; oligo-analysis -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Salmo_salar.Ssal_v3.1.108/genome/Salmo_salar.Ssal_v3.1.108_start_codons.wc -o $RSAT/public_html/data/genomes/Salmo_salar.Ssal_v3.1.108/genome/Salmo_salar.Ssal_v3.1.108_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/Salmo_salar.Ssal_v3.1.108/genome/Salmo_salar.Ssal_v3.1.108_start_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Salmo_salar.Ssal_v3.1.108/genome/Salmo_salar.Ssal_v3.1.108_start_codon_frequencies.tab ; Count overlapping matches ; Counted on a single strand ; Background model Bernoulli ; Background estimation method ; Sequence type DNA ; Nb of sequences 1852893 ; Sum of sequence lengths 5558679 ; discarded residues (other letters than ACGT) ; discarded occurrences (contain discarded residues) ; nb possible positions 1852893 ; total oligo occurrences 1852893 ; 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 0.0952008561746 176397 gtg gtg 0.0795102577429 147324 gag gag 0.0383853789722 71124 gtt gtt 0.0342502238392 63462 gtc gtc 0.0303519955011 56239 gta gta 0.0299779857768 55546 ggt ggt 0.0254083749035 47079 gct gct 0.0252961180165 46871 gac gac 0.0241492628015 44746 ctg ctg 0.0235550568759 43645 gga gga 0.0229354852115 42497 atc atc 0.0224994103815 41689 gat gat 0.0222446735996 41217 gaa gaa 0.0219910162109 40747 gcc gcc 0.0212689021978 39409 gca gca 0.0183442864753 33990 ggc ggc 0.0173954999020 32232 ggg ggg 0.0168525651508 31226 att att 0.0157434886958 29171 aga aga 0.0153808125995 28499 aca aca 0.0150208349862 27832 aaa aaa 0.0148513702626 27518 tgt tgt 0.0147159064231 27267 agg agg 0.0138399788871 25644 acc acc 0.0135879405880 25177 ctc ctc 0.0135355900206 25080 act act 0.0134227934371 24871 agt agt 0.0130865624728 24248 tgg tgg 0.0127395375772 23605 ata ata 0.0124999122993 23161 agc agc 0.0124454029456 23060 aac aac 0.0123401621141 22865 ttg ttg 0.0121221246991 22461 tga tga 0.0120411702133 22311 ccc ccc 0.0108327895890 20072 aat aat 0.0107637084278 19944 gcg gcg 0.0107426602615 19905 ttt ttt 0.0103076648247 19099 tct tct 0.0102245515526 18945 cct cct 0.0101360413149 18781 ttc ttc 0.0098278745724 18210 tgc tgc 0.0094446900064 17500 cca cca 0.0094258006264 17465 caa caa 0.0084932049503 15737 acg acg 0.0083561220211 15483 tcc tcc 0.0081904351735 15176 aag aag 0.0081575136827 15115 ctt ctt 0.0075579107914 14004 cac cac 0.0074262248279 13760 tat tat 0.0073992399993 13710 cat cat 0.0072454264763 13425 cag cag 0.0067057299045 12425 cta cta 0.0066490617645 12320 tca tca 0.0064218495078 11899 tac tac 0.0063462919877 11759 cgg cgg 0.0049603511914 9191 tta tta 0.0045712299631 8470 taa taa 0.0044632906487 8270 ccg ccg 0.0040455655022 7496 cgt cgt 0.0039845797896 7383 tcg tcg 0.0035976173476 6666 cga cga 0.0029974747597 5554 cgc cgc 0.0024890805891 4612 tag tag 0.0012450799911 2307 ; Host name clust-rsat ; Job started 2024-05-22.074730 ; Job done 2024-05-22.074743 ; Seconds 13.28 ; user 13.28 ; system 0.19 ; cuser 0 ; csystem 0.01