; oligo-analysis -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Drosophila_pseudoobscura.Dpse_3.0.34/genome/Drosophila_pseudoobscura.Dpse_3.0.34_start_codons.wc -o $RSAT/public_html/data/genomes/Drosophila_pseudoobscura.Dpse_3.0.34/genome/Drosophila_pseudoobscura.Dpse_3.0.34_start_codon_frequencies.tab ; Citation: van Helden et al. (1998). J Mol Biol 281(5), 827-42. ; Program version 1.169 ; Slow counting mode ; Oligomer length 3 ; Input file $RSAT/public_html/data/genomes/Drosophila_pseudoobscura.Dpse_3.0.34/genome/Drosophila_pseudoobscura.Dpse_3.0.34_start_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Drosophila_pseudoobscura.Dpse_3.0.34/genome/Drosophila_pseudoobscura.Dpse_3.0.34_start_codon_frequencies.tab ; Count overlapping matches ; Counted on a single strand ; Background model Bernoulli ; Background estimation method ; Sequence type DNA ; Nb of sequences 64201 ; Sum of sequence lengths 192603 ; discarded residues (other letters than ACGT) ; discarded occurrences (contain discarded residues) ; nb possible positions 64201 ; total oligo occurrences 64201 ; alphabet size 4 ; nb possible oligomers 64 ; oligomers tested for significance 0 ; ; column headers ; 1 seq oligomer sequence ; 2 id oligomer identifier ; 3 obs_freq observed relative frequency ; 4 occ observed occurrences #seq id obs_freq occ atg atg 0.2844036697248 18259 gtg gtg 0.0276008161867 1772 atc atc 0.0259185993988 1664 att att 0.0245323281569 1575 ctg ctg 0.0212301989066 1363 gtc gtc 0.0211367424183 1357 aaa aaa 0.0199373841529 1280 ata ata 0.0196414386069 1261 gca gca 0.0187691780502 1205 gtt gtt 0.0182863195277 1174 gaa gaa 0.0178969174935 1149 ctc ctc 0.0168221678790 1080 aac aac 0.0167287113908 1074 caa caa 0.0152334075793 978 aat aat 0.0146259404059 939 gcc gcc 0.0146259404059 939 ggc ggc 0.0140652014766 903 gta gta 0.0138938645815 892 gct gct 0.0138782885002 891 agc agc 0.0138004080933 886 gac gac 0.0130994844317 841 gat gat 0.0128658432112 826 ctt ctt 0.0127256584788 817 aca aca 0.0124764411769 801 cca cca 0.0121493434682 780 gag gag 0.0118533979222 761 cta cta 0.0116041806202 745 ttc ttc 0.0115263002134 740 tgc tgc 0.0112147785860 720 gcg gcg 0.0111213220978 714 cat cat 0.0109344091214 702 ttg ttg 0.0107474961449 690 cac cac 0.0105138549244 675 acc acc 0.0104827027616 673 act act 0.0102802137038 660 ttt ttt 0.0102179093784 656 gga gga 0.0093144966589 598 aga aga 0.0090652793570 582 ggt ggt 0.0090185511129 579 acg acg 0.0088316381365 567 tgg tgg 0.0087226055669 560 cgc cgc 0.0082864752885 532 cga cga 0.0081151383935 521 ccc ccc 0.0080839862307 519 cct cct 0.0080061058239 514 agt agt 0.0077101602779 495 ccg ccg 0.0073519104064 472 tga tga 0.0071805735113 461 tac tac 0.0067288671516 432 agg agg 0.0067132910702 431 tgt tgt 0.0065419541752 420 tca tca 0.0063083129546 405 tcc tcc 0.0061369760596 394 tta tta 0.0060279434900 387 aag aag 0.0058254544322 374 tct tct 0.0056541175371 363 tcg tcg 0.0055918132116 359 cgg cgg 0.0053581719911 344 tat tat 0.0051401068519 330 ggg ggg 0.0050310742823 323 cgt cgt 0.0049531938755 318 cag cag 0.0044236071089 284 taa taa 0.0026012055887 167 tag tag 0.0004361302783 28 ; Host name n50 ; Job started 2017-04-15.083707 ; Job done 2017-04-15.083709 ; Seconds 0.77 ; user 0.77 ; system 0.02 ; cuser 0 ; csystem 0