; oligo-analysis -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Lingula_anatina.LinAna1.0.34/genome/Lingula_anatina.LinAna1.0.34_start_codons.wc -o $RSAT/public_html/data/genomes/Lingula_anatina.LinAna1.0.34/genome/Lingula_anatina.LinAna1.0.34_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/Lingula_anatina.LinAna1.0.34/genome/Lingula_anatina.LinAna1.0.34_start_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Lingula_anatina.LinAna1.0.34/genome/Lingula_anatina.LinAna1.0.34_start_codon_frequencies.tab ; Count overlapping matches ; Counted on a single strand ; Background model Bernoulli ; Background estimation method ; Sequence type DNA ; Nb of sequences 259335 ; Sum of sequence lengths 778005 ; discarded residues 13 (other letters than ACGT) ; discarded occurrences 7 (contain discarded residues) ; nb possible positions 259328 ; total oligo occurrences 259328 ; 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 0.1483950826752 38483 gtg gtg 0.0508815091313 13195 gtt gtt 0.0443993706811 11514 gta gta 0.0345739758144 8966 gaa gaa 0.0343541769497 8909 gtc gtc 0.0279221680652 7241 att att 0.0271200950148 7033 gca gca 0.0247640054294 6422 gat gat 0.0244516596742 6341 aaa aaa 0.0242434291708 6287 ctg ctg 0.0227433983218 5898 gag gag 0.0226894126357 5884 ata ata 0.0223115128332 5786 gct gct 0.0210235686081 5452 ggt ggt 0.0196469336130 5095 atc atc 0.0184091189536 4774 aat aat 0.0181623272458 4710 gga gga 0.0178075641658 4618 ttg ttg 0.0172754195459 4480 gac gac 0.0168512462981 4370 aca aca 0.0160684538500 4167 aga aga 0.0150889992596 3913 gcc gcc 0.0143601924975 3724 ttt ttt 0.0137663499506 3570 act act 0.0125709526160 3260 aac aac 0.0124976863277 3241 caa caa 0.0124668373643 3233 ggc ggc 0.0124398445212 3226 ctt ctt 0.0122084772952 3166 agt agt 0.0115182317374 2987 acc acc 0.0100182008885 2598 tgt tgt 0.0099719274432 2586 cat cat 0.0099603590819 2583 tga tga 0.0097521285785 2529 cca cca 0.0096518694472 2503 ctc ctc 0.0095631786772 2480 agg agg 0.0093819410168 2433 tgg tgg 0.0093780848963 2432 agc agc 0.0092624012833 2402 ggg ggg 0.0089037820829 2309 cct cct 0.0087958107108 2281 ttc ttc 0.0086994076999 2256 tta tta 0.0086801270977 2251 cta cta 0.0081981120434 2126 tat tat 0.0080785723100 2095 aag aag 0.0079821692991 2070 tgc tgc 0.0075310032083 1953 cac cac 0.0073806145114 1914 gcg gcg 0.0073459094274 1905 tct tct 0.0069718657453 1808 tca tca 0.0068947433366 1788 tcc tcc 0.0065284118954 1693 ccc ccc 0.0060116917572 1559 acg acg 0.0054255614511 1407 tac tac 0.0052481799112 1361 taa taa 0.0044268262586 1148 cag cag 0.0033548247779 870 ccg ccg 0.0031427381540 815 cgt cgt 0.0028072556762 728 tcg tcg 0.0025026221619 649 cga cga 0.0021247223593 551 cgg cgg 0.0020244632280 525 cgc cgc 0.0018740745311 486 tag tag 0.0011144188055 289 ; Host name n92 ; Job started 2017-04-15.090743 ; Job done 2017-04-15.090748 ; Seconds 5.02 ; user 5.02 ; system 0.09 ; cuser 0 ; csystem 0