; oligo-analysis -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Drosophila_melanogaster.BDGP6.34/genome/Drosophila_melanogaster.BDGP6.34_stop_codons.wc -o $RSAT/public_html/data/genomes/Drosophila_melanogaster.BDGP6.34/genome/Drosophila_melanogaster.BDGP6.34_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/Drosophila_melanogaster.BDGP6.34/genome/Drosophila_melanogaster.BDGP6.34_stop_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Drosophila_melanogaster.BDGP6.34/genome/Drosophila_melanogaster.BDGP6.34_stop_codon_frequencies.tab ; Count overlapping matches ; Counted on a single strand ; Background model Bernoulli ; Background estimation method ; Sequence type DNA ; Nb of sequences 160188 ; Sum of sequence lengths 480564 ; discarded residues 1 (other letters than ACGT) ; discarded occurrences 1 (contain discarded residues) ; nb possible positions 160187 ; total oligo occurrences 160187 ; 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 0.1192294006380 19099 cag cag 0.1175251424897 18826 gag gag 0.0637380062052 10210 atg atg 0.0412830004932 6613 caa caa 0.0313009170532 5014 aaa aaa 0.0275365666377 4411 tgg tgg 0.0270059368114 4326 acg acg 0.0258822501202 4146 ttg ttg 0.0252954359592 4052 agg agg 0.0242716325295 3888 gcg gcg 0.0229356939077 3674 ctg ctg 0.0224924619351 3603 aat aat 0.0214312022823 3433 tcg tcg 0.0212876200940 3410 gtg gtg 0.0194335370536 3113 cgg cgg 0.0192212851230 3079 tag tag 0.0192025570115 3076 gat gat 0.0168802711831 2704 aac aac 0.0167179608832 2678 gaa gaa 0.0154444492999 2474 ccg ccg 0.0151260714040 2423 ggg ggg 0.0121857578955 1952 att att 0.0114553615462 1835 cat cat 0.0113429928771 1817 aga aga 0.0112743231348 1806 cac cac 0.0102380342974 1640 tac tac 0.0099009282901 1586 aca aca 0.0098010450286 1570 gac gac 0.0093328422406 1495 tat tat 0.0092704152022 1485 act act 0.0082029128456 1314 gcc gcc 0.0081966701418 1313 agc agc 0.0081904274379 1312 atc atc 0.0079344765805 1271 ttt ttt 0.0078595641344 1259 ttc ttc 0.0076535549077 1226 gca gca 0.0076410695000 1224 taa taa 0.0072914780850 1168 gct gct 0.0072415364543 1160 agt agt 0.0071978375274 1153 cca cca 0.0068045471855 1090 cga cga 0.0063925287320 1024 gtc gtc 0.0063862860282 1023 tcc tcc 0.0059555394633 954 tct tct 0.0055560064175 890 tca tca 0.0053250263754 853 tgt tgt 0.0052563566332 842 ggc ggc 0.0052126577063 835 ctt ctt 0.0052064150025 834 cgc cgc 0.0052064150025 834 tga tga 0.0051814441871 830 tgc tgc 0.0051315025564 822 gtt gtt 0.0050690755180 812 acc acc 0.0048256100682 773 gga gga 0.0046570570646 746 ata ata 0.0046008727300 737 cct cct 0.0043823780956 702 ctc ctc 0.0038829617884 622 ggt ggt 0.0037955639347 608 tta tta 0.0037768358231 605 cgt cgt 0.0034147590004 547 ccc ccc 0.0033086330351 530 cta cta 0.0032524487006 521 gta gta 0.0019664517096 315 ; Host name n49 ; Job started 2017-04-15.083144 ; Job done 2017-04-15.083146 ; Seconds 1.71 ; user 1.71 ; system 0.04 ; cuser 0 ; csystem 0