; oligo-analysis -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Melitaea_cinxia.MelCinx1.0.34/genome/Melitaea_cinxia.MelCinx1.0.34_start_codons.wc -o $RSAT/public_html/data/genomes/Melitaea_cinxia.MelCinx1.0.34/genome/Melitaea_cinxia.MelCinx1.0.34_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/Melitaea_cinxia.MelCinx1.0.34/genome/Melitaea_cinxia.MelCinx1.0.34_start_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Melitaea_cinxia.MelCinx1.0.34/genome/Melitaea_cinxia.MelCinx1.0.34_start_codon_frequencies.tab ; Count overlapping matches ; Counted on a single strand ; Background model Bernoulli ; Background estimation method ; Sequence type DNA ; Nb of sequences 96573 ; Sum of sequence lengths 289719 ; discarded residues 24 (other letters than ACGT) ; discarded occurrences 8 (contain discarded residues) ; nb possible positions 96565 ; total oligo occurrences 96565 ; 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 0.1866721897168 18026 gta gta 0.0396934707192 3833 ata ata 0.0377983741521 3650 att att 0.0367628022575 3550 gtt gtt 0.0351887329778 3398 aaa aaa 0.0345777455600 3339 gtg gtg 0.0325998032413 3148 gaa gaa 0.0281157769378 2715 aat aat 0.0252161756330 2435 ttt ttt 0.0216538083156 2091 gtc gtc 0.0208874851137 2017 tta tta 0.0203904106043 1969 gat gat 0.0203179205716 1962 atc atc 0.0178636151815 1725 aca aca 0.0161031429607 1555 aac aac 0.0155853570134 1505 tat tat 0.0152643297261 1474 ttg ttg 0.0141044892042 1362 gca gca 0.0140527106094 1357 ggt ggt 0.0140527106094 1357 aga aga 0.0138455962305 1337 gag gag 0.0128203800549 1238 gct gct 0.0125304199244 1210 agt agt 0.0123233055455 1190 ttc ttc 0.0122508155129 1183 gac gac 0.0120747682908 1166 caa caa 0.0119608553824 1155 aag aag 0.0119297882255 1152 act act 0.0113809351214 1099 taa taa 0.0111634650236 1078 ctt ctt 0.0109149277689 1054 tgt tgt 0.0105939004815 1023 cta cta 0.0101589602858 981 gga gga 0.0097136643711 938 acg acg 0.0094029928028 908 gcg gcg 0.0093201470512 900 tac tac 0.0093097913323 899 ctg ctg 0.0092580127375 894 tca tca 0.0089784083260 867 agc agc 0.0086159581629 832 cat cat 0.0083156423135 803 tga tga 0.0082845751566 800 agg agg 0.0076218091441 736 ggc ggc 0.0076114534252 735 tgg tgg 0.0075182519546 726 tct tct 0.0074043390462 715 ctc ctc 0.0071868689484 694 tgc tgc 0.0068969088179 666 gcc gcc 0.0066276601253 640 acc acc 0.0061512970538 594 cca cca 0.0057888468907 559 cac cac 0.0057267125770 553 tcg tcg 0.0054988867602 531 cga cga 0.0054574638844 527 cgt cgt 0.0052710609434 509 cct cct 0.0049086107803 474 ggg ggg 0.0042458447678 410 cgg cgg 0.0039765960752 384 tcc tcc 0.0038937503236 376 tag tag 0.0035416558795 342 cag cag 0.0034380986900 332 ccg ccg 0.0033345415005 322 cgc cgc 0.0030549370890 295 ccc ccc 0.0027960441154 270 ; Host name n43 ; Job started 2017-04-15.085719 ; Job done 2017-04-15.085720 ; Seconds 1.08 ; user 1.08 ; system 0.03 ; cuser 0 ; csystem 0