One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep2_motifs50/results/discovered_motifs/oligos_6nt_mkv3_m49/peak-motifs_oligos_6nt_mkv3_m49.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_m49/peak-motifs_oligos_6nt_mkv3_m49_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m49_shift3 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m49_shift3 (oligos_6nt_mkv3_m49oligos_6nt_mkv3_m49)
; oligos_6nt_mkv3_m49 (oligos_6nt_mkv3_m49oligos_6nt_mkv3_m49); m=0 (reference); ncol1=11; shift=3; ncol=14; ---kgCCCAGGChs ; Alignment reference a 0 0 0 90 70 10 0 0 422 0 0 0 111 87 c 0 0 0 101 94 401 428 427 7 2 0 431 144 110 g 0 0 0 130 179 10 3 4 2 429 431 0 68 151 t 0 0 0 110 88 10 0 0 0 0 0 0 108 83

MA0812.1_shift2 (TFAP2B(var.2))
; oligos_6nt_mkv3_m49 versus MA0812.1 (TFAP2B(var.2)); m=1/4; ncol2=11; w=10; offset=-1; strand=D; shift=2; score=0.598551; --mGCCysAGGCd- ; cor=; Ncor= a 0 0 1784.0 36.0 0.0 0.0 16.0 576.0 3480.0 235.0 6.0 47.0 1822.0 0 c 0 0 1412.0 609.0 4549.0 4549.0 1204.0 2126.0 608.0 4.0 10.0 4250.0 371.0 0 g 0 0 232.0 3940.0 4.0 1.0 612.0 1498.0 446.0 4549.0 4549.0 299.0 1149.0 0 t 0 0 1121.0 30.0 0.0 158.0 2716.0 348.0 14.0 2.0 1.0 25.0 1207.0 0

MA0472.2_shift2 (EGR2)
; oligos_6nt_mkv3_m49 versus MA0472.2 (EGR2); m=2/4; ncol2=11; w=10; offset=-1; strand=D; shift=2; score=0.588816; --mCGCCCACGCa- ; cor=; Ncor= a 0 0 1157.0 0.0 295.0 6.0 24.0 0.0 2147.0 0.0 106.0 4.0 1731.0 0 c 0 0 679.0 1551.0 0.0 1558.0 1554.0 1468.0 110.0 1573.0 0.0 1585.0 157.0 0 g 0 0 94.0 28.0 3731.0 25.0 15.0 38.0 26.0 2.0 4034.0 20.0 542.0 0 t 0 0 142.0 73.0 222.0 29.0 13.0 277.0 2.0 23.0 171.0 115.0 430.0 0

MA0814.2_rc_shift0 (TFAP2C(var.2)_rc)
; oligos_6nt_mkv3_m49 versus MA0814.2_rc (TFAP2C(var.2)_rc); m=3/4; ncol2=14; w=11; offset=-3; strand=R; shift=0; score=0.556183; sbcGCCTCAGGccv ; cor=; Ncor= a 14898.0 10705.0 10707.0 3881.0 614.0 464.0 1084.0 1238.0 49003.0 660.0 702.0 4622.0 14497.0 16609.0 c 17367.0 18680.0 27373.0 9867.0 57916.0 57995.0 3944.0 55222.0 4910.0 2060.0 2273.0 37729.0 20129.0 17038.0 g 16468.0 15252.0 12553.0 42758.0 1575.0 1486.0 4733.0 3036.0 5539.0 57617.0 57108.0 14686.0 12565.0 15858.0 t 12086.0 16182.0 10186.0 4313.0 714.0 874.0 51058.0 1323.0 1367.0 482.0 736.0 3782.0 13628.0 11314.0

MA0003.4_shift0 (TFAP2A)
; oligos_6nt_mkv3_m49 versus MA0003.4 (TFAP2A); m=4/4; ncol2=14; w=11; offset=-3; strand=D; shift=0; score=0.555515; vytgCCTCAGGsma ; cor=; Ncor= a 4335.0 2763.0 2842.0 1088.0 280.0 116.0 278.0 530.0 13567.0 186.0 154.0 1221.0 4220.0 5204.0 c 4092.0 4620.0 2634.0 3615.0 15321.0 15351.0 1173.0 13536.0 739.0 217.0 234.0 9445.0 4783.0 3915.0 g 4072.0 3374.0 3791.0 9961.0 187.0 212.0 750.0 1406.0 1229.0 15432.0 15422.0 4098.0 3051.0 3841.0 t 3469.0 5211.0 6701.0 1304.0 180.0 289.0 13767.0 496.0 433.0 133.0 158.0 1204.0 3914.0 3008.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m49_shift3 (oligos_6nt_mkv3_m49oligos_6nt_mkv3_m49)				; oligos_6nt_mkv3_m49 (oligos_6nt_mkv3_m49oligos_6nt_mkv3_m49); m=0 (reference); ncol1=11; shift=3; ncol=14; ---kgCCCAGGChs ; Alignment reference a 0 0 0 90 70 10 0 0 422 0 0 0 111 87 c 0 0 0 101 94 401 428 427 7 2 0 431 144 110 g 0 0 0 130 179 10 3 4 2 429 431 0 68 151 t 0 0 0 110 88 10 0 0 0 0 0 0 108 83
MA0812.1_shift2 (TFAP2B(var.2))				; oligos_6nt_mkv3_m49 versus MA0812.1 (TFAP2B(var.2)); m=1/4; ncol2=11; w=10; offset=-1; strand=D; shift=2; score=0.598551; --mGCCysAGGCd- ; cor=; Ncor= a 0 0 1784.0 36.0 0.0 0.0 16.0 576.0 3480.0 235.0 6.0 47.0 1822.0 0 c 0 0 1412.0 609.0 4549.0 4549.0 1204.0 2126.0 608.0 4.0 10.0 4250.0 371.0 0 g 0 0 232.0 3940.0 4.0 1.0 612.0 1498.0 446.0 4549.0 4549.0 299.0 1149.0 0 t 0 0 1121.0 30.0 0.0 158.0 2716.0 348.0 14.0 2.0 1.0 25.0 1207.0 0
MA0472.2_shift2 (EGR2)				; oligos_6nt_mkv3_m49 versus MA0472.2 (EGR2); m=2/4; ncol2=11; w=10; offset=-1; strand=D; shift=2; score=0.588816; --mCGCCCACGCa- ; cor=; Ncor= a 0 0 1157.0 0.0 295.0 6.0 24.0 0.0 2147.0 0.0 106.0 4.0 1731.0 0 c 0 0 679.0 1551.0 0.0 1558.0 1554.0 1468.0 110.0 1573.0 0.0 1585.0 157.0 0 g 0 0 94.0 28.0 3731.0 25.0 15.0 38.0 26.0 2.0 4034.0 20.0 542.0 0 t 0 0 142.0 73.0 222.0 29.0 13.0 277.0 2.0 23.0 171.0 115.0 430.0 0
MA0814.2_rc_shift0 (TFAP2C(var.2)_rc)				; oligos_6nt_mkv3_m49 versus MA0814.2_rc (TFAP2C(var.2)_rc); m=3/4; ncol2=14; w=11; offset=-3; strand=R; shift=0; score=0.556183; sbcGCCTCAGGccv ; cor=; Ncor= a 14898.0 10705.0 10707.0 3881.0 614.0 464.0 1084.0 1238.0 49003.0 660.0 702.0 4622.0 14497.0 16609.0 c 17367.0 18680.0 27373.0 9867.0 57916.0 57995.0 3944.0 55222.0 4910.0 2060.0 2273.0 37729.0 20129.0 17038.0 g 16468.0 15252.0 12553.0 42758.0 1575.0 1486.0 4733.0 3036.0 5539.0 57617.0 57108.0 14686.0 12565.0 15858.0 t 12086.0 16182.0 10186.0 4313.0 714.0 874.0 51058.0 1323.0 1367.0 482.0 736.0 3782.0 13628.0 11314.0
MA0003.4_shift0 (TFAP2A)				; oligos_6nt_mkv3_m49 versus MA0003.4 (TFAP2A); m=4/4; ncol2=14; w=11; offset=-3; strand=D; shift=0; score=0.555515; vytgCCTCAGGsma ; cor=; Ncor= a 4335.0 2763.0 2842.0 1088.0 280.0 116.0 278.0 530.0 13567.0 186.0 154.0 1221.0 4220.0 5204.0 c 4092.0 4620.0 2634.0 3615.0 15321.0 15351.0 1173.0 13536.0 739.0 217.0 234.0 9445.0 4783.0 3915.0 g 4072.0 3374.0 3791.0 9961.0 187.0 212.0 750.0 1406.0 1229.0 15432.0 15422.0 4098.0 3051.0 3841.0 t 3469.0 5211.0 6701.0 1304.0 180.0 289.0 13767.0 496.0 433.0 133.0 158.0 1204.0 3914.0 3008.0