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.2026-01-04.215525_2026-01-04.215525_0oPAHx/results/discovered_motifs/positions_7nt_m5/peak-motifs_positions_7nt_m5.tf -format2 tf -file2 $RSAT/public_html/motif_databases/cisBP2/cisBP_Homo_sapiens_2019.tf -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.2026-01-04.215525_2026-01-04.215525_0oPAHx/results/discovered_motifs/positions_7nt_m5/peak-motifs_positions_7nt_m5_vs_db_cisBP_Homo_sapiens

One-to-n matrix alignment; reference matrix: positions_7nt_m5_shift3 ; 12 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m5_shift3 (positions_7nt_m5)
; positions_7nt_m5; m=0 (reference); ncol1=12; shift=3; ncol=15; ---ssGTGCGCACss ; Alignment reference a 0 0 0 1191 1096 128 207 178 222 465 51 4928 56 1488 724 c 0 0 0 1944 1843 270 705 139 5164 373 5856 384 5770 1797 2365 g 0 0 0 2365 1797 5770 384 5856 373 5164 139 705 270 1843 1944 t 0 0 0 724 1488 56 4928 51 465 222 178 207 128 1096 1191

M00136_2.00_shift4 (M00136_2.00)
; positions_7nt_m5 versus M00136_2.00; m=1/11; ncol2=9; w=0; offset=1; strand=D; shift=4; score=0.640439; ----CGTGyGCAm-- ; cor=; Ncor= a 0 0 0 0 0.490196 0.247525 0.247525 0.247525 0.247525 0.247525 0.247525 99.2574 49.5098 0 0 c 0 0 0 0 98.5294 0.247525 0.247525 0.247525 49.7525 0.247525 99.2574 0.247525 49.5098 0 0 g 0 0 0 0 0.490196 99.2574 0.247525 99.2574 0.247525 99.2574 0.247525 0.247525 0.490196 0 0 t 0 0 0 0 0.490196 0.247525 99.2574 0.247525 49.7525 0.247525 0.247525 0.247525 0.490196 0 0

M08954_2.00_shift5 (ZBTB14)
; positions_7nt_m5 versus M08954_2.00 (ZBTB14); m=2/11; ncol2=9; w=0; offset=2; strand=D; shift=5; score=0.559261; -----GCGCGCwCc- ; cor=; Ncor= a 0 0 0 0 0 8.93971 0.2079 0.2079 1.0395 0.623701 1.4553 32.2245 2.9106 13.9293 0 c 0 0 0 0 0 9.77131 97.921 0.2079 97.2973 1.4553 95.0104 0.2079 77.9626 48.8565 0 g 0 0 0 0 0 75.8836 0.831601 91.8919 0.4158 96.8815 1.0395 0 9.77131 19.5426 0 t 0 0 0 0 0 5.40541 1.0395 7.69231 1.2474 1.0395 2.4948 67.5676 9.35551 17.6715 0

M04696_2.00_shift5 (E2F2)
; positions_7nt_m5 versus M04696_2.00 (E2F2); m=3/11; ncol2=11; w=0; offset=2; strand=D; shift=5; score=0.55435; -----GCGCGCGCgy ; cor=; Ncor= a 0 0 0 0 0 0.657829 2.03349 2.1097 0.595179 0.375101 0.091818 2.46262 0.665273 10.9302 6.57546 c 0 0 0 0 0 0.30898 89.3633 0.29134 96.3396 0.932685 99.0818 1.17268 92.3018 18.4499 32.2595 g 0 0 0 0 0 96.8006 3.91976 97.5688 1.52763 98.459 0.122424 94.9086 5.38871 62.2604 7.70521 t 0 0 0 0 0 2.23263 4.68347 0.0301386 1.53755 0.233171 0.703938 1.45607 1.64417 8.35951 53.4598

M08387_2.00_shift5 (ZBTB14)
; positions_7nt_m5 versus M08387_2.00 (ZBTB14); m=4/11; ncol2=9; w=0; offset=2; strand=D; shift=5; score=0.545112; -----sCGCGCsCc- ; cor=; Ncor= a 0 0 0 0 0 0.0788644 0.0788644 0.0788644 0.0788644 0.0788644 0.0788644 12.6972 0.0788644 12.3817 0 c 0 0 0 0 0 36.6719 99.7634 0.0788644 99.7634 0.0788644 99.7634 37.6183 99.7634 57.1767 0 g 0 0 0 0 0 57.4921 0.0788644 99.7634 0.0788644 99.7634 0.0788644 49.6057 0.0788644 20.2681 0 t 0 0 0 0 0 5.7571 0.0788644 0.0788644 0.0788644 0.0788644 0.0788644 0.0788644 0.0788644 10.1735 0

M00336_2.00_rc_shift5 (PAX6_rc)
; positions_7nt_m5 versus M00336_2.00_rc (PAX6_rc); m=5/11; ncol2=8; w=0; offset=2; strand=R; shift=5; score=0.544251; -----GTGTGCAY-- ; cor=; Ncor= a 0 0 0 0 0 22.2345 6.71543 0.0664894 0.0664894 0.0664894 0.0664894 99.8005 0.0766871 0 0 c 0 0 0 0 0 0.110619 0.0664894 0.0664894 6.71543 0.0664894 99.8005 0.0664894 69.0951 0 0 g 0 0 0 0 0 77.5442 13.3644 99.8005 0.0664894 99.8005 0.0664894 0.0664894 0.0766871 0 0 t 0 0 0 0 0 0.110619 79.8537 0.0664894 93.1516 0.0664894 0.0664894 0.0664894 30.7515 0 0

M08981_2.00_rc_shift2 (M08981_2.00_rc)
; positions_7nt_m5 versus M08981_2.00_rc; m=6/11; ncol2=17; w=-1; offset=-1; strand=R; shift=2; score=0.510494; --syktTGCrCACGg ; cor=; Ncor= a 0 0 13.3242 19.2308 4.3956 16.4835 0 2.47253 0 67.3077 0 75 0 4.3956 19.7802 c 0 0 31.1813 29.3956 5.21978 17.8571 0 0 100 0 97.2527 12.9121 100 2.47253 4.3956 g 0 0 43.544 10.4396 27.1978 12.3626 0 97.5275 0 32.6923 2.74725 2.47253 0 84.6154 54.1209 t 0 0 11.9505 40.9341 63.1868 53.2967 100 0 0 0 0 9.61538 0 8.51648 21.7033

M08942_2.00_rc_shift2 (MTF1_rc)
; positions_7nt_m5 versus M08942_2.00_rc (MTF1_rc); m=7/11; ncol2=17; w=-1; offset=-1; strand=R; shift=2; score=0.510494; --syktTGCrCACGg ; cor=; Ncor= a 0 0 13.3242 19.2308 4.3956 16.4835 0 2.47253 0 67.3077 0 75 0 4.3956 19.7802 c 0 0 31.1813 29.3956 5.21978 17.8571 0 0 100 0 97.2527 12.9121 100 2.47253 4.3956 g 0 0 43.544 10.4396 27.1978 12.3626 0 97.5275 0 32.6923 2.74725 2.47253 0 84.6154 54.1209 t 0 0 11.9505 40.9341 63.1868 53.2967 100 0 0 0 0 9.61538 0 8.51648 21.7033

M09525_2.00_rc_shift3 (TFDP2,TFDP3_rc)
; positions_7nt_m5 versus M09525_2.00_rc (TFDP2,TFDP3_rc); m=8/11; ncol2=8; w=0; offset=0; strand=R; shift=3; score=0.503622; ---wrgCGCGC---- ; cor=; Ncor= a 0 0 0 29.7 48.7 23.6 19.8 0.1 0.1 8.2 0.3 0 0 0 0 c 0 0 0 0.1 11.3 0.1 70 0.1 99.7 0.1 76.1 0 0 0 0 g 0 0 0 15.1 25.7 66.4 0.1 99.7 0.1 91.6 3.4 0 0 0 0 t 0 0 0 55.1 14.3 9.9 10.1 0.1 0.1 0.1 20.2 0 0 0 0

M08177_2.00_shift1 (NRF1)
; positions_7nt_m5 versus M08177_2.00 (NRF1); m=9/11; ncol2=11; w=-2; offset=-2; strand=D; shift=1; score=0.502295; -GCGCmTGCGCr--- ; cor=; Ncor= a 0 13.019 13.4732 4.23875 0 32.7422 0 0 0 0 1.60035 48.551 0 0 0 c 0 8.10986 86.5268 4.08737 86.8512 40.2682 8.7154 0 93.8149 7.54758 98.3997 17.3875 0 0 0 g 0 78.8711 0 91.6739 10.1211 20.2206 11.4187 100 0 92.4524 0 34.0614 0 0 0 t 0 0 0 0 3.02768 6.76903 79.8659 0 6.18512 0 0 0 0 0 0

M01964_2.00_shift2 (M01964_2.00)
; positions_7nt_m5 versus M01964_2.00; m=10/11; ncol2=10; w=-1; offset=-1; strand=D; shift=2; score=0.494419; --agsGCGCGCg--- ; cor=; Ncor= a 0 0 31.8805 19.3453 9.92319 0.0135428 0.0135428 0.0135428 0.0135428 0.0135428 23.0338 24.2693 0 0 0 c 0 0 22.7065 17.8255 60.0146 0.0135428 99.9594 0.0135428 99.9594 20.2501 72.3521 24.6407 0 0 0 g 0 0 22.7065 40.2863 30.0486 99.9594 0.0135428 99.9594 0.0135428 79.7228 2.30703 26.3382 0 0 0 t 0 0 22.7065 22.5428 0.0135428 0.0135428 0.0135428 0.0135428 0.0135428 0.0135428 2.30703 24.7518 0 0 0

M04698_2.00_shift0 (E2F2)
; positions_7nt_m5 versus M04698_2.00 (E2F2); m=11/11; ncol2=11; w=-3; offset=-3; strand=D; shift=0; score=0.424062; sGkGsGcGCGC---- ; cor=; Ncor= a 11.3372 0 12.2294 3.82775 2.82686 2.18579 8.95522 4 8.26772 0 1.67598 0 0 0 0 c 36.6279 2.18579 19.3723 10.5263 63.2509 0 66.791 6.5 70.4724 2.18579 70.9497 0 0 0 0 g 44.7674 97.8142 42.6407 85.6459 25.4417 97.8142 11.9403 89.5 11.0236 97.8142 22.905 0 0 0 0 t 7.26744 0 25.7576 0 8.48057 0 12.3134 0 10.2362 0 4.46927 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_7nt_m5_shift3 (positions_7nt_m5)				; positions_7nt_m5; m=0 (reference); ncol1=12; shift=3; ncol=15; ---ssGTGCGCACss ; Alignment reference a 0 0 0 1191 1096 128 207 178 222 465 51 4928 56 1488 724 c 0 0 0 1944 1843 270 705 139 5164 373 5856 384 5770 1797 2365 g 0 0 0 2365 1797 5770 384 5856 373 5164 139 705 270 1843 1944 t 0 0 0 724 1488 56 4928 51 465 222 178 207 128 1096 1191
M00136_2.00_shift4 (M00136_2.00)				; positions_7nt_m5 versus M00136_2.00; m=1/11; ncol2=9; w=0; offset=1; strand=D; shift=4; score=0.640439; ----CGTGyGCAm-- ; cor=; Ncor= a 0 0 0 0 0.490196 0.247525 0.247525 0.247525 0.247525 0.247525 0.247525 99.2574 49.5098 0 0 c 0 0 0 0 98.5294 0.247525 0.247525 0.247525 49.7525 0.247525 99.2574 0.247525 49.5098 0 0 g 0 0 0 0 0.490196 99.2574 0.247525 99.2574 0.247525 99.2574 0.247525 0.247525 0.490196 0 0 t 0 0 0 0 0.490196 0.247525 99.2574 0.247525 49.7525 0.247525 0.247525 0.247525 0.490196 0 0
M08954_2.00_shift5 (ZBTB14)				; positions_7nt_m5 versus M08954_2.00 (ZBTB14); m=2/11; ncol2=9; w=0; offset=2; strand=D; shift=5; score=0.559261; -----GCGCGCwCc- ; cor=; Ncor= a 0 0 0 0 0 8.93971 0.2079 0.2079 1.0395 0.623701 1.4553 32.2245 2.9106 13.9293 0 c 0 0 0 0 0 9.77131 97.921 0.2079 97.2973 1.4553 95.0104 0.2079 77.9626 48.8565 0 g 0 0 0 0 0 75.8836 0.831601 91.8919 0.4158 96.8815 1.0395 0 9.77131 19.5426 0 t 0 0 0 0 0 5.40541 1.0395 7.69231 1.2474 1.0395 2.4948 67.5676 9.35551 17.6715 0
M04696_2.00_shift5 (E2F2)				; positions_7nt_m5 versus M04696_2.00 (E2F2); m=3/11; ncol2=11; w=0; offset=2; strand=D; shift=5; score=0.55435; -----GCGCGCGCgy ; cor=; Ncor= a 0 0 0 0 0 0.657829 2.03349 2.1097 0.595179 0.375101 0.091818 2.46262 0.665273 10.9302 6.57546 c 0 0 0 0 0 0.30898 89.3633 0.29134 96.3396 0.932685 99.0818 1.17268 92.3018 18.4499 32.2595 g 0 0 0 0 0 96.8006 3.91976 97.5688 1.52763 98.459 0.122424 94.9086 5.38871 62.2604 7.70521 t 0 0 0 0 0 2.23263 4.68347 0.0301386 1.53755 0.233171 0.703938 1.45607 1.64417 8.35951 53.4598
M08387_2.00_shift5 (ZBTB14)				; positions_7nt_m5 versus M08387_2.00 (ZBTB14); m=4/11; ncol2=9; w=0; offset=2; strand=D; shift=5; score=0.545112; -----sCGCGCsCc- ; cor=; Ncor= a 0 0 0 0 0 0.0788644 0.0788644 0.0788644 0.0788644 0.0788644 0.0788644 12.6972 0.0788644 12.3817 0 c 0 0 0 0 0 36.6719 99.7634 0.0788644 99.7634 0.0788644 99.7634 37.6183 99.7634 57.1767 0 g 0 0 0 0 0 57.4921 0.0788644 99.7634 0.0788644 99.7634 0.0788644 49.6057 0.0788644 20.2681 0 t 0 0 0 0 0 5.7571 0.0788644 0.0788644 0.0788644 0.0788644 0.0788644 0.0788644 0.0788644 10.1735 0
M00336_2.00_rc_shift5 (PAX6_rc)				; positions_7nt_m5 versus M00336_2.00_rc (PAX6_rc); m=5/11; ncol2=8; w=0; offset=2; strand=R; shift=5; score=0.544251; -----GTGTGCAY-- ; cor=; Ncor= a 0 0 0 0 0 22.2345 6.71543 0.0664894 0.0664894 0.0664894 0.0664894 99.8005 0.0766871 0 0 c 0 0 0 0 0 0.110619 0.0664894 0.0664894 6.71543 0.0664894 99.8005 0.0664894 69.0951 0 0 g 0 0 0 0 0 77.5442 13.3644 99.8005 0.0664894 99.8005 0.0664894 0.0664894 0.0766871 0 0 t 0 0 0 0 0 0.110619 79.8537 0.0664894 93.1516 0.0664894 0.0664894 0.0664894 30.7515 0 0
M08981_2.00_rc_shift2 (M08981_2.00_rc)				; positions_7nt_m5 versus M08981_2.00_rc; m=6/11; ncol2=17; w=-1; offset=-1; strand=R; shift=2; score=0.510494; --syktTGCrCACGg ; cor=; Ncor= a 0 0 13.3242 19.2308 4.3956 16.4835 0 2.47253 0 67.3077 0 75 0 4.3956 19.7802 c 0 0 31.1813 29.3956 5.21978 17.8571 0 0 100 0 97.2527 12.9121 100 2.47253 4.3956 g 0 0 43.544 10.4396 27.1978 12.3626 0 97.5275 0 32.6923 2.74725 2.47253 0 84.6154 54.1209 t 0 0 11.9505 40.9341 63.1868 53.2967 100 0 0 0 0 9.61538 0 8.51648 21.7033
M08942_2.00_rc_shift2 (MTF1_rc)				; positions_7nt_m5 versus M08942_2.00_rc (MTF1_rc); m=7/11; ncol2=17; w=-1; offset=-1; strand=R; shift=2; score=0.510494; --syktTGCrCACGg ; cor=; Ncor= a 0 0 13.3242 19.2308 4.3956 16.4835 0 2.47253 0 67.3077 0 75 0 4.3956 19.7802 c 0 0 31.1813 29.3956 5.21978 17.8571 0 0 100 0 97.2527 12.9121 100 2.47253 4.3956 g 0 0 43.544 10.4396 27.1978 12.3626 0 97.5275 0 32.6923 2.74725 2.47253 0 84.6154 54.1209 t 0 0 11.9505 40.9341 63.1868 53.2967 100 0 0 0 0 9.61538 0 8.51648 21.7033
M09525_2.00_rc_shift3 (TFDP2,TFDP3_rc)				; positions_7nt_m5 versus M09525_2.00_rc (TFDP2,TFDP3_rc); m=8/11; ncol2=8; w=0; offset=0; strand=R; shift=3; score=0.503622; ---wrgCGCGC---- ; cor=; Ncor= a 0 0 0 29.7 48.7 23.6 19.8 0.1 0.1 8.2 0.3 0 0 0 0 c 0 0 0 0.1 11.3 0.1 70 0.1 99.7 0.1 76.1 0 0 0 0 g 0 0 0 15.1 25.7 66.4 0.1 99.7 0.1 91.6 3.4 0 0 0 0 t 0 0 0 55.1 14.3 9.9 10.1 0.1 0.1 0.1 20.2 0 0 0 0
M08177_2.00_shift1 (NRF1)				; positions_7nt_m5 versus M08177_2.00 (NRF1); m=9/11; ncol2=11; w=-2; offset=-2; strand=D; shift=1; score=0.502295; -GCGCmTGCGCr--- ; cor=; Ncor= a 0 13.019 13.4732 4.23875 0 32.7422 0 0 0 0 1.60035 48.551 0 0 0 c 0 8.10986 86.5268 4.08737 86.8512 40.2682 8.7154 0 93.8149 7.54758 98.3997 17.3875 0 0 0 g 0 78.8711 0 91.6739 10.1211 20.2206 11.4187 100 0 92.4524 0 34.0614 0 0 0 t 0 0 0 0 3.02768 6.76903 79.8659 0 6.18512 0 0 0 0 0 0
M01964_2.00_shift2 (M01964_2.00)				; positions_7nt_m5 versus M01964_2.00; m=10/11; ncol2=10; w=-1; offset=-1; strand=D; shift=2; score=0.494419; --agsGCGCGCg--- ; cor=; Ncor= a 0 0 31.8805 19.3453 9.92319 0.0135428 0.0135428 0.0135428 0.0135428 0.0135428 23.0338 24.2693 0 0 0 c 0 0 22.7065 17.8255 60.0146 0.0135428 99.9594 0.0135428 99.9594 20.2501 72.3521 24.6407 0 0 0 g 0 0 22.7065 40.2863 30.0486 99.9594 0.0135428 99.9594 0.0135428 79.7228 2.30703 26.3382 0 0 0 t 0 0 22.7065 22.5428 0.0135428 0.0135428 0.0135428 0.0135428 0.0135428 0.0135428 2.30703 24.7518 0 0 0
M04698_2.00_shift0 (E2F2)				; positions_7nt_m5 versus M04698_2.00 (E2F2); m=11/11; ncol2=11; w=-3; offset=-3; strand=D; shift=0; score=0.424062; sGkGsGcGCGC---- ; cor=; Ncor= a 11.3372 0 12.2294 3.82775 2.82686 2.18579 8.95522 4 8.26772 0 1.67598 0 0 0 0 c 36.6279 2.18579 19.3723 10.5263 63.2509 0 66.791 6.5 70.4724 2.18579 70.9497 0 0 0 0 g 44.7674 97.8142 42.6407 85.6459 25.4417 97.8142 11.9403 89.5 11.0236 97.8142 22.905 0 0 0 0 t 7.26744 0 25.7576 0 8.48057 0 12.3134 0 10.2362 0 4.46927 0 0 0 0