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.2025-05-16.175823_2025-05-16.175823_YJjJog/results/discovered_motifs/oligos_6nt_mkv2_m5/peak-motifs_oligos_6nt_mkv2_m5.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.2025-05-16.175823_2025-05-16.175823_YJjJog/results/discovered_motifs/oligos_6nt_mkv2_m5/peak-motifs_oligos_6nt_mkv2_m5_vs_db_JASPAR2024_CORE_vertebrates_non-redundant

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m5_shift1 ; 8 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv2_m5_shift1 (oligos_6nt_mkv2_m5)
; oligos_6nt_mkv2_m5; m=0 (reference); ncol1=13; shift=1; ncol=14; -ssAGGCTGGGcmg ; Alignment reference a 0 15 17 76 1 1 2 3 3 1 2 10 25 23 c 0 33 40 7 7 10 84 3 1 4 6 56 25 22 g 0 31 25 6 84 79 4 5 87 83 78 16 21 26 t 0 14 11 4 1 3 3 82 2 5 7 11 22 22

MA2121.1_rc_shift0 (ZNF213_rc)
; oligos_6nt_mkv2_m5 versus MA2121.1_rc (ZNF213_rc); m=1/7; ncol2=12; w=-1; offset=-1; strand=R; shift=0; score=0.625268; ysCwGCCTGGGc-- ; cor=; Ncor= a 55.0 47.0 50.0 237.0 7.0 11.0 3.0 22.0 8.0 32.0 28.0 76.0 0 0 c 330.0 260.0 519.0 124.0 22.0 639.0 661.0 54.0 34.0 34.0 52.0 403.0 0 0 g 86.0 319.0 76.0 97.0 642.0 25.0 13.0 34.0 630.0 603.0 581.0 89.0 0 0 t 216.0 61.0 42.0 229.0 16.0 12.0 10.0 577.0 15.0 18.0 26.0 119.0 0 0

MA2341.1_rc_shift3 (FEZF2_rc)
; oligos_6nt_mkv2_m5 versus MA2341.1_rc (FEZF2_rc); m=2/7; ncol2=8; w=0; offset=2; strand=R; shift=3; score=0.609709; ---AGGCTGGG--- ; cor=; Ncor= a 0 0 0 233.0 9.0 5.0 0.0 5.0 3.0 45.0 36.0 0 0 0 c 0 0 0 8.0 2.0 28.0 251.0 14.0 0.0 9.0 10.0 0 0 0 g 0 0 0 10.0 247.0 224.0 8.0 15.0 258.0 206.0 202.0 0 0 0 t 0 0 0 14.0 7.0 8.0 6.0 231.0 4.0 5.0 17.0 0 0 0

MA1656.2_rc_shift4 (ZNF449_rc)
; oligos_6nt_mkv2_m5 versus MA1656.2_rc (ZNF449_rc); m=3/7; ncol2=10; w=0; offset=3; strand=R; shift=4; score=0.587647; ----gGTTGGGCTt ; cor=; Ncor= a 0 0 0 0 1015.0 65.0 115.0 327.0 59.0 28.0 111.0 92.0 615.0 303.0 c 0 0 0 0 473.0 167.0 829.0 182.0 54.0 28.0 322.0 7368.0 224.0 1463.0 g 0 0 0 0 5029.0 7244.0 96.0 300.0 7479.0 7540.0 7088.0 92.0 582.0 1759.0 t 0 0 0 0 1143.0 184.0 6620.0 6851.0 68.0 64.0 139.0 108.0 6239.0 4135.0

MA2125.1_rc_shift4 (Zfp809_rc)
; oligos_6nt_mkv2_m5 versus MA2125.1_rc (Zfp809_rc); m=4/7; ncol2=9; w=0; offset=3; strand=R; shift=4; score=0.579835; ----gGCTGGGAw- ; cor=; Ncor= a 0 0 0 0 242.0 61.0 26.0 37.0 18.0 21.0 25.0 1578.0 690.0 0 c 0 0 0 0 115.0 99.0 1572.0 73.0 16.0 14.0 18.0 23.0 81.0 0 g 0 0 0 0 1091.0 1218.0 35.0 26.0 1621.0 1610.0 1607.0 41.0 66.0 0 t 0 0 0 0 217.0 287.0 32.0 1529.0 10.0 20.0 15.0 23.0 828.0 0

MA1986.2_rc_shift6 (ZNF692_rc)
; oligos_6nt_mkv2_m5 versus MA1986.2_rc (ZNF692_rc); m=5/7; ncol2=8; w=0; offset=5; strand=R; shift=6; score=0.491428; ------sTGGGCCc ; cor=; Ncor= a 0 0 0 0 0 0 1192.0 0.0 21.0 17.0 22.0 26.0 13.0 1195.0 c 0 0 0 0 0 0 3703.0 210.0 176.0 241.0 7.0 10684.0 10642.0 6833.0 g 0 0 0 0 0 0 4998.0 0.0 10545.0 10446.0 10689.0 4.0 90.0 1314.0 t 0 0 0 0 0 0 852.0 10535.0 3.0 41.0 27.0 31.0 0.0 1403.0

MA2099.1_rc_shift1 (ZNF770_rc)
; oligos_6nt_mkv2_m5 versus MA2099.1_rc (ZNF770_rc); m=6/7; ncol2=8; w=0; offset=0; strand=R; shift=1; score=0.469977; -kGAGGCyG----- ; cor=; Ncor= a 0 724.0 56.0 13889.0 65.0 156.0 126.0 387.0 1052.0 0 0 0 0 0 c 0 485.0 86.0 215.0 133.0 681.0 13947.0 9119.0 374.0 0 0 0 0 0 g 0 3865.0 14154.0 140.0 14096.0 13393.0 79.0 857.0 12613.0 0 0 0 0 0 t 0 9257.0 35.0 87.0 37.0 101.0 179.0 3968.0 292.0 0 0 0 0 0

MA0039.5_rc_shift4 (KLF4_rc)
; oligos_6nt_mkv2_m5 versus MA0039.5_rc (KLF4_rc); m=7/7; ncol2=8; w=0; offset=3; strand=R; shift=4; score=0.433671; ----GGGTGGGG-- ; cor=; Ncor= a 0 0 0 0 2565.0 1218.0 1129.0 3456.0 976.0 1969.0 4633.0 2560.0 0 0 c 0 0 0 0 1005.0 1870.0 1470.0 6598.0 793.0 1422.0 1214.0 1583.0 0 0 g 0 0 0 0 51045.0 51112.0 52366.0 161.0 52875.0 45405.0 47865.0 49209.0 0 0 t 0 0 0 0 1202.0 1617.0 852.0 45602.0 1173.0 7021.0 2105.0 2465.0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv2_m5_shift1 (oligos_6nt_mkv2_m5)				; oligos_6nt_mkv2_m5; m=0 (reference); ncol1=13; shift=1; ncol=14; -ssAGGCTGGGcmg ; Alignment reference a 0 15 17 76 1 1 2 3 3 1 2 10 25 23 c 0 33 40 7 7 10 84 3 1 4 6 56 25 22 g 0 31 25 6 84 79 4 5 87 83 78 16 21 26 t 0 14 11 4 1 3 3 82 2 5 7 11 22 22
MA2121.1_rc_shift0 (ZNF213_rc)				; oligos_6nt_mkv2_m5 versus MA2121.1_rc (ZNF213_rc); m=1/7; ncol2=12; w=-1; offset=-1; strand=R; shift=0; score=0.625268; ysCwGCCTGGGc-- ; cor=; Ncor= a 55.0 47.0 50.0 237.0 7.0 11.0 3.0 22.0 8.0 32.0 28.0 76.0 0 0 c 330.0 260.0 519.0 124.0 22.0 639.0 661.0 54.0 34.0 34.0 52.0 403.0 0 0 g 86.0 319.0 76.0 97.0 642.0 25.0 13.0 34.0 630.0 603.0 581.0 89.0 0 0 t 216.0 61.0 42.0 229.0 16.0 12.0 10.0 577.0 15.0 18.0 26.0 119.0 0 0
MA2341.1_rc_shift3 (FEZF2_rc)				; oligos_6nt_mkv2_m5 versus MA2341.1_rc (FEZF2_rc); m=2/7; ncol2=8; w=0; offset=2; strand=R; shift=3; score=0.609709; ---AGGCTGGG--- ; cor=; Ncor= a 0 0 0 233.0 9.0 5.0 0.0 5.0 3.0 45.0 36.0 0 0 0 c 0 0 0 8.0 2.0 28.0 251.0 14.0 0.0 9.0 10.0 0 0 0 g 0 0 0 10.0 247.0 224.0 8.0 15.0 258.0 206.0 202.0 0 0 0 t 0 0 0 14.0 7.0 8.0 6.0 231.0 4.0 5.0 17.0 0 0 0
MA1656.2_rc_shift4 (ZNF449_rc)				; oligos_6nt_mkv2_m5 versus MA1656.2_rc (ZNF449_rc); m=3/7; ncol2=10; w=0; offset=3; strand=R; shift=4; score=0.587647; ----gGTTGGGCTt ; cor=; Ncor= a 0 0 0 0 1015.0 65.0 115.0 327.0 59.0 28.0 111.0 92.0 615.0 303.0 c 0 0 0 0 473.0 167.0 829.0 182.0 54.0 28.0 322.0 7368.0 224.0 1463.0 g 0 0 0 0 5029.0 7244.0 96.0 300.0 7479.0 7540.0 7088.0 92.0 582.0 1759.0 t 0 0 0 0 1143.0 184.0 6620.0 6851.0 68.0 64.0 139.0 108.0 6239.0 4135.0
MA2125.1_rc_shift4 (Zfp809_rc)				; oligos_6nt_mkv2_m5 versus MA2125.1_rc (Zfp809_rc); m=4/7; ncol2=9; w=0; offset=3; strand=R; shift=4; score=0.579835; ----gGCTGGGAw- ; cor=; Ncor= a 0 0 0 0 242.0 61.0 26.0 37.0 18.0 21.0 25.0 1578.0 690.0 0 c 0 0 0 0 115.0 99.0 1572.0 73.0 16.0 14.0 18.0 23.0 81.0 0 g 0 0 0 0 1091.0 1218.0 35.0 26.0 1621.0 1610.0 1607.0 41.0 66.0 0 t 0 0 0 0 217.0 287.0 32.0 1529.0 10.0 20.0 15.0 23.0 828.0 0
MA1986.2_rc_shift6 (ZNF692_rc)				; oligos_6nt_mkv2_m5 versus MA1986.2_rc (ZNF692_rc); m=5/7; ncol2=8; w=0; offset=5; strand=R; shift=6; score=0.491428; ------sTGGGCCc ; cor=; Ncor= a 0 0 0 0 0 0 1192.0 0.0 21.0 17.0 22.0 26.0 13.0 1195.0 c 0 0 0 0 0 0 3703.0 210.0 176.0 241.0 7.0 10684.0 10642.0 6833.0 g 0 0 0 0 0 0 4998.0 0.0 10545.0 10446.0 10689.0 4.0 90.0 1314.0 t 0 0 0 0 0 0 852.0 10535.0 3.0 41.0 27.0 31.0 0.0 1403.0
MA2099.1_rc_shift1 (ZNF770_rc)				; oligos_6nt_mkv2_m5 versus MA2099.1_rc (ZNF770_rc); m=6/7; ncol2=8; w=0; offset=0; strand=R; shift=1; score=0.469977; -kGAGGCyG----- ; cor=; Ncor= a 0 724.0 56.0 13889.0 65.0 156.0 126.0 387.0 1052.0 0 0 0 0 0 c 0 485.0 86.0 215.0 133.0 681.0 13947.0 9119.0 374.0 0 0 0 0 0 g 0 3865.0 14154.0 140.0 14096.0 13393.0 79.0 857.0 12613.0 0 0 0 0 0 t 0 9257.0 35.0 87.0 37.0 101.0 179.0 3968.0 292.0 0 0 0 0 0
MA0039.5_rc_shift4 (KLF4_rc)				; oligos_6nt_mkv2_m5 versus MA0039.5_rc (KLF4_rc); m=7/7; ncol2=8; w=0; offset=3; strand=R; shift=4; score=0.433671; ----GGGTGGGG-- ; cor=; Ncor= a 0 0 0 0 2565.0 1218.0 1129.0 3456.0 976.0 1969.0 4633.0 2560.0 0 0 c 0 0 0 0 1005.0 1870.0 1470.0 6598.0 793.0 1422.0 1214.0 1583.0 0 0 g 0 0 0 0 51045.0 51112.0 52366.0 161.0 52875.0 45405.0 47865.0 49209.0 0 0 t 0 0 0 0 1202.0 1617.0 852.0 45602.0 1173.0 7021.0 2105.0 2465.0 0 0