; 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_start_codons.wc -o $RSAT/public_html/data/genomes/Mus_musculus_GRCm38/genome/Mus_musculus_GRCm38_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/Mus_musculus_GRCm38/genome/Mus_musculus_GRCm38_start_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Mus_musculus_GRCm38/genome/Mus_musculus_GRCm38_start_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 atg atg 0.5113917435987 29359 gag gag 0.0140393659641 806 ctg ctg 0.0133774603728 768 ggg ggg 0.0129419961679 743 cag cag 0.0125936248040 723 ggc ggc 0.0120536491900 692 gtg gtg 0.0116878592580 671 gcc gcc 0.0114091621669 655 gga gga 0.0111827207804 642 ccc ccc 0.0111304650758 639 tgg tgg 0.0108517679847 623 cct cct 0.0106775823027 613 agc agc 0.0104511409162 600 agg agg 0.0103988852116 597 gct gct 0.0102072809615 586 gaa gaa 0.0101027695523 580 aga aga 0.0098066538930 563 tga tga 0.0096673053475 555 ctt ctt 0.0096150496429 552 ctc ctc 0.0095802125065 550 cca cca 0.0095802125065 550 aag aag 0.0091099111653 523 gca gca 0.0091099111653 523 tcc tcc 0.0090576554607 520 cgg cgg 0.0088834697788 510 tct tct 0.0086918655287 499 aaa aaa 0.0086570283923 497 tgc tgc 0.0083957498694 482 tgt tgt 0.0083260755966 478 ttc ttc 0.0082041456192 471 gcg gcg 0.0079080299599 454 ttt ttt 0.0078557742554 451 gac gac 0.0076815885734 441 ggt ggt 0.0074203100505 426 acc acc 0.0072112872322 414 ccg ccg 0.0071241943912 409 tca tca 0.0069500087093 399 gtc gtc 0.0069325901411 398 aca aca 0.0068629158683 394 agt agt 0.0068280787319 392 cac cac 0.0067409858910 387 cat cat 0.0065493816408 376 gtt gtt 0.0064448702317 370 ttg ttg 0.0063751959589 366 cgc cgc 0.0063403588225 364 caa caa 0.0062010102770 356 gat gat 0.0060616617314 348 act act 0.0056610346630 325 atc atc 0.0054694304128 314 att att 0.0053300818673 306 aac aac 0.0051384776171 295 cta cta 0.0046159205713 265 aat aat 0.0045636648667 262 taa taa 0.0044939905940 258 tta tta 0.0044243163212 254 gta gta 0.0043894791848 252 tag tag 0.0038843407072 223 ata ata 0.0037449921616 215 tac tac 0.0037449921616 215 tat tat 0.0037101550253 213 cga cga 0.0033966207978 195 tcg tcg 0.0031701794113 182 acg acg 0.0030308308657 174 cgt cgt 0.0025605295245 147 ; Host name clust-rsat ; Job started 2024-05-20.222945 ; Job done 2024-05-20.222946 ; Seconds 0.59 ; user 0.59 ; system 0.04 ; cuser 0 ; csystem 0