; oligo-analysis -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Homo_sapiens_GRCh38/genome/Homo_sapiens_GRCh38_stop_codons.wc -o $RSAT/public_html/data/genomes/Homo_sapiens_GRCh38/genome/Homo_sapiens_GRCh38_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/Homo_sapiens_GRCh38/genome/Homo_sapiens_GRCh38_stop_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Homo_sapiens_GRCh38/genome/Homo_sapiens_GRCh38_stop_codon_frequencies.tab ; Count overlapping matches ; Counted on a single strand ; Background model Bernoulli ; Background estimation method ; Sequence type DNA ; Nb of sequences 93892 ; Sum of sequence lengths 281676 ; discarded residues (other letters than ACGT) ; discarded occurrences (contain discarded residues) ; nb possible positions 93892 ; total oligo occurrences 93892 ; 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 0.2257913347250 21200 taa taa 0.1175073488689 11033 tag tag 0.0927661568611 8710 agg agg 0.0487261960550 4575 aga aga 0.0329208026243 3091 agc agc 0.0208430963234 1957 cag cag 0.0160290546585 1505 agt agt 0.0147509904997 1385 aag aag 0.0143036680441 1343 ctg ctg 0.0140374046777 1318 tgg tgg 0.0128658458655 1208 gga gga 0.0123972223406 1164 aaa aaa 0.0123546202019 1160 gag gag 0.0122374643207 1149 gaa gaa 0.0118327440037 1111 cct cct 0.0117581902612 1104 cca cca 0.0110872065778 1041 ccc ccc 0.0102138627359 959 gcc gcc 0.0099475993695 934 gtg gtg 0.0099369488348 933 atg atg 0.0095002769139 892 gca gca 0.0092553146168 869 ttt ttt 0.0092446640821 868 ggc ggc 0.0090742555276 852 tct tct 0.0089784007157 843 gct gct 0.0089464491117 840 caa caa 0.0089144975078 837 ctc ctc 0.0088612448345 832 ggg ggg 0.0088292932305 829 tgc tgc 0.0088186426959 828 ctt ctt 0.0086482341414 812 tgt tgt 0.0086056320027 808 aca aca 0.0085736803988 805 tcc tcc 0.0082861159630 778 tca tca 0.0081476590125 765 ttc ttc 0.0078494440421 737 acc acc 0.0077642397648 729 cat cat 0.0076364333490 717 ttg ttg 0.0075831806757 712 aat aat 0.0074766753291 702 act act 0.0070719550121 664 cac cac 0.0069974012695 657 gat gat 0.0064968261407 610 gac gac 0.0064755250714 608 att att 0.0064222723981 603 atc atc 0.0064222723981 603 ggt ggt 0.0063370681208 595 aac aac 0.0061879606356 581 gtt gtt 0.0055063264176 517 tat tat 0.0053039662591 498 gtc gtc 0.0049205470115 462 tac tac 0.0046649341797 438 ata ata 0.0045903804371 431 cgg cgg 0.0044519234866 418 tta tta 0.0043560686746 409 ccg ccg 0.0041324074469 388 cta cta 0.0040685042389 382 gta gta 0.0038128914071 358 cgc cgc 0.0036744344566 345 gcg gcg 0.0036744344566 345 acg acg 0.0032271120010 303 cga cga 0.0030460529119 286 tcg tcg 0.0024815745750 233 cgt cgt 0.0023750692285 223 ; Host name n80 ; Job started 2017-04-15.085630 ; Job done 2017-04-15.085635 ; Seconds 4.82 ; user 4.82 ; system 0.1 ; cuser 0 ; csystem 0