; oligo-analysis -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Homo_sapiens_GRCh37/genome/Homo_sapiens_GRCh37_stop_codons.wc -o $RSAT/public_html/data/genomes/Homo_sapiens_GRCh37/genome/Homo_sapiens_GRCh37_stop_codon_frequencies ; 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/Homo_sapiens_GRCh37/genome/Homo_sapiens_GRCh37_stop_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Homo_sapiens_GRCh37/genome/Homo_sapiens_GRCh37_stop_codon_frequencies ; Count overlapping matches ; Counted on a single strand ; Background model Bernoulli ; Background estimation method ; Sequence type DNA ; Nb of sequences 95346 ; Sum of sequence lengths 286038 ; discarded residues (other letters than ACGT) ; discarded occurrences (contain discarded residues) ; nb possible positions 95346 ; total oligo occurrences 95346 ; 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 tga tga 0.2259035512764 21539 taa taa 0.1177396010320 11226 tag tag 0.0941728022151 8979 agg agg 0.0484551003713 4620 aga aga 0.0319887567386 3050 agc agc 0.0203154825583 1937 cag cag 0.0161517001238 1540 ctg ctg 0.0145679944623 1389 agt agt 0.0144840895266 1381 aag aag 0.0140960291989 1344 tgg tgg 0.0128794076312 1228 gga gga 0.0125542760053 1197 aaa aaa 0.0124598829526 1188 gag gag 0.0122396324964 1167 gaa gaa 0.0117466909991 1120 cct cct 0.0116732741804 1113 cca cca 0.0109495941099 1044 ccc ccc 0.0102993308581 982 gcc gcc 0.0099951754662 953 gtg gtg 0.0098798061796 942 atg atg 0.0095756507877 913 ggc ggc 0.0092505191618 882 ttt ttt 0.0091036855243 868 caa caa 0.0090827092904 866 gct gct 0.0089463637698 853 ggg ggg 0.0089358756529 852 tct tct 0.0088939231850 848 ctc ctc 0.0088939231850 848 tgc tgc 0.0088729469511 846 gca gca 0.0088519707172 844 ctt ctt 0.0087156251967 831 aca aca 0.0086526964949 825 tgt tgt 0.0084009816877 801 tcc tcc 0.0083170767520 793 tca tca 0.0081597549976 778 ttc ttc 0.0079499926583 758 acc acc 0.0078031590208 744 ttg ttg 0.0076563253833 730 cat cat 0.0075094917459 716 aat aat 0.0073311937575 699 act act 0.0072158244709 688 cac cac 0.0069431334298 662 gac gac 0.0067123948566 640 gat gat 0.0065655612191 626 att att 0.0065131206343 621 ggt ggt 0.0063033582951 601 atc atc 0.0061565246576 587 aac aac 0.0061250603067 584 gtt gtt 0.0055901663415 533 tat tat 0.0052860109496 504 gtc gtc 0.0048769743880 465 tac tac 0.0046986763996 448 ata ata 0.0045623308791 435 cgg cgg 0.0044154972416 421 tta tta 0.0043001279550 410 ccg ccg 0.0041428062006 395 cta cta 0.0040693893818 388 gta gta 0.0038491389256 367 gcg gcg 0.0036393765863 347 cgc cgc 0.0035344954167 337 acg acg 0.0032198519078 307 cga cga 0.0030415539194 290 tcg tcg 0.0024542193695 234 cgt cgt 0.0023283619659 222 ; Host name biow ; Job started 2015-01-20.150030 ; Job done 2015-01-20.150032 ; Seconds 2.29 ; user 2.29 ; system 0.03 ; cuser 0 ; csystem 0