; 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_stop_codons.wc -o $RSAT/public_html/data/genomes/Equus_caballus_EquCab2/genome/Equus_caballus_EquCab2_stop_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_stop_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Equus_caballus_EquCab2/genome/Equus_caballus_EquCab2_stop_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 16 (other letters than ACGT) ; discarded occurrences 6 (contain discarded residues) ; nb possible positions 22648 ; total oligo occurrences 22648 ; 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 0.2042122924762 4625 taa taa 0.1232779936418 2792 agg agg 0.1096785588131 2484 tag tag 0.0923260332038 2091 aga aga 0.0598728364535 1356 agc agc 0.0339985870717 770 ctc ctc 0.0250353232073 567 agt agt 0.0247262451431 560 aag aag 0.0139085128930 315 cag cag 0.0136435888379 309 aaa aaa 0.0133345107736 302 gaa gaa 0.0117449664430 266 gag gag 0.0109501942776 248 ctg ctg 0.0108618862593 246 gga gga 0.0080360296715 182 ccc ccc 0.0077711056164 176 gac gac 0.0076827975980 174 gtg gtg 0.0073295655245 166 ggc ggc 0.0071971034970 163 ggt ggt 0.0071087954786 161 cca cca 0.0070646414694 160 gcc gcc 0.0070204874603 159 ggg ggg 0.0068438714235 155 tgg tgg 0.0067997174143 154 atg atg 0.0067555634052 153 gca gca 0.0067555634052 153 caa caa 0.0065789473684 149 tct tct 0.0064906393501 147 gat gat 0.0064023313317 145 aca aca 0.0063140233133 143 cct cct 0.0061374072766 139 tca tca 0.0061374072766 139 tcc tcc 0.0059166372307 134 tgc tgc 0.0057841752031 131 ctt ctt 0.0056075591664 127 gct gct 0.0055634051572 126 cac cac 0.0052984811021 120 act act 0.0052543270929 119 ttc ttc 0.0052101730837 118 cat cat 0.0051660190745 117 ttt ttt 0.0051218650653 116 tgt tgt 0.0048569410102 110 aat aat 0.0048569410102 110 ttg ttg 0.0048569410102 110 aac aac 0.0048569410102 110 acc acc 0.0045037089368 102 gta gta 0.0042829388909 97 att att 0.0041946308725 95 tat tat 0.0041063228541 93 atc atc 0.0038855528082 88 tac tac 0.0037972447898 86 gtc gtc 0.0035764747439 81 ata ata 0.0035764747439 81 gtt gtt 0.0033115506888 75 ccg ccg 0.0031349346521 71 tta tta 0.0030466266337 69 cta cta 0.0029583186153 67 cgg cgg 0.0027817025786 63 cgc cgc 0.0026492405510 60 gcg gcg 0.0022518544684 51 acg acg 0.0020752384316 47 cgt cgt 0.0019869304133 45 cga cga 0.0018986223949 43 tcg tcg 0.0016336983398 37 ; Host name n77 ; Job started 2017-04-15.092544 ; Job done 2017-04-15.092545 ; Seconds 0.83 ; user 0.83 ; system 0.07 ; cuser 0 ; csystem 0