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.2025-05-16.184343_2025-05-16.184343_1fYTf9/results/discovered_motifs/oligos_7nt_mkv2_m3/peak-motifs_oligos_7nt_mkv2_m3.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.2025-05-16.184343_2025-05-16.184343_1fYTf9/results/discovered_motifs/oligos_7nt_mkv2_m3/peak-motifs_oligos_7nt_mkv2_m3_vs_db_JASPAR2024_CORE_vertebrates_non-redundant

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m3_shift0 ; 8 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m3_shift0 (oligos_7nt_mkv2_m3)
; oligos_7nt_mkv2_m3; m=0 (reference); ncol1=14; shift=0; ncol=14; aaAGAAAGAAAAar ; Alignment reference a 31 37 65 8 73 76 72 6 73 67 70 55 36 33 c 14 8 1 3 0 0 1 2 3 2 3 4 8 15 g 18 14 6 61 3 1 3 69 2 6 2 13 19 20 t 15 19 6 6 2 1 2 1 0 3 3 6 15 10

MA1623.2_shift1 (Stat2)
; oligos_7nt_mkv2_m3 versus MA1623.2 (Stat2); m=1/7; ncol2=10; w=0; offset=1; strand=D; shift=1; score=0.508153; -gAAACAGAAA--- ; cor=; Ncor= a 0 969.0 3554.0 3736.0 3738.0 286.0 3146.0 152.0 3700.0 3747.0 3514.0 0 0 0 c 0 306.0 76.0 75.0 72.0 2907.0 151.0 45.0 49.0 45.0 147.0 0 0 0 g 0 2287.0 168.0 71.0 87.0 524.0 74.0 3707.0 163.0 98.0 157.0 0 0 0 t 0 397.0 161.0 77.0 62.0 242.0 588.0 55.0 47.0 69.0 141.0 0 0 0

MA1125.2_shift4 (ZNF384)
; oligos_7nt_mkv2_m3 versus MA1125.2 (ZNF384); m=2/7; ncol2=8; w=0; offset=4; strand=D; shift=4; score=0.463279; ----AAAAAAaa-- ; cor=; Ncor= a 0 0 0 0 30354.0 30191.0 30072.0 30252.0 30202.0 30406.0 20322.0 18916.0 0 0 c 0 0 0 0 7.0 35.0 21.0 13.0 26.0 6.0 2908.0 3963.0 0 0 g 0 0 0 0 13.0 19.0 26.0 15.0 14.0 0.0 2767.0 2898.0 0 0 t 0 0 0 0 59.0 188.0 314.0 153.0 191.0 21.0 4436.0 4656.0 0 0

MA0508.4_rc_shift1 (PRDM1_rc)
; oligos_7nt_mkv2_m3 versus MA0508.4_rc (PRDM1_rc); m=3/7; ncol2=7; w=0; offset=1; strand=R; shift=1; score=0.444483; -GAGAAAG------ ; cor=; Ncor= a 0 660.0 49466.0 432.0 52619.0 50943.0 52905.0 829.0 0 0 0 0 0 0 c 0 290.0 1390.0 207.0 561.0 1011.0 826.0 701.0 0 0 0 0 0 0 g 0 52821.0 1076.0 53465.0 488.0 1346.0 467.0 52752.0 0 0 0 0 0 0 t 0 1710.0 3549.0 1377.0 1813.0 2181.0 1283.0 1199.0 0 0 0 0 0 0

MA0869.3_shift0 (Sox11)
; oligos_7nt_mkv2_m3 versus MA0869.3 (Sox11); m=4/7; ncol2=8; w=0; offset=0; strand=D; shift=0; score=0.43716; GAACAAAG------ ; cor=; Ncor= a 1014.0 7912.0 9856.0 119.0 10020.0 9676.0 9276.0 506.0 0 0 0 0 0 0 c 764.0 766.0 100.0 9471.0 108.0 264.0 61.0 148.0 0 0 0 0 0 0 g 8063.0 1298.0 211.0 501.0 49.0 248.0 233.0 9486.0 0 0 0 0 0 0 t 407.0 272.0 81.0 157.0 71.0 60.0 678.0 108.0 0 0 0 0 0 0

MA0037.5_rc_shift6 (Gata3_rc)
; oligos_7nt_mkv2_m3 versus MA0037.5_rc (Gata3_rc); m=5/7; ncol2=8; w=0; offset=6; strand=R; shift=6; score=0.410717; ------AGATAAGa ; cor=; Ncor= a 0 0 0 0 0 0 20257.0 480.0 23868.0 800.0 22166.0 22866.0 2055.0 16442.0 c 0 0 0 0 0 0 608.0 255.0 291.0 528.0 960.0 280.0 2165.0 2551.0 g 0 0 0 0 0 0 903.0 23839.0 282.0 566.0 758.0 928.0 19702.0 3859.0 t 0 0 0 0 0 0 3100.0 294.0 427.0 22974.0 984.0 794.0 946.0 2016.0

MA1970.2_rc_shift6 (TRPS1_rc)
; oligos_7nt_mkv2_m3 versus MA1970.2_rc (TRPS1_rc); m=6/7; ncol2=8; w=0; offset=6; strand=R; shift=6; score=0.402495; ------AGATAAGA ; cor=; Ncor= a 0 0 0 0 0 0 13985.0 622.0 17527.0 299.0 16498.0 16758.0 1654.0 12628.0 c 0 0 0 0 0 0 716.0 263.0 179.0 329.0 449.0 320.0 1426.0 1749.0 g 0 0 0 0 0 0 792.0 17146.0 265.0 215.0 462.0 560.0 14262.0 2547.0 t 0 0 0 0 0 0 2790.0 252.0 312.0 17440.0 874.0 645.0 941.0 1359.0

MA1104.3_rc_shift6 (GATA6_rc)
; oligos_7nt_mkv2_m3 versus MA1104.3_rc (GATA6_rc); m=7/7; ncol2=8; w=0; offset=6; strand=R; shift=6; score=0.401466; ------AGATAAGA ; cor=; Ncor= a 0 0 0 0 0 0 61257.0 1706.0 76629.0 1124.0 72392.0 74865.0 5514.0 54635.0 c 0 0 0 0 0 0 1810.0 712.0 456.0 819.0 615.0 580.0 6459.0 7066.0 g 0 0 0 0 0 0 3228.0 75930.0 852.0 815.0 1393.0 1439.0 62936.0 11831.0 t 0 0 0 0 0 0 13149.0 1096.0 1507.0 76686.0 5044.0 2560.0 4535.0 5912.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv2_m3_shift0 (oligos_7nt_mkv2_m3)				; oligos_7nt_mkv2_m3; m=0 (reference); ncol1=14; shift=0; ncol=14; aaAGAAAGAAAAar ; Alignment reference a 31 37 65 8 73 76 72 6 73 67 70 55 36 33 c 14 8 1 3 0 0 1 2 3 2 3 4 8 15 g 18 14 6 61 3 1 3 69 2 6 2 13 19 20 t 15 19 6 6 2 1 2 1 0 3 3 6 15 10
MA1623.2_shift1 (Stat2)				; oligos_7nt_mkv2_m3 versus MA1623.2 (Stat2); m=1/7; ncol2=10; w=0; offset=1; strand=D; shift=1; score=0.508153; -gAAACAGAAA--- ; cor=; Ncor= a 0 969.0 3554.0 3736.0 3738.0 286.0 3146.0 152.0 3700.0 3747.0 3514.0 0 0 0 c 0 306.0 76.0 75.0 72.0 2907.0 151.0 45.0 49.0 45.0 147.0 0 0 0 g 0 2287.0 168.0 71.0 87.0 524.0 74.0 3707.0 163.0 98.0 157.0 0 0 0 t 0 397.0 161.0 77.0 62.0 242.0 588.0 55.0 47.0 69.0 141.0 0 0 0
MA1125.2_shift4 (ZNF384)				; oligos_7nt_mkv2_m3 versus MA1125.2 (ZNF384); m=2/7; ncol2=8; w=0; offset=4; strand=D; shift=4; score=0.463279; ----AAAAAAaa-- ; cor=; Ncor= a 0 0 0 0 30354.0 30191.0 30072.0 30252.0 30202.0 30406.0 20322.0 18916.0 0 0 c 0 0 0 0 7.0 35.0 21.0 13.0 26.0 6.0 2908.0 3963.0 0 0 g 0 0 0 0 13.0 19.0 26.0 15.0 14.0 0.0 2767.0 2898.0 0 0 t 0 0 0 0 59.0 188.0 314.0 153.0 191.0 21.0 4436.0 4656.0 0 0
MA0508.4_rc_shift1 (PRDM1_rc)				; oligos_7nt_mkv2_m3 versus MA0508.4_rc (PRDM1_rc); m=3/7; ncol2=7; w=0; offset=1; strand=R; shift=1; score=0.444483; -GAGAAAG------ ; cor=; Ncor= a 0 660.0 49466.0 432.0 52619.0 50943.0 52905.0 829.0 0 0 0 0 0 0 c 0 290.0 1390.0 207.0 561.0 1011.0 826.0 701.0 0 0 0 0 0 0 g 0 52821.0 1076.0 53465.0 488.0 1346.0 467.0 52752.0 0 0 0 0 0 0 t 0 1710.0 3549.0 1377.0 1813.0 2181.0 1283.0 1199.0 0 0 0 0 0 0
MA0869.3_shift0 (Sox11)				; oligos_7nt_mkv2_m3 versus MA0869.3 (Sox11); m=4/7; ncol2=8; w=0; offset=0; strand=D; shift=0; score=0.43716; GAACAAAG------ ; cor=; Ncor= a 1014.0 7912.0 9856.0 119.0 10020.0 9676.0 9276.0 506.0 0 0 0 0 0 0 c 764.0 766.0 100.0 9471.0 108.0 264.0 61.0 148.0 0 0 0 0 0 0 g 8063.0 1298.0 211.0 501.0 49.0 248.0 233.0 9486.0 0 0 0 0 0 0 t 407.0 272.0 81.0 157.0 71.0 60.0 678.0 108.0 0 0 0 0 0 0
MA0037.5_rc_shift6 (Gata3_rc)				; oligos_7nt_mkv2_m3 versus MA0037.5_rc (Gata3_rc); m=5/7; ncol2=8; w=0; offset=6; strand=R; shift=6; score=0.410717; ------AGATAAGa ; cor=; Ncor= a 0 0 0 0 0 0 20257.0 480.0 23868.0 800.0 22166.0 22866.0 2055.0 16442.0 c 0 0 0 0 0 0 608.0 255.0 291.0 528.0 960.0 280.0 2165.0 2551.0 g 0 0 0 0 0 0 903.0 23839.0 282.0 566.0 758.0 928.0 19702.0 3859.0 t 0 0 0 0 0 0 3100.0 294.0 427.0 22974.0 984.0 794.0 946.0 2016.0
MA1970.2_rc_shift6 (TRPS1_rc)				; oligos_7nt_mkv2_m3 versus MA1970.2_rc (TRPS1_rc); m=6/7; ncol2=8; w=0; offset=6; strand=R; shift=6; score=0.402495; ------AGATAAGA ; cor=; Ncor= a 0 0 0 0 0 0 13985.0 622.0 17527.0 299.0 16498.0 16758.0 1654.0 12628.0 c 0 0 0 0 0 0 716.0 263.0 179.0 329.0 449.0 320.0 1426.0 1749.0 g 0 0 0 0 0 0 792.0 17146.0 265.0 215.0 462.0 560.0 14262.0 2547.0 t 0 0 0 0 0 0 2790.0 252.0 312.0 17440.0 874.0 645.0 941.0 1359.0
MA1104.3_rc_shift6 (GATA6_rc)				; oligos_7nt_mkv2_m3 versus MA1104.3_rc (GATA6_rc); m=7/7; ncol2=8; w=0; offset=6; strand=R; shift=6; score=0.401466; ------AGATAAGA ; cor=; Ncor= a 0 0 0 0 0 0 61257.0 1706.0 76629.0 1124.0 72392.0 74865.0 5514.0 54635.0 c 0 0 0 0 0 0 1810.0 712.0 456.0 819.0 615.0 580.0 6459.0 7066.0 g 0 0 0 0 0 0 3228.0 75930.0 852.0 815.0 1393.0 1439.0 62936.0 11831.0 t 0 0 0 0 0 0 13149.0 1096.0 1507.0 76686.0 5044.0 2560.0 4535.0 5912.0