; oligo-analysis -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Mus_musculus_GRCm38/genome/Mus_musculus_GRCm38_stop_codons.wc -o $RSAT/public_html/data/genomes/Mus_musculus_GRCm38/genome/Mus_musculus_GRCm38_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_GRCm38/genome/Mus_musculus_GRCm38_stop_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Mus_musculus_GRCm38/genome/Mus_musculus_GRCm38_stop_codon_frequencies.tab ; Count overlapping matches ; Counted on a single strand ; Background model Bernoulli ; Background estimation method ; Sequence type DNA ; Nb of sequences 57410 ; Sum of sequence lengths 172230 ; discarded residues (other letters than ACGT) ; discarded occurrences (contain discarded residues) ; nb possible positions 57410 ; total oligo occurrences 57410 ; 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 0.2376937815712 13646 taa taa 0.1301167044069 7470 tag tag 0.1070545201184 6146 agg agg 0.0444521860303 2552 aga aga 0.0307437728619 1765 agc agc 0.0209719561052 1204 cag cag 0.0143006444870 821 ctg ctg 0.0140916216687 809 agt agt 0.0140045288277 804 aag aag 0.0120362306218 691 gga gga 0.0119665563491 687 tgg tgg 0.0114788364396 659 gaa gaa 0.0110956279394 637 gag gag 0.0109214422574 627 cct cct 0.0106427451663 611 atg atg 0.0099111653022 569 cca cca 0.0098414910294 565 aaa aaa 0.0096847239157 556 ccc ccc 0.0095279568020 547 ctc ctc 0.0094408639610 542 tgc tgc 0.0093537711200 537 gct gct 0.0093189339836 535 gtg gtg 0.0091273297335 524 gcc gcc 0.0089008883470 511 tcc tcc 0.0088312140742 507 ggc ggc 0.0081344713465 467 caa caa 0.0080125413691 460 aca aca 0.0079951228009 459 gca gca 0.0078906113917 453 ttg ttg 0.0078731928235 452 ctt ctt 0.0078209371190 449 tct tct 0.0077860999826 447 tgt tgt 0.0077512628462 445 ttc ttc 0.0076815885734 441 tca tca 0.0075770771643 435 ttt ttt 0.0074551471869 428 ggg ggg 0.0074028914823 425 gac gac 0.0073506357777 422 acc acc 0.0070719386866 406 aac aac 0.0069674272775 400 act act 0.0067758230273 389 cac cac 0.0066887301864 384 gat gat 0.0066190559136 380 ggt ggt 0.0060094060268 345 cat cat 0.0058874760495 338 aat aat 0.0056261975266 323 atc atc 0.0056087789584 322 att att 0.0054694304128 314 gtc gtc 0.0053823375719 309 cta cta 0.0049991290716 287 tac tac 0.0046159205713 265 gtt gtt 0.0045288277304 260 tta tta 0.0045288277304 260 ata ata 0.0042675492075 245 tat tat 0.0040759449573 234 gta gta 0.0040759449573 234 cgg cgg 0.0037798292980 217 ccg ccg 0.0036578993207 210 gcg gcg 0.0034488765024 198 cga cga 0.0030830865703 177 cgc cgc 0.0028566451838 164 tcg tcg 0.0026998780700 155 acg acg 0.0025431109563 146 cgt cgt 0.0024908552517 143 ; Host name clust-rsat ; Job started 2024-05-20.222947 ; Job done 2024-05-20.222948 ; Seconds 0.63 ; user 0.63 ; system 0.02 ; cuser 0 ; csystem 0