; 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_start_codons.wc -o $RSAT/public_html/data/genomes/Homo_sapiens_GRCh37/genome/Homo_sapiens_GRCh37_start_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_start_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Homo_sapiens_GRCh37/genome/Homo_sapiens_GRCh37_start_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 atg atg 0.4871940091876 46452 ctg ctg 0.0143582321230 1369 ggg ggg 0.0141589579007 1350 ggc ggc 0.0139072430936 1326 gcc gcc 0.0135506471168 1292 ccc ccc 0.0130786818535 1247 gag gag 0.0130472175026 1244 cag cag 0.0125332997714 1195 agg agg 0.0122501206133 1168 gga gga 0.0121767037946 1161 tgg tgg 0.0116942504143 1115 cct cct 0.0111698445661 1065 gct gct 0.0109076416420 1040 gaa gaa 0.0106454387179 1015 aga aga 0.0105090931974 1002 ctc ctc 0.0104986050804 1001 ttt ttt 0.0102259140394 975 aaa aaa 0.0099217586475 946 agc agc 0.0098902942966 943 aag aag 0.0098168774778 936 cca cca 0.0097015081912 925 tgc tgc 0.0097015081912 925 gtg gtg 0.0096700438403 922 tcc tcc 0.0095441864368 910 cgg cgg 0.0093658884484 893 gca gca 0.0091980785770 877 gcg gcg 0.0090827092904 866 tga tga 0.0090722211734 865 tct tct 0.0088309944833 842 ctt ctt 0.0086631846118 826 ccg ccg 0.0083590292199 797 ttc ttc 0.0078241352548 746 cgc cgc 0.0076982778512 734 tgt tgt 0.0076458372664 729 caa caa 0.0076458372664 729 ggt ggt 0.0075619323307 721 cac cac 0.0072577769387 692 acc acc 0.0070899670673 676 tca tca 0.0070585027164 673 agt agt 0.0069641096638 664 aca aca 0.0068906928450 657 ttg ttg 0.0068592284941 654 gat gat 0.0065865374531 628 att att 0.0065655612191 626 gac gac 0.0063872632308 609 gtc gtc 0.0060935959558 581 act act 0.0060935959558 581 cat cat 0.0058418811487 557 aat aat 0.0057894405638 552 gtt gtt 0.0055901663415 533 atc atc 0.0053279634174 508 aac aac 0.0051916178969 495 gta gta 0.0051391773121 490 tta tta 0.0048350219202 461 tat tat 0.0045623308791 435 taa taa 0.0045203784113 431 cta cta 0.0042686636041 407 tag tag 0.0038491389256 367 cga cga 0.0035764478845 341 ata ata 0.0035135191828 335 tac tac 0.0033666855453 321 cgt cgt 0.0033037568435 315 tcg tcg 0.0032303400248 308 acg acg 0.0031464350890 300 ; Host name biow ; Job started 2015-01-20.150017 ; Job done 2015-01-20.150019 ; Seconds 2.15 ; user 2.16 ; system 0.03 ; cuser 0 ; csystem 0