; matrix-scan -v 1 -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/06/05/matrix-scan_2026-06-05.170949_x41OIf.matrix -pseudo 1 -decimals 1 -2str -origin end -bginput -markov 1 -bg_pseudo 0.01 -return limits -return sites -return pval -return rank -lth score 1 -uth pval 1e-4 -i $RSAT/public_html/tmp/www-data/2026/06/05/tmp_sequence_2026-06-05.170949_SiOn8c.fasta -seq_format fasta -n score ; Slow counting mode ; Input files ; input $RSAT/public_html/tmp/www-data/2026/06/05/tmp_sequence_2026-06-05.170949_SiOn8c.fasta ; Matrix files ; matrix 1 $RSAT/public_html/tmp/www-data/2026/06/05/matrix-scan_2026-06-05.170949_x41OIf.matrix ; Sequence format fasta ; Pseudo counts 1 ; Background model ; Method input ; Markov order 1 ; Strand undef ; Background pseudo-frequency 0.01 ; Residue probabilities ; a 0.33779 ; c 0.20939 ; g 0.14334 ; t 0.30948 ; Thresholds lower upper ; pval NA 0.0001 ; score 1 NA ; Output columns ; 1 seq_id ; 2 ft_type ; 3 ft_name ; 4 strand ; 5 start ; 6 end ; 7 sequence ; 8 weight #seq_id ft_type ft_name strand start end sequence weight Pval ln_Pval sig rank rank_pm BVRB_3g059400|Beta_vulgaris.RefBeet-1.2.2.60|BVRB_3g059400 limit START_END D -455 -1 . 0 0 0 0 BVRB_3g059400|Beta_vulgaris.RefBeet-1.2.2.60|BVRB_3g059400 site oligos_6-8nt_m3oligos_6-8nt_m3 D -339 -326 TAAAAGGCATGATT 11.8 5.5e-07 -14.405 6.256 1 1 BVRB_4g096340|Beta_vulgaris.RefBeet-1.2.2.60|BVRB_4g096340 limit START_END D -701 -1 . 0 0 0 0 T459_03445|Capsicum_annuum.ASM51225v2.60|T459_03445 limit START_END D -701 -1 . 0 0 0 0 T459_31204|Capsicum_annuum.ASM51225v2.60|T459_31204 limit START_END D -701 -1 . 0 0 0 0 T459_31204|Capsicum_annuum.ASM51225v2.60|T459_31204 site oligos_6-8nt_m3oligos_6-8nt_m3 R -321 -308 GTAGTGGCATGAAA 9.6 9.6e-06 -11.550 5.016 1 1 AUR62023693.v1.0|Chenopodium_quinoa.PI614886.392.v1.JGI|AUR62023693.v1.0 limit START_END D -701 -1 . 0 0 0 0 AUR62023693.v1.0|Chenopodium_quinoa.PI614886.392.v1.JGI|AUR62023693.v1.0 site oligos_6-8nt_m3oligos_6-8nt_m3 D -308 -295 ACAAAGGCATGAAT 11.4 1.1e-06 -13.752 5.972 1 1 Cla97C08G153070|Citrullus_lanatus.Cla97_v1.62|Cla97C08G153070 limit START_END D -701 -1 . 0 0 0 0 Cla97C08G153070|Citrullus_lanatus.Cla97_v1.62|Cla97C08G153070 site oligos_6-8nt_m3oligos_6-8nt_m3 R -39 -26 GGAGAGGCATCATT 7.4 7.9e-05 -9.452 4.105 1 1 MELO3C011439.2|Cucumis_melo.Melonv4.60|MELO3C011439.2 limit START_END D -701 -1 . 0 0 0 0 MELO3C011439.2|Cucumis_melo.Melonv4.60|MELO3C011439.2 site oligos_6-8nt_m3oligos_6-8nt_m3 D -442 -429 GTAAATGCATGTTT 8.1 4.3e-05 -10.062 4.370 1 1 Csa_6G366300|Cucumis_sativus.ASM407v2.60|Csa_6G366300 limit START_END D -701 -1 . 0 0 0 0 Csa_6G366300|Cucumis_sativus.ASM407v2.60|Csa_6G366300 site oligos_6-8nt_m3oligos_6-8nt_m3 D -621 -608 AGGATGGCTTGATT 8.5 2.9e-05 -10.447 4.537 1 1 Csa_6G366300|Cucumis_sativus.ASM407v2.60|Csa_6G366300 site oligos_6-8nt_m3oligos_6-8nt_m3 D -185 -172 ATATAGGCATAATT 7.5 7.3e-05 -9.529 4.138 2 2 HanXRQr2_Chr13g0574171|Helianthus_annuus.HanXRQr2.0-SUNRISE.60|HanXRQr2_Chr13g0574171 limit START_END D -701 -1 . 0 0 0 0 HanXRQr2_Chr13g0574171|Helianthus_annuus.HanXRQr2.0-SUNRISE.60|HanXRQr2_Chr13g0574171 site oligos_6-8nt_m3oligos_6-8nt_m3 R -265 -252 GTGGATGCATGAGA 8.4 3.2e-05 -10.351 4.495 1 1 HanXRQr2_Chr13g0574181|Helianthus_annuus.HanXRQr2.0-SUNRISE.60|HanXRQr2_Chr13g0574181 limit START_END D -701 -1 . 0 0 0 0 gene-LSAT_8X33320|Lactuca_sativa.Lsat_Salinas_v7.60|gene-LSAT_8X33320 limit START_END D -701 -1 . 0 0 0 0 gene-LSAT_8X33320|Lactuca_sativa.Lsat_Salinas_v7.60|gene-LSAT_8X33320 site oligos_6-8nt_m3oligos_6-8nt_m3 D -356 -343 CAAAAGCCATGTAA 8.0 4.7e-05 -9.970 4.330 1 1 gene25542|Medicago_truncatula.MtrunA17r50ANR.60|gene25542 limit START_END D -701 -1 . 0 0 0 0 gene25542|Medicago_truncatula.MtrunA17r50ANR.60|gene25542 site oligos_6-8nt_m3oligos_6-8nt_m3 D -193 -180 ATCAAGGCTTGATC 7.6 6.6e-05 -9.624 4.180 1 1 107761937|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107761937 limit START_END D -701 -1 . 0 0 0 0 107761937|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107761937 site oligos_6-8nt_m3oligos_6-8nt_m3 D -334 -321 AAAAAGGCATGAGA 11.5 9.2e-07 -13.904 6.038 1 1 107793142|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107793142 limit START_END D -701 -1 . 0 0 0 0 107759548|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107759548 limit START_END D -701 -1 . 0 0 0 0 107759548|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107759548 site oligos_6-8nt_m3oligos_6-8nt_m3 D -255 -242 TTAAAGGCATGGGA 9.1 1.6e-05 -11.035 4.793 1 1 107812499|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107812499 limit START_END D -701 -1 . 0 0 0 0 107812499|Nicotiana_tabacum_GCF_000715075.1_ASM71507v2|LOC107812499 site oligos_6-8nt_m3oligos_6-8nt_m3 D -318 -305 GTAAAGGCATGGGA 10.3 4.4e-06 -12.329 5.354 1 1 gene-LOC110794951|Spinacia_oleracea.GCF020520425.1.RefSeq|gene-LOC110794951 limit START_END D -701 -1 . 0 0 0 0 gene-LOC110794951|Spinacia_oleracea.GCF020520425.1.RefSeq|gene-LOC110794951 site oligos_6-8nt_m3oligos_6-8nt_m3 D -201 -188 GGAAAGGCATGAAA 12.0 3.8e-07 -14.770 6.415 1 1 ; ; Matrices ; matrix name ncol nrow pseudo Wmin Wmax Wrange ; 1 oligos_6-8nt_m3oligos_6-8nt_m3 14 4 1 -32.800 13.700 46.500 a:0.338 c:0.209 g:0.143 t:0.309 ; Number of sequences scanned 17 ; Sum of sequence lengths 11671 ; N residues 2211 ; Matches per matrix ; matrix name matches scored ; 1 oligos_6-8nt_m3oligos_6-8nt_m3 14 22900 ; TOTAL 14 22900 ; Host name rsat ; Job started 2026-06-05.170950 ; Job done 2026-06-05.170952 ; Seconds 2.51 ; user 2.51 ; system 0.02 ; cuser 0.12 ; csystem 0.01