; oligo-analysis -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Equus_caballus_EquCab2/genome/Equus_caballus_EquCab2_start_codons.wc -o $RSAT/public_html/data/genomes/Equus_caballus_EquCab2/genome/Equus_caballus_EquCab2_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/Equus_caballus_EquCab2/genome/Equus_caballus_EquCab2_start_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Equus_caballus_EquCab2/genome/Equus_caballus_EquCab2_start_codon_frequencies.tab ; Count overlapping matches ; Counted on a single strand ; Background model Bernoulli ; Background estimation method ; Sequence type DNA ; Nb of sequences 22654 ; Sum of sequence lengths 67962 ; discarded residues 182 (other letters than ACGT) ; discarded occurrences 88 (contain discarded residues) ; nb possible positions 22566 ; total oligo occurrences 22566 ; 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 0.3524328636001 7953 cag cag 0.0244172649118 551 cta cta 0.0198971904635 449 ctg ctg 0.0176371532394 398 gaa gaa 0.0172826375964 390 agg agg 0.0164406629443 371 ggg ggg 0.0160418328459 362 gcc gcc 0.0159975183905 361 gag gag 0.0159532039351 360 gtg gtg 0.0159532039351 360 ggc ggc 0.0157316316582 355 gga gga 0.0149782859169 338 gct gct 0.0142249401755 321 ccc ccc 0.0140476823540 317 ttt ttt 0.0134272799787 303 aga aga 0.0131613932465 297 agc agc 0.0128511920588 290 tgg tgg 0.0126296197820 285 ttg ttg 0.0125409908712 283 ctc ctc 0.0125409908712 283 cct cct 0.0122307896836 276 aag aag 0.0121421607728 274 gca gca 0.0118319595852 267 tct tct 0.0114331294868 258 ctt ctt 0.0113445005761 256 cca cca 0.0113445005761 256 ggt ggt 0.0110342993885 249 aaa aaa 0.0109456704777 247 tcc tcc 0.0108127271116 244 gac gac 0.0108127271116 244 gat gat 0.0104138970132 235 tca tca 0.0101480102810 229 ttc ttc 0.0094389789949 213 tgc tgc 0.0090844633519 205 gcg gcg 0.0087742621643 198 tga tga 0.0086856332536 196 aca aca 0.0085083754321 192 gtc gtc 0.0083754320659 189 gtt gtt 0.0083754320659 189 atc atc 0.0081981742444 185 caa caa 0.0080652308783 182 ccg ccg 0.0080652308783 182 acc acc 0.0079766019676 180 agt agt 0.0079766019676 180 aat aat 0.0079322875122 179 att att 0.0078436586014 177 cgg cgg 0.0076220863246 172 aac aac 0.0074005140477 167 tgt tgt 0.0073561995923 166 cat cat 0.0070903128601 160 cac cac 0.0069130550386 156 ata ata 0.0066028538509 149 act act 0.0064699104848 146 cgc cgc 0.0062926526633 142 gta gta 0.0062483382079 141 tta tta 0.0061153948418 138 tat tat 0.0060267659310 136 tac tac 0.0045200744483 102 cga cga 0.0040326154392 91 tcg tcg 0.0040326154392 91 taa taa 0.0038553576177 87 cgt cgt 0.0033678986085 76 acg acg 0.0031020118763 70 tag tag 0.0029690685101 67 ; Host name n58 ; Job started 2017-04-15.091434 ; Job done 2017-04-15.091434 ; Seconds 0.37 ; user 0.37 ; system 0.02 ; cuser 0 ; csystem 0