; oligo-analysis -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Atta_cephalotes.Attacep1.0.34/genome/Atta_cephalotes.Attacep1.0.34_start_codons.wc -o $RSAT/public_html/data/genomes/Atta_cephalotes.Attacep1.0.34/genome/Atta_cephalotes.Attacep1.0.34_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/Atta_cephalotes.Attacep1.0.34/genome/Atta_cephalotes.Attacep1.0.34_start_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Atta_cephalotes.Attacep1.0.34/genome/Atta_cephalotes.Attacep1.0.34_start_codon_frequencies.tab ; Count overlapping matches ; Counted on a single strand ; Background model Bernoulli ; Background estimation method ; Sequence type DNA ; Nb of sequences 72363 ; Sum of sequence lengths 217089 ; discarded residues 28 (other letters than ACGT) ; discarded occurrences 10 (contain discarded residues) ; nb possible positions 72353 ; total oligo occurrences 72353 ; 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 0.1748648984838 12652 gta gta 0.0448357359059 3244 att att 0.0432739485578 3131 ata ata 0.0406755766865 2943 gaa gaa 0.0374828963554 2712 gtg gtg 0.0357552554835 2587 gtt gtt 0.0327560709300 2370 aaa aaa 0.0305170483601 2208 gat gat 0.0302406258206 2188 aat aat 0.0274072947908 1983 atc atc 0.0228325017622 1652 gtc gtc 0.0198609594626 1437 gca gca 0.0197642115738 1430 aga aga 0.0169032382901 1223 gag gag 0.0163642143380 1184 gga gga 0.0155902312275 1128 ttt ttt 0.0154243777038 1116 aca aca 0.0149821016406 1084 gct gct 0.0142772241649 1033 ggt ggt 0.0134755988003 975 aac aac 0.0132821030227 961 gac gac 0.0130886072450 947 ttg ttg 0.0128951114674 933 tta tta 0.0125081199121 905 agt agt 0.0122316973726 885 caa caa 0.0116512100397 843 gcg gcg 0.0114300720081 827 tat tat 0.0114024297541 825 ctt ctt 0.0110154381988 797 ctg ctg 0.0099926748027 723 act act 0.0099512114218 720 agc agc 0.0099097480409 717 acg acg 0.0098406424060 712 cat cat 0.0097715367711 707 aag aag 0.0092601550730 670 agg agg 0.0089008057717 644 cta cta 0.0086934888671 629 ttc ttc 0.0083894240736 607 tgt tgt 0.0081268226611 588 tga tga 0.0078642212486 569 ggc ggc 0.0078365789947 567 tgg tgg 0.0075048719473 543 tgc tgc 0.0069658479952 504 ctc ctc 0.0067723522176 490 cga cga 0.0065650353130 475 cca cca 0.0063162550274 457 tac tac 0.0061780437577 447 gcc gcc 0.0061227592498 443 cac cac 0.0058186944563 421 tca tca 0.0054317029011 393 acc acc 0.0054040606471 391 taa taa 0.0053625972662 388 tct tct 0.0051138169806 370 ggg ggg 0.0051138169806 370 tcg tcg 0.0047821099332 346 ccg ccg 0.0047544676793 344 cct cct 0.0043536549970 315 cgt cgt 0.0041186958385 298 cgg cgg 0.0039943056957 289 cag cag 0.0039390211878 285 cgc cgc 0.0036349563943 263 tcc tcc 0.0031788592042 230 ccc ccc 0.0019073155225 138 tag tag 0.0013406493165 97 ; Host name n89 ; Job started 2017-04-15.083758 ; Job done 2017-04-15.083800 ; Seconds 1.65 ; user 1.65 ; system 0.05 ; cuser 0 ; csystem 0