3_rc (GRHL2_rc); m=2/5; ncol2=8; w=0; offset=2; strand=R; shift=5; score=0.532711; -----AACCTGTT- ; cor=; Ncor= a 0 0 0 0 0 36906.0 36921.0 625.0 1247.0 5826.0 320.0 1260.0 1618.0 0 c 0 0 0 0 0 1220.0 748.0 39624.0 37226.0 485.0 609.0 2841.0 2646.0 0 g 0 0 0 0 0 2000.0 2331.0 987.0 581.0 1543.0 40446.0 712.0 1147.0 0 t 0 0 0 0 0 1752.0 1878.0 642.0 2824.0 34024.0 503.0 37065.0 36467.0 0
MA1647.3_shift0 (Prdm4)				; oligos_7nt_test_vs_ctrl_m4 versus MA1647.3 (Prdm4); m=3/5; ncol2=11; w=-3; offset=-3; strand=D; shift=0; score=0.452862; cCTtGAAACyg--- ; cor=; Ncor= a 220.0 33.0 21.0 202.0 30.0 1155.0 1140.0 1161.0 16.0 223.0 170.0 0 0 0 c 745.0 1098.0 40.0 37.0 4.0 12.0 10.0 6.0 1147.0 434.0 184.0 0 0 0 g 76.0 14.0 13.0 203.0 1141.0 7.0 27.0 9.0 8.0 39.0 715.0 0 0 0 t 140.0 36.0 1107.0 739.0 6.0 7.0 4.0 5.0 10.0 485.0 112.0 0 0 0
MA1509.1_shift1 (IRF6)				; oligos_7nt_test_vs_ctrl_m4 versus MA1509.1 (IRF6); m=4/5; ncol2=9; w=-2; offset=-2; strand=D; shift=1; score=0.418336; -ACCGAAACT---- ; cor=; Ncor= a 0 2652.0 67.0 0.0 48.0 2652.0 2314.0 2652.0 0.0 98.0 0 0 0 0 c 0 164.0 2652.0 2652.0 5.0 0.0 0.0 0.0 2652.0 368.0 0 0 0 0 g 0 648.0 62.0 22.0 2652.0 0.0 9.0 17.0 12.0 7.0 0 0 0 0 t 0 89.0 561.0 19.0 9.0 26.0 338.0 2.0 0.0 2284.0 0 0 0 0
MA0100.4_shift5 (MYB)				; oligos_7nt_test_vs_ctrl_m4 versus MA0100.4 (MYB); m=5/5; ncol2=6; w=0; offset=2; strand=D; shift=5; score=0.415955; -----CAACTG--- ; cor=; Ncor= a 0 0 0 0 0 0.0 1478.0 1519.0 0.0 1.0 8.0 0 0 0 c 0 0 0 0 0 1513.0 3.0 2.0 1527.0 60.0 3.0 0 0 0 g 0 0 0 0 0 5.0 39.0 0.0 0.0 68.0 1516.0 0 0 0 t 0 0 0 0 0 9.0 7.0 6.0 0.0 1398.0 0.0 0 0 0