; 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_stop_codons.wc -o $RSAT/public_html/data/genomes/Lingula_anatina.LinAna1.0.34/genome/Lingula_anatina.LinAna1.0.34_stop_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_stop_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Lingula_anatina.LinAna1.0.34/genome/Lingula_anatina.LinAna1.0.34_stop_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 23 (other letters than ACGT) ; discarded occurrences 19 (contain discarded residues) ; nb possible positions 259316 ; total oligo occurrences 259316 ; 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 aag aag 0.1755502938500 45523 cag cag 0.1659288281479 43028 gag gag 0.0841213037375 21814 atg atg 0.0424732758488 11014 aaa aaa 0.0332952845177 8634 tag tag 0.0321615326474 8340 ttg ttg 0.0286947199556 7441 agg agg 0.0285828872881 7412 ctg ctg 0.0280237239507 7267 caa caa 0.0227444507859 5898 gtg gtg 0.0208857147264 5416 tgg tgg 0.0204692344475 5308 aat aat 0.0151051227074 3917 gaa gaa 0.0149238766601 3870 acg acg 0.0140716346080 3649 ggg ggg 0.0133080874300 3451 aca aca 0.0132078236592 3425 gat gat 0.0121550540653 3152 aga aga 0.0107475049746 2787 cat cat 0.0104081506733 2699 gca gca 0.0081406469327 2111 act act 0.0080712335529 2093 att att 0.0080326705641 2083 ttt ttt 0.0077858674359 2019 cca cca 0.0077203103549 2002 tat tat 0.0073076863749 1895 aac aac 0.0072922611794 1891 tca tca 0.0072344166962 1876 tcg tcg 0.0070647395456 1832 cgg cgg 0.0070647395456 1832 gct gct 0.0068526431073 1777 agt agt 0.0064323065295 1668 tct tct 0.0063744620463 1653 ccg ccg 0.0061855034013 1604 gcg gcg 0.0059309876753 1538 cac cac 0.0058885683876 1527 ata ata 0.0057921609156 1502 gac gac 0.0057844483179 1500 cct cct 0.0054605192121 1416 tgt tgt 0.0052985546592 1374 taa taa 0.0051404464052 1333 gga gga 0.0051134523130 1326 ctt ctt 0.0050363263354 1306 tta tta 0.0050209011399 1302 gtt gtt 0.0045542889756 1181 tac tac 0.0041609464900 1079 gta gta 0.0039989819371 1037 agc agc 0.0037444662111 971 cta cta 0.0036133520492 937 tga tga 0.0035979268537 933 ggt ggt 0.0032277221614 837 ttc ttc 0.0031428835860 815 acc acc 0.0030233383208 784 atc atc 0.0026801277206 695 cga cga 0.0026608462262 690 tgc tgc 0.0026068580419 676 tcc tcc 0.0025952891453 673 ggc ggc 0.0023484860171 609 gtc gtc 0.0022675037406 588 gcc gcc 0.0022096592574 573 ctc ctc 0.0021479584754 557 ccc ccc 0.0017121967021 444 cgt cgt 0.0016697774144 433 cgc cgc 0.0011530333647 299 ; Host name n85 ; Job started 2017-04-15.085631 ; Job done 2017-04-15.085635 ; Seconds 5.03 ; user 5.03 ; system 0.08 ; cuser 0 ; csystem 0