; oligo-analysis -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Culex_quinquefasciatus.CpipJ2.34/genome/Culex_quinquefasciatus.CpipJ2.34_stop_codons.wc -o $RSAT/public_html/data/genomes/Culex_quinquefasciatus.CpipJ2.34/genome/Culex_quinquefasciatus.CpipJ2.34_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/Culex_quinquefasciatus.CpipJ2.34/genome/Culex_quinquefasciatus.CpipJ2.34_stop_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Culex_quinquefasciatus.CpipJ2.34/genome/Culex_quinquefasciatus.CpipJ2.34_stop_codon_frequencies.tab ; Count overlapping matches ; Counted on a single strand ; Background model Bernoulli ; Background estimation method ; Sequence type DNA ; Nb of sequences 71281 ; Sum of sequence lengths 213843 ; discarded residues (other letters than ACGT) ; discarded occurrences (contain discarded residues) ; nb possible positions 71281 ; total oligo occurrences 71281 ; 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 0.1004615535697 7161 cag cag 0.0773417881343 5513 gag gag 0.0622746594464 4439 atg atg 0.0350303727501 2497 acg acg 0.0296432429399 2113 aaa aaa 0.0285489821972 2035 ttg ttg 0.0285068952456 2032 caa caa 0.0252241130175 1798 ctg ctg 0.0252100840336 1797 tcg tcg 0.0246348956945 1756 ccg ccg 0.0228532147417 1629 tgg tgg 0.0221237075799 1577 agg agg 0.0220535626605 1572 gtg gtg 0.0212959975309 1518 aat aat 0.0207909541112 1482 gaa gaa 0.0204262005303 1456 gcg gcg 0.0201175628849 1434 gat gat 0.0200053310139 1426 cgg cgg 0.0188128673840 1341 aac aac 0.0182376790449 1300 ggg ggg 0.0148426649458 1058 ttt ttt 0.0145901432359 1040 att att 0.0136502013159 973 tag tag 0.0134397665577 958 gtt gtt 0.0118124044275 842 cac cac 0.0115879406855 826 gac gac 0.0114616798305 817 aga aga 0.0113354189756 808 gct gct 0.0110267813302 786 cga cga 0.0105638248622 753 agt agt 0.0100447524586 716 cat cat 0.0100307234747 715 tac tac 0.0099886365231 712 atc atc 0.0098483466842 702 ttc ttc 0.0097782017648 697 gga gga 0.0087821439093 626 aca aca 0.0085436511833 609 tgt tgt 0.0085015642317 606 tat tat 0.0085015642317 606 agc agc 0.0081508396347 581 gca gca 0.0080947236992 577 acc acc 0.0080806947153 576 act act 0.0080666657314 575 ggt ggt 0.0078001150377 556 ctt ctt 0.0067900281983 484 tgc tgc 0.0067058542950 478 gcc gcc 0.0066777963272 476 tct tct 0.0062288688430 444 gtc gtc 0.0062288688430 444 cca cca 0.0061306659559 437 tcc tcc 0.0061306659559 437 tca tca 0.0061026079881 435 ggc ggc 0.0060885790042 434 tga tga 0.0058921732299 420 cgt cgt 0.0058641152621 418 ctc ctc 0.0054572747296 389 cct cct 0.0051065501326 364 taa taa 0.0050644631809 361 cgc cgc 0.0047979124872 342 ata ata 0.0045594197612 325 tta tta 0.0042227241481 301 ccc ccc 0.0039842314221 284 cta cta 0.0031565213732 225 gta gta 0.0026935649051 192 ; Host name n93 ; Job started 2017-04-15.085644 ; Job done 2017-04-15.085646 ; Seconds 1.49 ; user 1.49 ; system 0.04 ; cuser 0 ; csystem 0