; oligo-analysis -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Heliconius_melpomene.Hmel1.34/genome/Heliconius_melpomene.Hmel1.34_start_codons.wc -o $RSAT/public_html/data/genomes/Heliconius_melpomene.Hmel1.34/genome/Heliconius_melpomene.Hmel1.34_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/Heliconius_melpomene.Hmel1.34/genome/Heliconius_melpomene.Hmel1.34_start_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Heliconius_melpomene.Hmel1.34/genome/Heliconius_melpomene.Hmel1.34_start_codon_frequencies.tab ; Count overlapping matches ; Counted on a single strand ; Background model Bernoulli ; Background estimation method ; Sequence type DNA ; Nb of sequences 84461 ; Sum of sequence lengths 253383 ; discarded residues 15 (other letters than ACGT) ; discarded occurrences 5 (contain discarded residues) ; nb possible positions 84456 ; total oligo occurrences 84456 ; 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 0.1725750686748 14575 gta gta 0.0520981339396 4400 gtg gtg 0.0469712039405 3967 ata ata 0.0385881405702 3259 gtt gtt 0.0368712702472 3114 att att 0.0352136023492 2974 aaa aaa 0.0311996779388 2635 gaa gaa 0.0309273467841 2612 gtc gtc 0.0244506014966 2065 aat aat 0.0231481481481 1955 gat gat 0.0229468599034 1938 gca gca 0.0202117078716 1707 atc atc 0.0194894382874 1646 ggt ggt 0.0163398692810 1380 gag gag 0.0163280287961 1379 aac aac 0.0148598086578 1255 gct gct 0.0146703608980 1239 aca aca 0.0144098702283 1217 gac gac 0.0140309747087 1185 ttt ttt 0.0134981528843 1140 tta tta 0.0133087051246 1124 caa caa 0.0132613431846 1120 gga gga 0.0124798711755 1054 aga aga 0.0123022639007 1039 gcg gcg 0.0118996874112 1005 agt agt 0.0116273562565 982 tat tat 0.0106327555177 898 ttg ttg 0.0104433077579 882 cta cta 0.0102064980582 862 ctt ctt 0.0098986454485 836 ggc ggc 0.0098394430236 831 aag aag 0.0096973572038 819 ttc ttc 0.0092592592593 782 agc agc 0.0091408544094 772 act act 0.0091171734394 770 ctg ctg 0.0089987685896 760 tgt tgt 0.0088330017998 746 acg acg 0.0088330017998 746 gcc gcc 0.0087145969499 736 tgg tgg 0.0087027564649 735 tga tga 0.0084659467652 715 cat cat 0.0081936156105 692 agg agg 0.0079568059108 672 taa taa 0.0078384010609 662 tac tac 0.0077673581510 656 ctc ctc 0.0076489533011 646 tgc tgc 0.0070450885668 595 cca cca 0.0069977266269 591 tca tca 0.0065596286824 554 cac cac 0.0057544757033 486 acc acc 0.0055650279435 470 cgg cgg 0.0053163777588 449 cgt cgt 0.0051506109690 435 tct tct 0.0049256417543 416 ggg ggg 0.0049256417543 416 cct cct 0.0046177891446 390 tcg tcg 0.0043928199299 371 tcc tcc 0.0042507341101 359 ccg ccg 0.0042033721701 355 cga cga 0.0041678507152 352 cgc cgc 0.0037652742256 318 cag cag 0.0035639859809 301 ccc ccc 0.0031022070664 262 tag tag 0.0017997537179 152 ; Host name n85 ; Job started 2017-04-15.085018 ; Job done 2017-04-15.085020 ; Seconds 1.84 ; user 1.84 ; system 0.06 ; cuser 0 ; csystem 0