; 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_start_codons.wc -o $RSAT/public_html/data/genomes/Homo_sapiens_GRCh38/genome/Homo_sapiens_GRCh38_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/Homo_sapiens_GRCh38/genome/Homo_sapiens_GRCh38_start_codons.wc ; Input format wc ; Output file $RSAT/public_html/data/genomes/Homo_sapiens_GRCh38/genome/Homo_sapiens_GRCh38_start_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 atg atg 0.4861010522728 45641 ctg ctg 0.0145060282026 1362 ggg ggg 0.0142184637669 1335 ggc ggc 0.0141758616283 1331 gcc gcc 0.0137178886380 1288 gag gag 0.0128977974694 1211 ccc ccc 0.0127167383803 1194 cag cag 0.0125463298258 1178 agg agg 0.0123226685980 1157 gga gga 0.0119925020236 1126 tgg tgg 0.0115664806373 1086 gct gct 0.0111298087164 1045 cct cct 0.0110339539045 1036 gaa gaa 0.0105759809142 993 ctc ctc 0.0104268734290 979 aga aga 0.0102990670132 967 ttt ttt 0.0101180079240 950 agc agc 0.0101073573893 949 cca cca 0.0099262983002 932 gtg gtg 0.0099156477655 931 aaa aaa 0.0098943466962 929 aag aag 0.0097026370724 911 cgg cgg 0.0096813360031 909 tgc tgc 0.0095854811912 900 tga tga 0.0095109274486 893 gcg gcg 0.0093085672901 874 tcc tcc 0.0092766156861 871 gca gca 0.0091168576663 856 tct tct 0.0089144975078 837 ctt ctt 0.0085736803988 805 ccg ccg 0.0085630298641 804 ttc ttc 0.0078494440421 737 ggt ggt 0.0077748902995 730 tgt tgt 0.0077003365569 723 caa caa 0.0076364333490 717 cgc cgc 0.0076257828143 716 acc acc 0.0071678098241 673 cac cac 0.0070932560815 666 tca tca 0.0069974012695 657 aca aca 0.0069761002002 655 agt agt 0.0069015464576 648 ttg ttg 0.0068163421804 640 gat gat 0.0065926809526 619 gtc gtc 0.0064861756060 609 gac gac 0.0063903207941 600 att att 0.0063051165168 592 act act 0.0062412133089 586 cat cat 0.0059642994078 560 gtt gtt 0.0056873855068 534 aat aat 0.0056767349721 533 aac aac 0.0053359178631 501 atc atc 0.0052720146551 495 gta gta 0.0051655093086 485 tta tta 0.0048033911302 451 tat tat 0.0045584288331 428 taa taa 0.0045477782985 427 cta cta 0.0041004558429 385 cga cga 0.0037170365952 349 tag tag 0.0037170365952 349 ata ata 0.0035572785754 334 cgt cgt 0.0033336173476 313 tac tac 0.0032910152090 309 tcg tcg 0.0031632087931 297 acg acg 0.0031312571891 294 ; Host name n46 ; Job started 2017-04-15.090222 ; Job done 2017-04-15.090224 ; Seconds 1.02 ; user 1.02 ; system 0.01 ; cuser 0 ; csystem 0