One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep2_motifs50/results/discovered_motifs/oligos_6nt_mkv3_m43/peak-motifs_oligos_6nt_mkv3_m43.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2020/nonredundant/JASPAR2020_CORE_vertebrates_non-redundant_pfms.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 Myogenin_Rep2_motifs50/results/discovered_motifs/oligos_6nt_mkv3_m43/peak-motifs_oligos_6nt_mkv3_m43_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m43_shift3 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m43_shift3 (oligos_6nt_mkv3_m43oligos_6nt_mkv3_m43)
; oligos_6nt_mkv3_m43 (oligos_6nt_mkv3_m43oligos_6nt_mkv3_m43); m=0 (reference); ncol1=11; shift=3; ncol=18; ---bcTAGCCACms---- ; Alignment reference a 0 0 0 25 30 1 138 9 1 0 132 0 52 19 0 0 0 0 c 0 0 0 44 49 0 6 7 137 139 3 144 40 39 0 0 0 0 g 0 0 0 36 33 3 0 127 3 3 9 0 33 57 0 0 0 0 t 0 0 0 39 32 140 0 1 3 2 0 0 19 29 0 0 0 0

MA0509.2_rc_shift0 (RFX1_rc)
; oligos_6nt_mkv3_m43 versus MA0509.2_rc (RFX1_rc); m=1/6; ncol2=14; w=11; offset=-3; strand=R; shift=0; score=0.556796; tkCCaTrGCAACmr---- ; cor=; Ncor= a 2964.0 3928.0 1388.0 987.0 12054.0 339.0 11211.0 600.0 765.0 16820.0 17390.0 207.0 6733.0 5414.0 0 0 0 0 c 3717.0 3569.0 12433.0 14464.0 2717.0 773.0 103.0 99.0 15836.0 168.0 170.0 17249.0 5166.0 3749.0 0 0 0 0 g 1917.0 5984.0 1564.0 483.0 843.0 313.0 6614.0 17171.0 302.0 518.0 300.0 107.0 2608.0 5591.0 0 0 0 0 t 9394.0 4511.0 2607.0 2058.0 2378.0 16567.0 64.0 122.0 1089.0 486.0 132.0 429.0 3485.0 3238.0 0 0 0 0

MA0002.2_rc_shift5 (RUNX1_rc)
; oligos_6nt_mkv3_m43 versus MA0002.2_rc (RUNX1_rc); m=2/6; ncol2=11; w=9; offset=2; strand=R; shift=5; score=0.497137; -----waaCCACAram-- ; cor=; Ncor= a 0 0 0 0 0 1053.0 1325.0 1339.0 93.0 13.0 1716.0 53.0 1936.0 656.0 814.0 521.0 0 0 c 0 0 0 0 0 289.0 81.0 251.0 1848.0 1987.0 70.0 1872.0 7.0 149.0 467.0 696.0 0 0 g 0 0 0 0 0 158.0 463.0 400.0 42.0 0.0 127.0 75.0 0.0 1072.0 485.0 496.0 0 0 t 0 0 0 0 0 500.0 131.0 10.0 17.0 0.0 87.0 0.0 57.0 123.0 234.0 287.0 0 0

MA0079.4_shift4 (SP1)
; oligos_6nt_mkv3_m43 versus MA0079.4 (SP1); m=3/6; ncol2=15; w=10; offset=1; strand=D; shift=4; score=0.451541; ----ywrRCCACGCCCmC ; cor=; Ncor= a 0 0 0 0 7866.0 28233.0 28895.0 14584.0 962.0 55.0 42154.0 0.0 959.0 0.0 8.0 0.0 24666.0 1195.0 c 0 0 0 0 13273.0 1872.0 1530.0 0.0 48854.0 49649.0 12672.0 49660.0 0.0 49666.0 49662.0 48772.0 24196.0 37612.0 g 0 0 0 0 9691.0 999.0 19477.0 37543.0 82.0 0.0 0.0 0.0 48957.0 0.0 0.0 0.0 15.0 919.0 t 0 0 0 0 18833.0 19877.0 1184.0 153.0 124.0 1670.0 0.0 31.0 867.0 17.0 0.0 1440.0 1373.0 10717.0

MA0493.1_shift6 (Klf1)
; oligos_6nt_mkv3_m43 versus MA0493.1 (Klf1); m=4/6; ncol2=11; w=8; offset=3; strand=D; shift=6; score=0.421509; ------rrCCACACCCw- ; cor=; Ncor= a 0 0 0 0 0 0 150.0 167.0 67.0 13.0 404.0 0.0 400.0 0.0 0.0 0.0 280.0 0 c 0 0 0 0 0 0 76.0 40.0 396.0 461.0 118.0 526.0 0.0 526.0 526.0 508.0 35.0 0 g 0 0 0 0 0 0 202.0 305.0 32.0 0.0 0.0 0.0 97.0 0.0 0.0 0.0 0.0 0 t 0 0 0 0 0 0 98.0 14.0 31.0 52.0 4.0 0.0 29.0 0.0 0.0 18.0 211.0 0

MA0130.1_shift6 (ZNF354C)
; oligos_6nt_mkv3_m43 versus MA0130.1 (ZNF354C); m=5/6; ncol2=6; w=6; offset=3; strand=D; shift=6; score=0.417178; ------mTCCAC------ ; cor=; Ncor= a 0 0 0 0 0 0 7.0 3.0 0.0 0.0 16.0 0.0 0 0 0 0 0 0 c 0 0 0 0 0 0 6.0 2.0 16.0 16.0 0.0 15.0 0 0 0 0 0 0 g 0 0 0 0 0 0 3.0 0.0 0.0 0.0 0.0 1.0 0 0 0 0 0 0 t 0 0 0 0 0 0 0.0 11.0 0.0 0.0 0.0 0.0 0 0 0 0 0 0

MA0685.1_shift4 (SP4)
; oligos_6nt_mkv3_m43 versus MA0685.1 (SP4); m=6/6; ncol2=17; w=10; offset=1; strand=D; shift=4; score=0.409257; ----ywrGCCACGCCCmC ; cor=; Ncor= a 0 0 0 0 621.0 2173.0 2600.0 939.0 260.0 2.0 3004.0 2.0 10.0 2.0 3.0 0.0 1840.0 113.0 c 0 0 0 0 1405.0 156.0 146.0 6.0 4443.0 4492.0 991.0 4662.0 14.0 4681.0 4732.0 4667.0 2430.0 4276.0 g 0 0 0 0 823.0 65.0 1639.0 4774.0 0.0 5.0 3.0 0.0 5444.0 4.0 2.0 3.0 9.0 21.0 t 0 0 0 0 1622.0 1809.0 199.0 16.0 4.0 135.0 0.0 0.0 55.0 0.0 0.0 72.0 67.0 1067.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m43_shift3 (oligos_6nt_mkv3_m43oligos_6nt_mkv3_m43)				; oligos_6nt_mkv3_m43 (oligos_6nt_mkv3_m43oligos_6nt_mkv3_m43); m=0 (reference); ncol1=11; shift=3; ncol=18; ---bcTAGCCACms---- ; Alignment reference a 0 0 0 25 30 1 138 9 1 0 132 0 52 19 0 0 0 0 c 0 0 0 44 49 0 6 7 137 139 3 144 40 39 0 0 0 0 g 0 0 0 36 33 3 0 127 3 3 9 0 33 57 0 0 0 0 t 0 0 0 39 32 140 0 1 3 2 0 0 19 29 0 0 0 0
MA0509.2_rc_shift0 (RFX1_rc)				; oligos_6nt_mkv3_m43 versus MA0509.2_rc (RFX1_rc); m=1/6; ncol2=14; w=11; offset=-3; strand=R; shift=0; score=0.556796; tkCCaTrGCAACmr---- ; cor=; Ncor= a 2964.0 3928.0 1388.0 987.0 12054.0 339.0 11211.0 600.0 765.0 16820.0 17390.0 207.0 6733.0 5414.0 0 0 0 0 c 3717.0 3569.0 12433.0 14464.0 2717.0 773.0 103.0 99.0 15836.0 168.0 170.0 17249.0 5166.0 3749.0 0 0 0 0 g 1917.0 5984.0 1564.0 483.0 843.0 313.0 6614.0 17171.0 302.0 518.0 300.0 107.0 2608.0 5591.0 0 0 0 0 t 9394.0 4511.0 2607.0 2058.0 2378.0 16567.0 64.0 122.0 1089.0 486.0 132.0 429.0 3485.0 3238.0 0 0 0 0
MA0002.2_rc_shift5 (RUNX1_rc)				; oligos_6nt_mkv3_m43 versus MA0002.2_rc (RUNX1_rc); m=2/6; ncol2=11; w=9; offset=2; strand=R; shift=5; score=0.497137; -----waaCCACAram-- ; cor=; Ncor= a 0 0 0 0 0 1053.0 1325.0 1339.0 93.0 13.0 1716.0 53.0 1936.0 656.0 814.0 521.0 0 0 c 0 0 0 0 0 289.0 81.0 251.0 1848.0 1987.0 70.0 1872.0 7.0 149.0 467.0 696.0 0 0 g 0 0 0 0 0 158.0 463.0 400.0 42.0 0.0 127.0 75.0 0.0 1072.0 485.0 496.0 0 0 t 0 0 0 0 0 500.0 131.0 10.0 17.0 0.0 87.0 0.0 57.0 123.0 234.0 287.0 0 0
MA0079.4_shift4 (SP1)				; oligos_6nt_mkv3_m43 versus MA0079.4 (SP1); m=3/6; ncol2=15; w=10; offset=1; strand=D; shift=4; score=0.451541; ----ywrRCCACGCCCmC ; cor=; Ncor= a 0 0 0 0 7866.0 28233.0 28895.0 14584.0 962.0 55.0 42154.0 0.0 959.0 0.0 8.0 0.0 24666.0 1195.0 c 0 0 0 0 13273.0 1872.0 1530.0 0.0 48854.0 49649.0 12672.0 49660.0 0.0 49666.0 49662.0 48772.0 24196.0 37612.0 g 0 0 0 0 9691.0 999.0 19477.0 37543.0 82.0 0.0 0.0 0.0 48957.0 0.0 0.0 0.0 15.0 919.0 t 0 0 0 0 18833.0 19877.0 1184.0 153.0 124.0 1670.0 0.0 31.0 867.0 17.0 0.0 1440.0 1373.0 10717.0
MA0493.1_shift6 (Klf1)				; oligos_6nt_mkv3_m43 versus MA0493.1 (Klf1); m=4/6; ncol2=11; w=8; offset=3; strand=D; shift=6; score=0.421509; ------rrCCACACCCw- ; cor=; Ncor= a 0 0 0 0 0 0 150.0 167.0 67.0 13.0 404.0 0.0 400.0 0.0 0.0 0.0 280.0 0 c 0 0 0 0 0 0 76.0 40.0 396.0 461.0 118.0 526.0 0.0 526.0 526.0 508.0 35.0 0 g 0 0 0 0 0 0 202.0 305.0 32.0 0.0 0.0 0.0 97.0 0.0 0.0 0.0 0.0 0 t 0 0 0 0 0 0 98.0 14.0 31.0 52.0 4.0 0.0 29.0 0.0 0.0 18.0 211.0 0
MA0130.1_shift6 (ZNF354C)				; oligos_6nt_mkv3_m43 versus MA0130.1 (ZNF354C); m=5/6; ncol2=6; w=6; offset=3; strand=D; shift=6; score=0.417178; ------mTCCAC------ ; cor=; Ncor= a 0 0 0 0 0 0 7.0 3.0 0.0 0.0 16.0 0.0 0 0 0 0 0 0 c 0 0 0 0 0 0 6.0 2.0 16.0 16.0 0.0 15.0 0 0 0 0 0 0 g 0 0 0 0 0 0 3.0 0.0 0.0 0.0 0.0 1.0 0 0 0 0 0 0 t 0 0 0 0 0 0 0.0 11.0 0.0 0.0 0.0 0.0 0 0 0 0 0 0
MA0685.1_shift4 (SP4)				; oligos_6nt_mkv3_m43 versus MA0685.1 (SP4); m=6/6; ncol2=17; w=10; offset=1; strand=D; shift=4; score=0.409257; ----ywrGCCACGCCCmC ; cor=; Ncor= a 0 0 0 0 621.0 2173.0 2600.0 939.0 260.0 2.0 3004.0 2.0 10.0 2.0 3.0 0.0 1840.0 113.0 c 0 0 0 0 1405.0 156.0 146.0 6.0 4443.0 4492.0 991.0 4662.0 14.0 4681.0 4732.0 4667.0 2430.0 4276.0 g 0 0 0 0 823.0 65.0 1639.0 4774.0 0.0 5.0 3.0 0.0 5444.0 4.0 2.0 3.0 9.0 21.0 t 0 0 0 0 1622.0 1809.0 199.0 16.0 4.0 135.0 0.0 0.0 55.0 0.0 0.0 72.0 67.0 1067.0