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.2025-05-16.175517_2025-05-16.175517_w6aMRg/results/discovered_motifs/oligos_6nt_mkv1_m5/peak-motifs_oligos_6nt_mkv1_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.2025-05-16.175517_2025-05-16.175517_w6aMRg/results/discovered_motifs/oligos_6nt_mkv1_m5/peak-motifs_oligos_6nt_mkv1_m5_vs_db_JASPAR2024_CORE_vertebrates_non-redundant

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv1_m5_shift6 ; 12 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv1_m5_shift6 (oligos_6nt_mkv1_m5)
; oligos_6nt_mkv1_m5; m=0 (reference); ncol1=12; shift=6; ncol=18; ------RYSACmvvnYvh ; Alignment reference a 0 0 0 0 0 0 3 0 0 4 0 2 2 1 1 0 1 1 c 0 0 0 0 0 0 0 1 1 0 4 2 1 2 1 1 1 2 g 0 0 0 0 0 0 1 0 3 0 0 0 1 1 1 0 2 0 t 0 0 0 0 0 0 0 3 0 0 0 0 0 0 1 3 0 1

MA1632.2_rc_shift6 (ATF2_rc)
; oligos_6nt_mkv1_m5 versus MA1632.2_rc (ATF2_rc); m=1/11; ncol2=10; w=0; offset=0; strand=R; shift=6; score=0.595031; ------aTGACvTCAT-- ; cor=; Ncor= a 0 0 0 0 0 0 36321.0 509.0 909.0 57832.0 261.0 18166.0 975.0 2498.0 57651.0 1438.0 0 0 c 0 0 0 0 0 0 5971.0 768.0 649.0 283.0 56882.0 23207.0 262.0 55318.0 328.0 6229.0 0 0 g 0 0 0 0 0 0 14153.0 218.0 53464.0 316.0 886.0 16970.0 396.0 408.0 899.0 3145.0 0 0 t 0 0 0 0 0 0 2949.0 57899.0 4372.0 963.0 1365.0 1051.0 57761.0 1170.0 516.0 48582.0 0 0

MA2327.1_shift9 (PGR)
; oligos_6nt_mkv1_m5 versus MA2327.1 (PGR); m=2/11; ncol2=9; w=0; offset=3; strand=D; shift=9; score=0.534336; ---------ACAkwmTGT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 29390.0 299.0 27485.0 5276.0 8275.0 8527.0 328.0 765.0 173.0 c 0 0 0 0 0 0 0 0 0 121.0 28612.0 363.0 6470.0 6654.0 9602.0 1695.0 185.0 190.0 g 0 0 0 0 0 0 0 0 0 189.0 185.0 1689.0 9598.0 6656.0 6465.0 364.0 28617.0 122.0 t 0 0 0 0 0 0 0 0 0 164.0 768.0 327.0 8520.0 8279.0 5270.0 27477.0 297.0 29379.0

MA1531.2_rc_shift7 (NR1D1_rc)
; oligos_6nt_mkv1_m5 versus MA1531.2_rc (NR1D1_rc); m=3/11; ncol2=14; w=0; offset=1; strand=R; shift=7; score=0.521179; -------TGACCyAcTrA ; cor=; Ncor= a 0 0 0 0 0 0 0 20.0 344.0 6595.0 6.0 1113.0 11.0 6595.0 301.0 7.0 4243.0 6595.0 c 0 0 0 0 0 0 0 917.0 89.0 700.0 6595.0 6595.0 3018.0 213.0 4428.0 2.0 2.0 1647.0 g 0 0 0 0 0 0 0 4.0 6595.0 429.0 0.0 0.0 92.0 117.0 1241.0 2.0 6595.0 206.0 t 0 0 0 0 0 0 0 6595.0 1.0 213.0 8.0 0.0 3576.0 20.0 625.0 6595.0 0.0 0.0

MA0774.1_shift6 (MEIS2)
; oligos_6nt_mkv1_m5 versus MA0774.1 (MEIS2); m=4/11; ncol2=8; w=0; offset=0; strand=D; shift=6; score=0.485772; ------tTGACAGs---- ; cor=; Ncor= a 0 0 0 0 0 0 408.0 31.0 0.0 1351.0 9.0 1351.0 83.0 157.0 0 0 0 0 c 0 0 0 0 0 0 264.0 3.0 0.0 3.0 1351.0 7.0 98.0 701.0 0 0 0 0 g 0 0 0 0 0 0 314.0 40.0 1351.0 25.0 0.0 4.0 1351.0 650.0 0 0 0 0 t 0 0 0 0 0 0 1351.0 1351.0 0.0 62.0 5.0 0.0 67.0 88.0 0 0 0 0

MA0775.2_shift6 (MEIS3)
; oligos_6nt_mkv1_m5 versus MA0775.2 (MEIS3); m=5/11; ncol2=7; w=0; offset=0; strand=D; shift=6; score=0.460262; ------wTGACAg----- ; cor=; Ncor= a 0 0 0 0 0 0 1866.0 465.0 0.0 7165.0 53.0 7165.0 1690.0 0 0 0 0 0 c 0 0 0 0 0 0 60.0 383.0 6.0 20.0 7165.0 8.0 1889.0 0 0 0 0 0 g 0 0 0 0 0 0 1788.0 260.0 7165.0 455.0 8.0 468.0 7165.0 0 0 0 0 0 t 0 0 0 0 0 0 3451.0 7165.0 0.0 53.0 160.0 145.0 2094.0 0 0 0 0 0

MA2324.1_shift6 (BCL11A)
; oligos_6nt_mkv1_m5 versus MA2324.1 (BCL11A); m=6/11; ncol2=7; w=0; offset=0; strand=D; shift=6; score=0.424439; ------CTGACCA----- ; cor=; Ncor= a 0 0 0 0 0 0 343.0 180.0 125.0 5724.0 155.0 143.0 4495.0 0 0 0 0 0 c 0 0 0 0 0 0 5024.0 120.0 281.0 92.0 5855.0 5964.0 641.0 0 0 0 0 0 g 0 0 0 0 0 0 591.0 165.0 5747.0 100.0 141.0 55.0 385.0 0 0 0 0 0 t 0 0 0 0 0 0 307.0 5800.0 112.0 349.0 114.0 103.0 744.0 0 0 0 0 0

MA0522.4_shift11 (TCF3)
; oligos_6nt_mkv1_m5 versus MA0522.4 (TCF3); m=7/11; ncol2=7; w=0; offset=5; strand=D; shift=11; score=0.42264; -----------CACCTGC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 469.0 28916.0 309.0 1127.0 380.0 1089.0 295.0 c 0 0 0 0 0 0 0 0 0 0 0 29379.0 396.0 28640.0 27199.0 2003.0 1038.0 28742.0 g 0 0 0 0 0 0 0 0 0 0 0 708.0 1574.0 1362.0 2652.0 1339.0 28642.0 987.0 t 0 0 0 0 0 0 0 0 0 0 0 705.0 375.0 950.0 283.0 27539.0 492.0 1237.0

MA1558.2_rc_shift11 (SNAI1_rc)
; oligos_6nt_mkv1_m5 versus MA1558.2_rc (SNAI1_rc); m=8/11; ncol2=7; w=0; offset=5; strand=R; shift=11; score=0.421111; -----------CACCTGy ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 311.0 19982.0 28.0 306.0 568.0 340.0 3518.0 c 0 0 0 0 0 0 0 0 0 0 0 19982.0 42.0 19982.0 19982.0 91.0 275.0 12989.0 g 0 0 0 0 0 0 0 0 0 0 0 0.0 0.0 5.0 517.0 297.0 19982.0 501.0 t 0 0 0 0 0 0 0 0 0 0 0 706.0 38.0 72.0 1766.0 19982.0 446.0 6993.0

MA1648.2_shift11 (TCF12)
; oligos_6nt_mkv1_m5 versus MA1648.2 (TCF12); m=9/11; ncol2=7; w=0; offset=5; strand=D; shift=11; score=0.420179; -----------CACCTGC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 955.0 52529.0 744.0 1913.0 1380.0 2819.0 1089.0 c 0 0 0 0 0 0 0 0 0 0 0 57848.0 2007.0 55598.0 55765.0 3886.0 2088.0 55061.0 g 0 0 0 0 0 0 0 0 0 0 0 1186.0 5607.0 3780.0 3536.0 2625.0 55922.0 2314.0 t 0 0 0 0 0 0 0 0 0 0 0 1887.0 1733.0 1754.0 662.0 53985.0 1047.0 3412.0

MA1535.2_rc_shift7 (NR2C1_rc)
; oligos_6nt_mkv1_m5 versus MA1535.2_rc (NR2C1_rc); m=10/11; ncol2=6; w=0; offset=1; strand=R; shift=7; score=0.411485; -------TGACCy----- ; cor=; Ncor= a 0 0 0 0 0 0 0 0.0 0.0 9622.0 0.0 297.0 55.0 0 0 0 0 0 c 0 0 0 0 0 0 0 1716.0 321.0 271.0 9622.0 9622.0 4756.0 0 0 0 0 0 g 0 0 0 0 0 0 0 0.0 9622.0 0.0 0.0 0.0 227.0 0 0 0 0 0 t 0 0 0 0 0 0 0 9622.0 0.0 0.0 0.0 0.0 4866.0 0 0 0 0 0

MA1985.1_shift0 (ZNF669)
; oligos_6nt_mkv1_m5 versus MA1985.1 (ZNF669); m=11/11; ncol2=15; w=-6; offset=-6; strand=D; shift=0; score=0.405077; gGGgyGAyGACCrcT--- ; cor=; Ncor= a 145.0 25.0 25.0 125.0 45.0 5.0 925.0 5.0 5.0 705.0 5.0 25.0 485.0 105.0 65.0 0 0 0 c 125.0 5.0 5.0 185.0 625.0 5.0 65.0 485.0 5.0 205.0 885.0 805.0 65.0 485.0 105.0 0 0 0 g 585.0 965.0 965.0 585.0 5.0 985.0 5.0 5.0 985.0 25.0 5.0 85.0 385.0 225.0 105.0 0 0 0 t 145.0 5.0 5.0 105.0 325.0 5.0 5.0 505.0 5.0 65.0 105.0 85.0 65.0 185.0 725.0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv1_m5_shift6 (oligos_6nt_mkv1_m5)				; oligos_6nt_mkv1_m5; m=0 (reference); ncol1=12; shift=6; ncol=18; ------RYSACmvvnYvh ; Alignment reference a 0 0 0 0 0 0 3 0 0 4 0 2 2 1 1 0 1 1 c 0 0 0 0 0 0 0 1 1 0 4 2 1 2 1 1 1 2 g 0 0 0 0 0 0 1 0 3 0 0 0 1 1 1 0 2 0 t 0 0 0 0 0 0 0 3 0 0 0 0 0 0 1 3 0 1
MA1632.2_rc_shift6 (ATF2_rc)				; oligos_6nt_mkv1_m5 versus MA1632.2_rc (ATF2_rc); m=1/11; ncol2=10; w=0; offset=0; strand=R; shift=6; score=0.595031; ------aTGACvTCAT-- ; cor=; Ncor= a 0 0 0 0 0 0 36321.0 509.0 909.0 57832.0 261.0 18166.0 975.0 2498.0 57651.0 1438.0 0 0 c 0 0 0 0 0 0 5971.0 768.0 649.0 283.0 56882.0 23207.0 262.0 55318.0 328.0 6229.0 0 0 g 0 0 0 0 0 0 14153.0 218.0 53464.0 316.0 886.0 16970.0 396.0 408.0 899.0 3145.0 0 0 t 0 0 0 0 0 0 2949.0 57899.0 4372.0 963.0 1365.0 1051.0 57761.0 1170.0 516.0 48582.0 0 0
MA2327.1_shift9 (PGR)				; oligos_6nt_mkv1_m5 versus MA2327.1 (PGR); m=2/11; ncol2=9; w=0; offset=3; strand=D; shift=9; score=0.534336; ---------ACAkwmTGT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 29390.0 299.0 27485.0 5276.0 8275.0 8527.0 328.0 765.0 173.0 c 0 0 0 0 0 0 0 0 0 121.0 28612.0 363.0 6470.0 6654.0 9602.0 1695.0 185.0 190.0 g 0 0 0 0 0 0 0 0 0 189.0 185.0 1689.0 9598.0 6656.0 6465.0 364.0 28617.0 122.0 t 0 0 0 0 0 0 0 0 0 164.0 768.0 327.0 8520.0 8279.0 5270.0 27477.0 297.0 29379.0
MA1531.2_rc_shift7 (NR1D1_rc)				; oligos_6nt_mkv1_m5 versus MA1531.2_rc (NR1D1_rc); m=3/11; ncol2=14; w=0; offset=1; strand=R; shift=7; score=0.521179; -------TGACCyAcTrA ; cor=; Ncor= a 0 0 0 0 0 0 0 20.0 344.0 6595.0 6.0 1113.0 11.0 6595.0 301.0 7.0 4243.0 6595.0 c 0 0 0 0 0 0 0 917.0 89.0 700.0 6595.0 6595.0 3018.0 213.0 4428.0 2.0 2.0 1647.0 g 0 0 0 0 0 0 0 4.0 6595.0 429.0 0.0 0.0 92.0 117.0 1241.0 2.0 6595.0 206.0 t 0 0 0 0 0 0 0 6595.0 1.0 213.0 8.0 0.0 3576.0 20.0 625.0 6595.0 0.0 0.0
MA0774.1_shift6 (MEIS2)				; oligos_6nt_mkv1_m5 versus MA0774.1 (MEIS2); m=4/11; ncol2=8; w=0; offset=0; strand=D; shift=6; score=0.485772; ------tTGACAGs---- ; cor=; Ncor= a 0 0 0 0 0 0 408.0 31.0 0.0 1351.0 9.0 1351.0 83.0 157.0 0 0 0 0 c 0 0 0 0 0 0 264.0 3.0 0.0 3.0 1351.0 7.0 98.0 701.0 0 0 0 0 g 0 0 0 0 0 0 314.0 40.0 1351.0 25.0 0.0 4.0 1351.0 650.0 0 0 0 0 t 0 0 0 0 0 0 1351.0 1351.0 0.0 62.0 5.0 0.0 67.0 88.0 0 0 0 0
MA0775.2_shift6 (MEIS3)				; oligos_6nt_mkv1_m5 versus MA0775.2 (MEIS3); m=5/11; ncol2=7; w=0; offset=0; strand=D; shift=6; score=0.460262; ------wTGACAg----- ; cor=; Ncor= a 0 0 0 0 0 0 1866.0 465.0 0.0 7165.0 53.0 7165.0 1690.0 0 0 0 0 0 c 0 0 0 0 0 0 60.0 383.0 6.0 20.0 7165.0 8.0 1889.0 0 0 0 0 0 g 0 0 0 0 0 0 1788.0 260.0 7165.0 455.0 8.0 468.0 7165.0 0 0 0 0 0 t 0 0 0 0 0 0 3451.0 7165.0 0.0 53.0 160.0 145.0 2094.0 0 0 0 0 0
MA2324.1_shift6 (BCL11A)				; oligos_6nt_mkv1_m5 versus MA2324.1 (BCL11A); m=6/11; ncol2=7; w=0; offset=0; strand=D; shift=6; score=0.424439; ------CTGACCA----- ; cor=; Ncor= a 0 0 0 0 0 0 343.0 180.0 125.0 5724.0 155.0 143.0 4495.0 0 0 0 0 0 c 0 0 0 0 0 0 5024.0 120.0 281.0 92.0 5855.0 5964.0 641.0 0 0 0 0 0 g 0 0 0 0 0 0 591.0 165.0 5747.0 100.0 141.0 55.0 385.0 0 0 0 0 0 t 0 0 0 0 0 0 307.0 5800.0 112.0 349.0 114.0 103.0 744.0 0 0 0 0 0
MA0522.4_shift11 (TCF3)				; oligos_6nt_mkv1_m5 versus MA0522.4 (TCF3); m=7/11; ncol2=7; w=0; offset=5; strand=D; shift=11; score=0.42264; -----------CACCTGC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 469.0 28916.0 309.0 1127.0 380.0 1089.0 295.0 c 0 0 0 0 0 0 0 0 0 0 0 29379.0 396.0 28640.0 27199.0 2003.0 1038.0 28742.0 g 0 0 0 0 0 0 0 0 0 0 0 708.0 1574.0 1362.0 2652.0 1339.0 28642.0 987.0 t 0 0 0 0 0 0 0 0 0 0 0 705.0 375.0 950.0 283.0 27539.0 492.0 1237.0
MA1558.2_rc_shift11 (SNAI1_rc)				; oligos_6nt_mkv1_m5 versus MA1558.2_rc (SNAI1_rc); m=8/11; ncol2=7; w=0; offset=5; strand=R; shift=11; score=0.421111; -----------CACCTGy ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 311.0 19982.0 28.0 306.0 568.0 340.0 3518.0 c 0 0 0 0 0 0 0 0 0 0 0 19982.0 42.0 19982.0 19982.0 91.0 275.0 12989.0 g 0 0 0 0 0 0 0 0 0 0 0 0.0 0.0 5.0 517.0 297.0 19982.0 501.0 t 0 0 0 0 0 0 0 0 0 0 0 706.0 38.0 72.0 1766.0 19982.0 446.0 6993.0
MA1648.2_shift11 (TCF12)				; oligos_6nt_mkv1_m5 versus MA1648.2 (TCF12); m=9/11; ncol2=7; w=0; offset=5; strand=D; shift=11; score=0.420179; -----------CACCTGC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 955.0 52529.0 744.0 1913.0 1380.0 2819.0 1089.0 c 0 0 0 0 0 0 0 0 0 0 0 57848.0 2007.0 55598.0 55765.0 3886.0 2088.0 55061.0 g 0 0 0 0 0 0 0 0 0 0 0 1186.0 5607.0 3780.0 3536.0 2625.0 55922.0 2314.0 t 0 0 0 0 0 0 0 0 0 0 0 1887.0 1733.0 1754.0 662.0 53985.0 1047.0 3412.0
MA1535.2_rc_shift7 (NR2C1_rc)				; oligos_6nt_mkv1_m5 versus MA1535.2_rc (NR2C1_rc); m=10/11; ncol2=6; w=0; offset=1; strand=R; shift=7; score=0.411485; -------TGACCy----- ; cor=; Ncor= a 0 0 0 0 0 0 0 0.0 0.0 9622.0 0.0 297.0 55.0 0 0 0 0 0 c 0 0 0 0 0 0 0 1716.0 321.0 271.0 9622.0 9622.0 4756.0 0 0 0 0 0 g 0 0 0 0 0 0 0 0.0 9622.0 0.0 0.0 0.0 227.0 0 0 0 0 0 t 0 0 0 0 0 0 0 9622.0 0.0 0.0 0.0 0.0 4866.0 0 0 0 0 0
MA1985.1_shift0 (ZNF669)				; oligos_6nt_mkv1_m5 versus MA1985.1 (ZNF669); m=11/11; ncol2=15; w=-6; offset=-6; strand=D; shift=0; score=0.405077; gGGgyGAyGACCrcT--- ; cor=; Ncor= a 145.0 25.0 25.0 125.0 45.0 5.0 925.0 5.0 5.0 705.0 5.0 25.0 485.0 105.0 65.0 0 0 0 c 125.0 5.0 5.0 185.0 625.0 5.0 65.0 485.0 5.0 205.0 885.0 805.0 65.0 485.0 105.0 0 0 0 g 585.0 965.0 965.0 585.0 5.0 985.0 5.0 5.0 985.0 25.0 5.0 85.0 385.0 225.0 105.0 0 0 0 t 145.0 5.0 5.0 105.0 325.0 5.0 5.0 505.0 5.0 65.0 105.0 85.0 65.0 185.0 725.0 0 0 0