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/positions_7nt_m4/peak-motifs_positions_7nt_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/positions_7nt_m4/peak-motifs_positions_7nt_m4_vs_db_JASPAR2024_CORE_vertebrates_non-redundant

One-to-n matrix alignment; reference matrix: positions_7nt_m4_shift0 ; 8 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m4_shift0 (positions_7nt_m4)
; positions_7nt_m4; m=0 (reference); ncol1=23; shift=0; ncol=23; wwaaagaggaACTTCCTCtttyh ; Alignment reference a 163 153 234 313 313 106 317 99 103 311 485 24 24 10 24 25 33 28 92 65 105 143 151 c 136 127 122 83 75 114 77 85 108 105 29 481 26 25 504 498 36 477 96 95 139 145 169 g 131 139 111 83 101 278 80 276 253 79 28 32 17 29 20 22 9 36 30 76 86 112 98 t 145 156 108 96 86 77 101 115 111 80 33 38 508 511 27 30 497 34 357 339 245 175 157

MA0080.7_rc_shift8 (Spi1_rc)
; positions_7nt_m4 versus MA0080.7_rc (Spi1_rc); m=1/7; ncol2=13; w=0; offset=8; strand=R; shift=8; score=0.510878; --------cCACTTCCTCTTt-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 12758.0 5766.0 79357.0 1375.0 2889.0 1028.0 956.0 1211.0 3016.0 4375.0 11187.0 6546.0 8997.0 0 0 c 0 0 0 0 0 0 0 0 57669.0 83385.0 5128.0 89140.0 1822.0 1063.0 101383.0 99360.0 9636.0 79986.0 10220.0 10614.0 22807.0 0 0 g 0 0 0 0 0 0 0 0 11577.0 6075.0 3716.0 7067.0 958.0 1095.0 831.0 550.0 2594.0 12201.0 2330.0 5758.0 6863.0 0 0 t 0 0 0 0 0 0 0 0 23194.0 9972.0 16997.0 7616.0 99529.0 102012.0 2028.0 4077.0 89952.0 8636.0 81461.0 82280.0 66531.0 0 0

MA0081.3_shift8 (SPIB)
; positions_7nt_m4 versus MA0081.3 (SPIB); m=2/7; ncol2=13; w=0; offset=8; strand=D; shift=8; score=0.503594; --------tCACTTCCTCttt-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 2179.0 379.0 24319.0 239.0 450.0 190.0 206.0 275.0 865.0 1020.0 4963.0 2838.0 4159.0 0 0 c 0 0 0 0 0 0 0 0 6429.0 23971.0 619.0 22730.0 236.0 200.0 26145.0 25492.0 4517.0 20113.0 3922.0 5425.0 6029.0 0 0 g 0 0 0 0 0 0 0 0 3193.0 1721.0 669.0 2516.0 157.0 243.0 153.0 129.0 1829.0 2316.0 781.0 2087.0 2409.0 0 0 t 0 0 0 0 0 0 0 0 15129.0 859.0 1323.0 1445.0 26087.0 26297.0 426.0 1034.0 19719.0 3481.0 17264.0 16580.0 14333.0 0 0

MA0687.2_rc_shift9 (SPIC_rc)
; positions_7nt_m4 versus MA0687.2_rc (SPIC_rc); m=3/7; ncol2=13; w=0; offset=9; strand=R; shift=9; score=0.48243; ---------tACTTCCksWTTt- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 19.0 194.0 0.0 8.0 16.0 26.0 3.0 0.0 13.0 75.0 4.0 18.0 40.0 0 c 0 0 0 0 0 0 0 0 0 9.0 17.0 231.0 13.0 0.0 232.0 217.0 48.0 181.0 0.0 0.0 13.0 70.0 0 g 0 0 0 0 0 0 0 0 0 36.0 24.0 0.0 31.0 7.0 0.0 8.0 59.0 75.0 0.0 9.0 25.0 31.0 0 t 0 0 0 0 0 0 0 0 0 115.0 45.0 13.0 192.0 204.0 13.0 0.0 88.0 30.0 171.0 194.0 186.0 162.0 0

MA1954.2_rc_shift10 (FOXO1::ELK1_rc)
; positions_7nt_m4 versus MA1954.2_rc (FOXO1::ELK1_rc); m=4/7; ncol2=13; w=0; offset=10; strand=R; shift=10; score=0.446412; ----------aCTTCCTGTTkwy ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 980.0 19.0 188.0 7.0 13.0 6.0 5.0 55.0 16.0 53.0 263.0 791.0 52.0 c 0 0 0 0 0 0 0 0 0 0 234.0 1357.0 22.0 16.0 1357.0 1357.0 15.0 23.0 64.0 57.0 31.0 292.0 636.0 g 0 0 0 0 0 0 0 0 0 0 377.0 103.0 35.0 33.0 7.0 4.0 228.0 1357.0 21.0 36.0 1094.0 82.0 233.0 t 0 0 0 0 0 0 0 0 0 0 195.0 248.0 1357.0 1357.0 9.0 2.0 1357.0 18.0 1357.0 1357.0 1010.0 566.0 722.0

MA1956.2_rc_shift10 (FOXO1::FLI1_rc)
; positions_7nt_m4 versus MA1956.2_rc (FOXO1::FLI1_rc); m=5/7; ncol2=13; w=0; offset=10; strand=R; shift=10; score=0.443609; ----------ACTTCCTGTTkwC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 208.0 0.0 34.0 1.0 1.0 0.0 0.0 3.0 6.0 0.0 4.0 208.0 0.0 c 0 0 0 0 0 0 0 0 0 0 16.0 208.0 0.0 0.0 208.0 208.0 1.0 0.0 0.0 0.0 0.0 15.0 169.0 g 0 0 0 0 0 0 0 0 0 0 44.0 12.0 4.0 0.0 0.0 4.0 10.0 208.0 0.0 5.0 65.0 57.0 16.0 t 0 0 0 0 0 0 0 0 0 0 5.0 47.0 208.0 208.0 8.0 12.0 208.0 0.0 208.0 208.0 142.0 100.0 39.0

MA1953.2_rc_shift10 (FOXO1::ELF1_rc)
; positions_7nt_m4 versus MA1953.2_rc (FOXO1::ELF1_rc); m=6/7; ncol2=13; w=0; offset=10; strand=R; shift=10; score=0.44198; ----------acTTCCTGTTkay ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 248.0 6.0 71.0 3.0 3.0 6.0 0.0 42.0 4.0 12.0 24.0 174.0 10.0 c 0 0 0 0 0 0 0 0 0 0 39.0 248.0 8.0 4.0 248.0 248.0 7.0 0.0 21.0 7.0 2.0 41.0 145.0 g 0 0 0 0 0 0 0 0 0 0 88.0 32.0 0.0 22.0 11.0 9.0 15.0 248.0 4.0 26.0 89.0 36.0 37.0 t 0 0 0 0 0 0 0 0 0 0 65.0 87.0 248.0 248.0 4.0 9.0 248.0 0.0 248.0 248.0 159.0 74.0 102.0

MA1955.2_rc_shift10 (FOXO1::ELK3_rc)
; positions_7nt_m4 versus MA1955.2_rc (FOXO1::ELK3_rc); m=7/7; ncol2=13; w=0; offset=10; strand=R; shift=10; score=0.438292; ----------aCTTCCTGTTkwy ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 127.0 5.0 12.0 8.0 4.0 0.0 1.0 4.0 0.0 2.0 0.0 127.0 10.0 c 0 0 0 0 0 0 0 0 0 0 18.0 127.0 1.0 0.0 127.0 127.0 7.0 0.0 9.0 5.0 0.0 16.0 73.0 g 0 0 0 0 0 0 0 0 0 0 40.0 10.0 12.0 0.0 4.0 4.0 28.0 127.0 0.0 1.0 56.0 40.0 7.0 t 0 0 0 0 0 0 0 0 0 0 16.0 24.0 127.0 127.0 3.0 2.0 127.0 0.0 127.0 127.0 71.0 77.0 54.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_7nt_m4_shift0 (positions_7nt_m4)				; positions_7nt_m4; m=0 (reference); ncol1=23; shift=0; ncol=23; wwaaagaggaACTTCCTCtttyh ; Alignment reference a 163 153 234 313 313 106 317 99 103 311 485 24 24 10 24 25 33 28 92 65 105 143 151 c 136 127 122 83 75 114 77 85 108 105 29 481 26 25 504 498 36 477 96 95 139 145 169 g 131 139 111 83 101 278 80 276 253 79 28 32 17 29 20 22 9 36 30 76 86 112 98 t 145 156 108 96 86 77 101 115 111 80 33 38 508 511 27 30 497 34 357 339 245 175 157
MA0080.7_rc_shift8 (Spi1_rc)				; positions_7nt_m4 versus MA0080.7_rc (Spi1_rc); m=1/7; ncol2=13; w=0; offset=8; strand=R; shift=8; score=0.510878; --------cCACTTCCTCTTt-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 12758.0 5766.0 79357.0 1375.0 2889.0 1028.0 956.0 1211.0 3016.0 4375.0 11187.0 6546.0 8997.0 0 0 c 0 0 0 0 0 0 0 0 57669.0 83385.0 5128.0 89140.0 1822.0 1063.0 101383.0 99360.0 9636.0 79986.0 10220.0 10614.0 22807.0 0 0 g 0 0 0 0 0 0 0 0 11577.0 6075.0 3716.0 7067.0 958.0 1095.0 831.0 550.0 2594.0 12201.0 2330.0 5758.0 6863.0 0 0 t 0 0 0 0 0 0 0 0 23194.0 9972.0 16997.0 7616.0 99529.0 102012.0 2028.0 4077.0 89952.0 8636.0 81461.0 82280.0 66531.0 0 0
MA0081.3_shift8 (SPIB)				; positions_7nt_m4 versus MA0081.3 (SPIB); m=2/7; ncol2=13; w=0; offset=8; strand=D; shift=8; score=0.503594; --------tCACTTCCTCttt-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 2179.0 379.0 24319.0 239.0 450.0 190.0 206.0 275.0 865.0 1020.0 4963.0 2838.0 4159.0 0 0 c 0 0 0 0 0 0 0 0 6429.0 23971.0 619.0 22730.0 236.0 200.0 26145.0 25492.0 4517.0 20113.0 3922.0 5425.0 6029.0 0 0 g 0 0 0 0 0 0 0 0 3193.0 1721.0 669.0 2516.0 157.0 243.0 153.0 129.0 1829.0 2316.0 781.0 2087.0 2409.0 0 0 t 0 0 0 0 0 0 0 0 15129.0 859.0 1323.0 1445.0 26087.0 26297.0 426.0 1034.0 19719.0 3481.0 17264.0 16580.0 14333.0 0 0
MA0687.2_rc_shift9 (SPIC_rc)				; positions_7nt_m4 versus MA0687.2_rc (SPIC_rc); m=3/7; ncol2=13; w=0; offset=9; strand=R; shift=9; score=0.48243; ---------tACTTCCksWTTt- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 19.0 194.0 0.0 8.0 16.0 26.0 3.0 0.0 13.0 75.0 4.0 18.0 40.0 0 c 0 0 0 0 0 0 0 0 0 9.0 17.0 231.0 13.0 0.0 232.0 217.0 48.0 181.0 0.0 0.0 13.0 70.0 0 g 0 0 0 0 0 0 0 0 0 36.0 24.0 0.0 31.0 7.0 0.0 8.0 59.0 75.0 0.0 9.0 25.0 31.0 0 t 0 0 0 0 0 0 0 0 0 115.0 45.0 13.0 192.0 204.0 13.0 0.0 88.0 30.0 171.0 194.0 186.0 162.0 0
MA1954.2_rc_shift10 (FOXO1::ELK1_rc)				; positions_7nt_m4 versus MA1954.2_rc (FOXO1::ELK1_rc); m=4/7; ncol2=13; w=0; offset=10; strand=R; shift=10; score=0.446412; ----------aCTTCCTGTTkwy ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 980.0 19.0 188.0 7.0 13.0 6.0 5.0 55.0 16.0 53.0 263.0 791.0 52.0 c 0 0 0 0 0 0 0 0 0 0 234.0 1357.0 22.0 16.0 1357.0 1357.0 15.0 23.0 64.0 57.0 31.0 292.0 636.0 g 0 0 0 0 0 0 0 0 0 0 377.0 103.0 35.0 33.0 7.0 4.0 228.0 1357.0 21.0 36.0 1094.0 82.0 233.0 t 0 0 0 0 0 0 0 0 0 0 195.0 248.0 1357.0 1357.0 9.0 2.0 1357.0 18.0 1357.0 1357.0 1010.0 566.0 722.0
MA1956.2_rc_shift10 (FOXO1::FLI1_rc)				; positions_7nt_m4 versus MA1956.2_rc (FOXO1::FLI1_rc); m=5/7; ncol2=13; w=0; offset=10; strand=R; shift=10; score=0.443609; ----------ACTTCCTGTTkwC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 208.0 0.0 34.0 1.0 1.0 0.0 0.0 3.0 6.0 0.0 4.0 208.0 0.0 c 0 0 0 0 0 0 0 0 0 0 16.0 208.0 0.0 0.0 208.0 208.0 1.0 0.0 0.0 0.0 0.0 15.0 169.0 g 0 0 0 0 0 0 0 0 0 0 44.0 12.0 4.0 0.0 0.0 4.0 10.0 208.0 0.0 5.0 65.0 57.0 16.0 t 0 0 0 0 0 0 0 0 0 0 5.0 47.0 208.0 208.0 8.0 12.0 208.0 0.0 208.0 208.0 142.0 100.0 39.0
MA1953.2_rc_shift10 (FOXO1::ELF1_rc)				; positions_7nt_m4 versus MA1953.2_rc (FOXO1::ELF1_rc); m=6/7; ncol2=13; w=0; offset=10; strand=R; shift=10; score=0.44198; ----------acTTCCTGTTkay ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 248.0 6.0 71.0 3.0 3.0 6.0 0.0 42.0 4.0 12.0 24.0 174.0 10.0 c 0 0 0 0 0 0 0 0 0 0 39.0 248.0 8.0 4.0 248.0 248.0 7.0 0.0 21.0 7.0 2.0 41.0 145.0 g 0 0 0 0 0 0 0 0 0 0 88.0 32.0 0.0 22.0 11.0 9.0 15.0 248.0 4.0 26.0 89.0 36.0 37.0 t 0 0 0 0 0 0 0 0 0 0 65.0 87.0 248.0 248.0 4.0 9.0 248.0 0.0 248.0 248.0 159.0 74.0 102.0
MA1955.2_rc_shift10 (FOXO1::ELK3_rc)				; positions_7nt_m4 versus MA1955.2_rc (FOXO1::ELK3_rc); m=7/7; ncol2=13; w=0; offset=10; strand=R; shift=10; score=0.438292; ----------aCTTCCTGTTkwy ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 127.0 5.0 12.0 8.0 4.0 0.0 1.0 4.0 0.0 2.0 0.0 127.0 10.0 c 0 0 0 0 0 0 0 0 0 0 18.0 127.0 1.0 0.0 127.0 127.0 7.0 0.0 9.0 5.0 0.0 16.0 73.0 g 0 0 0 0 0 0 0 0 0 0 40.0 10.0 12.0 0.0 4.0 4.0 28.0 127.0 0.0 1.0 56.0 40.0 7.0 t 0 0 0 0 0 0 0 0 0 0 16.0 24.0 127.0 127.0 3.0 2.0 127.0 0.0 127.0 127.0 71.0 77.0 54.0