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_7nt_mkv2_m3/peak-motifs_oligos_7nt_mkv2_m3.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_7nt_mkv2_m3/peak-motifs_oligos_7nt_mkv2_m3_vs_db_JASPAR2024_CORE_vertebrates_non-redundant

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m3_shift3 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m3_shift3 (oligos_7nt_mkv2_m3)
; oligos_7nt_mkv2_m3; m=0 (reference); ncol1=13; shift=3; ncol=16; ---sssAGGCTGGggb ; Alignment reference a 0 0 0 19 20 11 110 2 1 5 8 3 11 29 31 18 c 0 0 0 42 39 32 8 5 1 115 5 3 4 12 27 36 g 0 0 0 41 42 75 4 114 122 4 7 119 109 67 53 34 t 0 0 0 24 25 8 4 5 2 2 106 1 2 18 15 38

MA1596.1_rc_shift0 (ZNF460_rc)
; oligos_7nt_mkv2_m3 versus MA1596.1_rc (ZNF460_rc); m=1/6; ncol2=16; w=-3; offset=-3; strand=R; shift=0; score=0.612985; CyyGGGAGGCkGAGGy ; cor=; Ncor= a 64.0 29.0 56.0 40.0 9.0 10.0 1570.0 6.0 11.0 35.0 85.0 29.0 1284.0 66.0 114.0 46.0 c 1147.0 421.0 930.0 27.0 15.0 15.0 17.0 9.0 7.0 1493.0 181.0 47.0 83.0 67.0 185.0 1023.0 g 158.0 175.0 110.0 1533.0 1583.0 1584.0 12.0 1596.0 1588.0 23.0 495.0 1519.0 218.0 1460.0 1264.0 131.0 t 243.0 987.0 516.0 12.0 5.0 3.0 13.0 1.0 6.0 61.0 851.0 17.0 27.0 19.0 49.0 412.0

MA2341.1_rc_shift6 (FEZF2_rc)
; oligos_7nt_mkv2_m3 versus MA2341.1_rc (FEZF2_rc); m=2/6; ncol2=8; w=0; offset=3; strand=R; shift=6; score=0.606407; ------AGGCTGGG-- ; cor=; Ncor= a 0 0 0 0 0 0 233.0 9.0 5.0 0.0 5.0 3.0 45.0 36.0 0 0 c 0 0 0 0 0 0 8.0 2.0 28.0 251.0 14.0 0.0 9.0 10.0 0 0 g 0 0 0 0 0 0 10.0 247.0 224.0 8.0 15.0 258.0 206.0 202.0 0 0 t 0 0 0 0 0 0 14.0 7.0 8.0 6.0 231.0 4.0 5.0 17.0 0 0

MA2125.1_rc_shift7 (Zfp809_rc)
; oligos_7nt_mkv2_m3 versus MA2125.1_rc (Zfp809_rc); m=3/6; ncol2=9; w=0; offset=4; strand=R; shift=7; score=0.581645; -------gGCTGGGAw ; cor=; Ncor= a 0 0 0 0 0 0 0 242.0 61.0 26.0 37.0 18.0 21.0 25.0 1578.0 690.0 c 0 0 0 0 0 0 0 115.0 99.0 1572.0 73.0 16.0 14.0 18.0 23.0 81.0 g 0 0 0 0 0 0 0 1091.0 1218.0 35.0 26.0 1621.0 1610.0 1607.0 41.0 66.0 t 0 0 0 0 0 0 0 217.0 287.0 32.0 1529.0 10.0 20.0 15.0 23.0 828.0

MA2121.1_shift2 (ZNF213)
; oligos_7nt_mkv2_m3 versus MA2121.1 (ZNF213); m=4/6; ncol2=12; w=-1; offset=-1; strand=D; shift=2; score=0.574449; --gCCCAGGCwGsr-- ; cor=; Ncor= a 0 0 119.0 26.0 18.0 15.0 577.0 10.0 12.0 16.0 229.0 42.0 61.0 216.0 0 0 c 0 0 89.0 581.0 603.0 630.0 34.0 13.0 25.0 642.0 97.0 76.0 319.0 86.0 0 0 g 0 0 403.0 52.0 34.0 34.0 54.0 661.0 639.0 22.0 124.0 519.0 260.0 330.0 0 0 t 0 0 76.0 28.0 32.0 8.0 22.0 3.0 11.0 7.0 237.0 50.0 47.0 55.0 0 0

MA2099.1_rc_shift4 (ZNF770_rc)
; oligos_7nt_mkv2_m3 versus MA2099.1_rc (ZNF770_rc); m=5/6; ncol2=8; w=0; offset=1; strand=R; shift=4; score=0.524881; ----kGAGGCyG---- ; cor=; Ncor= a 0 0 0 0 724.0 56.0 13889.0 65.0 156.0 126.0 387.0 1052.0 0 0 0 0 c 0 0 0 0 485.0 86.0 215.0 133.0 681.0 13947.0 9119.0 374.0 0 0 0 0 g 0 0 0 0 3865.0 14154.0 140.0 14096.0 13393.0 79.0 857.0 12613.0 0 0 0 0 t 0 0 0 0 9257.0 35.0 87.0 37.0 101.0 179.0 3968.0 292.0 0 0 0 0

MA0039.5_rc_shift7 (KLF4_rc)
; oligos_7nt_mkv2_m3 versus MA0039.5_rc (KLF4_rc); m=6/6; ncol2=8; w=0; offset=4; strand=R; shift=7; score=0.456995; -------GGGTGGGG- ; cor=; Ncor= a 0 0 0 0 0 0 0 2565.0 1218.0 1129.0 3456.0 976.0 1969.0 4633.0 2560.0 0 c 0 0 0 0 0 0 0 1005.0 1870.0 1470.0 6598.0 793.0 1422.0 1214.0 1583.0 0 g 0 0 0 0 0 0 0 51045.0 51112.0 52366.0 161.0 52875.0 45405.0 47865.0 49209.0 0 t 0 0 0 0 0 0 0 1202.0 1617.0 852.0 45602.0 1173.0 7021.0 2105.0 2465.0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv2_m3_shift3 (oligos_7nt_mkv2_m3)				; oligos_7nt_mkv2_m3; m=0 (reference); ncol1=13; shift=3; ncol=16; ---sssAGGCTGGggb ; Alignment reference a 0 0 0 19 20 11 110 2 1 5 8 3 11 29 31 18 c 0 0 0 42 39 32 8 5 1 115 5 3 4 12 27 36 g 0 0 0 41 42 75 4 114 122 4 7 119 109 67 53 34 t 0 0 0 24 25 8 4 5 2 2 106 1 2 18 15 38
MA1596.1_rc_shift0 (ZNF460_rc)				; oligos_7nt_mkv2_m3 versus MA1596.1_rc (ZNF460_rc); m=1/6; ncol2=16; w=-3; offset=-3; strand=R; shift=0; score=0.612985; CyyGGGAGGCkGAGGy ; cor=; Ncor= a 64.0 29.0 56.0 40.0 9.0 10.0 1570.0 6.0 11.0 35.0 85.0 29.0 1284.0 66.0 114.0 46.0 c 1147.0 421.0 930.0 27.0 15.0 15.0 17.0 9.0 7.0 1493.0 181.0 47.0 83.0 67.0 185.0 1023.0 g 158.0 175.0 110.0 1533.0 1583.0 1584.0 12.0 1596.0 1588.0 23.0 495.0 1519.0 218.0 1460.0 1264.0 131.0 t 243.0 987.0 516.0 12.0 5.0 3.0 13.0 1.0 6.0 61.0 851.0 17.0 27.0 19.0 49.0 412.0
MA2341.1_rc_shift6 (FEZF2_rc)				; oligos_7nt_mkv2_m3 versus MA2341.1_rc (FEZF2_rc); m=2/6; ncol2=8; w=0; offset=3; strand=R; shift=6; score=0.606407; ------AGGCTGGG-- ; cor=; Ncor= a 0 0 0 0 0 0 233.0 9.0 5.0 0.0 5.0 3.0 45.0 36.0 0 0 c 0 0 0 0 0 0 8.0 2.0 28.0 251.0 14.0 0.0 9.0 10.0 0 0 g 0 0 0 0 0 0 10.0 247.0 224.0 8.0 15.0 258.0 206.0 202.0 0 0 t 0 0 0 0 0 0 14.0 7.0 8.0 6.0 231.0 4.0 5.0 17.0 0 0
MA2125.1_rc_shift7 (Zfp809_rc)				; oligos_7nt_mkv2_m3 versus MA2125.1_rc (Zfp809_rc); m=3/6; ncol2=9; w=0; offset=4; strand=R; shift=7; score=0.581645; -------gGCTGGGAw ; cor=; Ncor= a 0 0 0 0 0 0 0 242.0 61.0 26.0 37.0 18.0 21.0 25.0 1578.0 690.0 c 0 0 0 0 0 0 0 115.0 99.0 1572.0 73.0 16.0 14.0 18.0 23.0 81.0 g 0 0 0 0 0 0 0 1091.0 1218.0 35.0 26.0 1621.0 1610.0 1607.0 41.0 66.0 t 0 0 0 0 0 0 0 217.0 287.0 32.0 1529.0 10.0 20.0 15.0 23.0 828.0
MA2121.1_shift2 (ZNF213)				; oligos_7nt_mkv2_m3 versus MA2121.1 (ZNF213); m=4/6; ncol2=12; w=-1; offset=-1; strand=D; shift=2; score=0.574449; --gCCCAGGCwGsr-- ; cor=; Ncor= a 0 0 119.0 26.0 18.0 15.0 577.0 10.0 12.0 16.0 229.0 42.0 61.0 216.0 0 0 c 0 0 89.0 581.0 603.0 630.0 34.0 13.0 25.0 642.0 97.0 76.0 319.0 86.0 0 0 g 0 0 403.0 52.0 34.0 34.0 54.0 661.0 639.0 22.0 124.0 519.0 260.0 330.0 0 0 t 0 0 76.0 28.0 32.0 8.0 22.0 3.0 11.0 7.0 237.0 50.0 47.0 55.0 0 0
MA2099.1_rc_shift4 (ZNF770_rc)				; oligos_7nt_mkv2_m3 versus MA2099.1_rc (ZNF770_rc); m=5/6; ncol2=8; w=0; offset=1; strand=R; shift=4; score=0.524881; ----kGAGGCyG---- ; cor=; Ncor= a 0 0 0 0 724.0 56.0 13889.0 65.0 156.0 126.0 387.0 1052.0 0 0 0 0 c 0 0 0 0 485.0 86.0 215.0 133.0 681.0 13947.0 9119.0 374.0 0 0 0 0 g 0 0 0 0 3865.0 14154.0 140.0 14096.0 13393.0 79.0 857.0 12613.0 0 0 0 0 t 0 0 0 0 9257.0 35.0 87.0 37.0 101.0 179.0 3968.0 292.0 0 0 0 0
MA0039.5_rc_shift7 (KLF4_rc)				; oligos_7nt_mkv2_m3 versus MA0039.5_rc (KLF4_rc); m=6/6; ncol2=8; w=0; offset=4; strand=R; shift=7; score=0.456995; -------GGGTGGGG- ; cor=; Ncor= a 0 0 0 0 0 0 0 2565.0 1218.0 1129.0 3456.0 976.0 1969.0 4633.0 2560.0 0 c 0 0 0 0 0 0 0 1005.0 1870.0 1470.0 6598.0 793.0 1422.0 1214.0 1583.0 0 g 0 0 0 0 0 0 0 51045.0 51112.0 52366.0 161.0 52875.0 45405.0 47865.0 49209.0 0 t 0 0 0 0 0 0 0 1202.0 1617.0 852.0 45602.0 1173.0 7021.0 2105.0 2465.0 0