; oligo-analysis -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Daphnia_pulex.V1.0.34/genome/Daphnia_pulex.V1.0.34_start_codons.wc -o $RSAT/public_html/data/genomes/Daphnia_pulex.V1.0.34/genome/Daphnia_pulex.V1.0.34_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/Daphnia_pulex.V1.0.34/genome/Daphnia_pulex.V1.0.34_start_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Daphnia_pulex.V1.0.34/genome/Daphnia_pulex.V1.0.34_start_codon_frequencies.tab ; Count overlapping matches ; Counted on a single strand ; Background model Bernoulli ; Background estimation method ; Sequence type DNA ; Nb of sequences 142367 ; Sum of sequence lengths 427101 ; discarded residues 2 (other letters than ACGT) ; discarded occurrences 2 (contain discarded residues) ; nb possible positions 142365 ; total oligo occurrences 142365 ; 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 0.2264742036315 32242 gtt gtt 0.0450602325010 6415 gtg gtg 0.0385628490149 5490 gaa gaa 0.0357812664630 5094 att att 0.0331893372669 4725 gat gat 0.0271555508728 3866 gta gta 0.0261862114986 3728 aaa aaa 0.0236083306993 3361 gtc gtc 0.0228286446809 3250 aat aat 0.0190706985565 2715 gga gga 0.0188880693991 2689 gct gct 0.0183963755136 2619 atc atc 0.0181645769677 2586 ata ata 0.0175253749166 2495 ttt ttt 0.0173638183542 2472 gag gag 0.0173567941559 2471 ttg ttg 0.0173567941559 2471 gca gca 0.0167737856917 2388 gac gac 0.0155515751765 2214 ggt ggt 0.0144768728269 2061 gcc gcc 0.0125943876655 1793 gcg gcg 0.0113862255470 1621 aac aac 0.0113862255470 1621 ctg ctg 0.0112597899765 1603 act act 0.0108734590665 1548 aga aga 0.0106276121238 1513 tta tta 0.0105222491483 1498 ggc ggc 0.0103958135778 1480 ctt ctt 0.0101710392301 1448 agt agt 0.0100235310645 1427 acg acg 0.0098900712956 1408 caa caa 0.0097917325185 1394 aca aca 0.0097776841218 1392 ttc ttc 0.0097214905349 1384 acc acc 0.0086889333755 1237 aag aag 0.0083236750606 1185 tgg tgg 0.0082534330770 1175 agc agc 0.0082183120851 1170 tgt tgt 0.0082112878868 1169 ggg ggg 0.0077476907948 1103 cca cca 0.0076072068275 1083 tat tat 0.0076072068275 1083 ctc ctc 0.0075299406455 1072 tca tca 0.0074245776701 1057 cat cat 0.0072840937028 1037 agg agg 0.0072349243143 1030 cta cta 0.0068766901977 979 tgc tgc 0.0068415692059 974 tga tga 0.0067783514206 965 tct tct 0.0064482140976 918 tcg tcg 0.0063568995188 905 ccg ccg 0.0059143750220 842 tac tac 0.0058511572367 833 cct cct 0.0052400519791 746 cga cga 0.0050995680118 726 cac cac 0.0044463175640 633 ccc ccc 0.0041723738278 594 tcc tcc 0.0041232044393 587 taa taa 0.0040248656622 573 cgt cgt 0.0038000913146 541 cgg cgg 0.0035401959751 504 cgc cgc 0.0035331717768 503 cag cag 0.0031538650651 449 tag tag 0.0014750816563 210 ; Host name n81 ; Job started 2017-04-15.085143 ; Job done 2017-04-15.085150 ; Seconds 7.2 ; user 7.2 ; system 0.11 ; cuser 0 ; csystem 0