; oligo-analysis -quick -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i /software/CC/bio/opt/rsat/rsa-tools//public_html/data/genomes/Schizosaccharomyces_octosporus_yFS286_MO/genome/Schizosaccharomyces_octosporus_yFS286_MO_stop_codons.wc -o /software/CC/bio/opt/rsat/rsa-tools//public_html/data/genomes/Schizosaccharomyces_octosporus_yFS286_MO/genome/Schizosaccharomyces_octosporus_yFS286_MO_stop_codon_frequencies ; Citation: van Helden et al. (1998). J Mol Biol 281(5), 827-42. ; Program version 1.163 ; Quick counting mode ; Oligomer length 3 ; Input file $RSAT/public_html/data/genomes/Schizosaccharomyces_octosporus_yFS286_MO/genome/Schizosaccharomyces_octosporus_yFS286_MO_stop_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Schizosaccharomyces_octosporus_yFS286_MO/genome/Schizosaccharomyces_octosporus_yFS286_MO_stop_codon_frequencies ; Count overlapping matches ; Counted on a single strand ; Background model Bernoulli ; Background estimation method ; Sequence type DNA ; Nb of sequences 0 ; Sum of sequence lengths 0 ; discarded residues NA (quick mode) (other letters than ACGT) ; discarded occurrences NA (quick mode) (contain discarded residues) ; nb possible positions NA (quick mode) ; total oligo occurrences 4921 ; alphabet size 4 ; nb possible oligomers 64 ; oligomers tested for significance 0 ; Threshold values ; Parameter Lower Upper ; ms_P none 1 ; occ_P none 1 ; Sequences: ; ; 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 taa taa 0.6134931924406 3019 tga tga 0.1979272505588 974 tag tag 0.1832960780329 902 aaa aaa 0.0010160536476 5 att att 0.0004064214591 2 tgg tgg 0.0004064214591 2 cat cat 0.0004064214591 2 gtt gtt 0.0004064214591 2 ttc ttc 0.0002032107295 1 tgt tgt 0.0002032107295 1 ctt ctt 0.0002032107295 1 ggt ggt 0.0002032107295 1 cag cag 0.0002032107295 1 acc acc 0.0002032107295 1 atg atg 0.0002032107295 1 gag gag 0.0002032107295 1 gtc gtc 0.0002032107295 1 aag aag 0.0002032107295 1 tcc tcc 0.0002032107295 1 caa caa 0.0002032107295 1 ttg ttg 0.0002032107295 1 ; Host name nic42 ; Job started 2011_11_26.230256 ; Job done 2011_11_26.230258 ; Seconds 0.15