; 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_start_codons.wc -o $RSAT/public_html/data/genomes/Drosophila_melanogaster.BDGP6.34/genome/Drosophila_melanogaster.BDGP6.34_start_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_start_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Drosophila_melanogaster.BDGP6.34/genome/Drosophila_melanogaster.BDGP6.34_start_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 (other letters than ACGT) ; discarded occurrences (contain discarded residues) ; nb possible positions 160188 ; total oligo occurrences 160188 ; 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 0.2163957350114 34664 gtg gtg 0.0321559667391 5151 atc atc 0.0284228531476 4553 att att 0.0270557095413 4334 gtc gtc 0.0245586435938 3934 gtt gtt 0.0237845531500 3810 ata ata 0.0225609908358 3614 aaa aaa 0.0225297775114 3609 gaa gaa 0.0217057457487 3477 gca gca 0.0213249431917 3416 ctg ctg 0.0202512048343 3244 aac aac 0.0186405972982 2986 aat aat 0.0182285814168 2920 gta gta 0.0169425924539 2714 ctc ctc 0.0163058406373 2612 gac gac 0.0158688540964 2542 gct gct 0.0155067795340 2484 caa caa 0.0154505955502 2475 gcc gcc 0.0150323370040 2408 gat gat 0.0146390491173 2345 aca aca 0.0144767398307 2319 agc agc 0.0139585986466 2236 gcg gcg 0.0136339800734 2184 ctt ctt 0.0134404574625 2153 ggc ggc 0.0132719055110 2126 gag gag 0.0131595375434 2108 ttc ttc 0.0131220815542 2102 act act 0.0127537643269 2043 ttt ttt 0.0121731964941 1950 acc acc 0.0115489300072 1850 ttg ttg 0.0114865033586 1840 cta cta 0.0114428047045 1833 cca cca 0.0113054660774 1811 tgc tgc 0.0111057008016 1779 ggt ggt 0.0108435088771 1737 acg acg 0.0107561115689 1723 gga gga 0.0106811995905 1711 cac cac 0.0101693010712 1629 cat cat 0.0100756610982 1614 tgg tgg 0.0094576372762 1515 aga aga 0.0091330187030 1463 ccc ccc 0.0090331360651 1447 agt agt 0.0084775388918 1358 tta tta 0.0083339575998 1335 tac tac 0.0083277149350 1334 cgc cgc 0.0077970884211 1249 cct cct 0.0077596324319 1243 ccg ccg 0.0075910804804 1216 tga tga 0.0074474991885 1193 cga cga 0.0074038005344 1186 agg agg 0.0065922541014 1056 aag aag 0.0064299448148 1030 tca tca 0.0063862461608 1023 tcc tcc 0.0063300621769 1014 tcg tcg 0.0059742302794 957 tat tat 0.0059305316253 950 cag cag 0.0057619796739 923 tgt tgt 0.0057494943441 921 cgt cgt 0.0054748170899 877 cgg cgg 0.0053499637925 857 tct tct 0.0052875371439 847 ggg ggg 0.0033960096886 544 taa taa 0.0032337004020 518 tag tag 0.0005743251679 92 ; Host name n91 ; Job started 2017-04-15.083133 ; Job done 2017-04-15.083137 ; Seconds 3.12 ; user 3.12 ; system 0.05 ; cuser 0 ; csystem 0