; oligo-analysis -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Mus_musculus_NCBIM37/genome/Mus_musculus_NCBIM37_stop_codons.wc -o $RSAT/public_html/data/genomes/Mus_musculus_NCBIM37/genome/Mus_musculus_NCBIM37_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/Mus_musculus_NCBIM37/genome/Mus_musculus_NCBIM37_stop_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Mus_musculus_NCBIM37/genome/Mus_musculus_NCBIM37_stop_codon_frequencies.tab ; Count overlapping matches ; Counted on a single strand ; Background model Bernoulli ; Background estimation method ; Sequence type DNA ; Nb of sequences 56790 ; Sum of sequence lengths 170370 ; discarded residues (other letters than ACGT) ; discarded occurrences (contain discarded residues) ; nb possible positions 56790 ; total oligo occurrences 56790 ; 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 0.2398837823560 13623 taa taa 0.1349181193872 7662 tag tag 0.1100017608734 6247 agg agg 0.0428948758584 2436 aga aga 0.0299524564184 1701 agc agc 0.0205493924987 1167 cag cag 0.0143687268885 816 agt agt 0.0139108998063 790 ctg ctg 0.0137348124670 780 aag aag 0.0125374185596 712 gga gga 0.0117626342666 668 tgg tgg 0.0115689381933 657 gaa gaa 0.0109174150379 620 gag gag 0.0108469801021 616 cct cct 0.0102835006163 584 aaa aaa 0.0101250220109 575 cca cca 0.0098961084698 562 atg atg 0.0094030639197 534 ctc ctc 0.0094030639197 534 gtg gtg 0.0090156717732 512 ccc ccc 0.0090156717732 512 gct gct 0.0087691494982 498 gcc gcc 0.0087691494982 498 tgc tgc 0.0087515407642 497 tcc tcc 0.0086458883606 491 ggc ggc 0.0082232787463 467 tgt tgt 0.0080471914069 457 ttt ttt 0.0079591477373 452 caa caa 0.0078006691319 443 aca aca 0.0077126254622 438 gca gca 0.0076774079944 436 ttc ttc 0.0076597992604 435 ctt ctt 0.0075365381229 428 tct tct 0.0074661031872 424 tca tca 0.0073604507836 418 ggg ggg 0.0072371896461 411 gac gac 0.0072019721782 409 acc acc 0.0070434935728 400 aac aac 0.0069730586371 396 cac cac 0.0069378411692 394 ttg ttg 0.0068145800317 387 act act 0.0067793625638 385 ggt ggt 0.0066032752245 375 gat gat 0.0062863180137 357 cat cat 0.0058637083994 333 aat aat 0.0055291424547 314 att att 0.0054763162529 311 atc atc 0.0052650114457 299 gtc gtc 0.0050713153724 288 cta cta 0.0044726184187 254 gtt gtt 0.0044726184187 254 tac tac 0.0044726184187 254 tat tat 0.0043669660151 248 tta tta 0.0043141398133 245 ata ata 0.0039795738686 226 gta gta 0.0038739214650 220 cgg cgg 0.0037154428597 211 ccg ccg 0.0034337031167 195 gcg gcg 0.0032400070435 184 cga cga 0.0028878323649 164 acg acg 0.0027117450255 154 tcg tcg 0.0026765275577 152 cgc cgc 0.0026237013559 149 cgt cgt 0.0023067441451 131 ; Host name Jairs-MacBook-Air.local ; Job started 2018-03-19.162402 ; Job done 2018-03-19.162402 ; Seconds 0.84 ; user 0.84 ; system 0.03 ; cuser 0 ; csystem 0