gtp4.1codons.txt Treponema pallidum, Version 4.1 Codon Frequency July 22, 1998 16:52 START CODON USAGE FREQUENCY BASED ON CURRENT PREDICTED N-TERMINI fMet codon frequency calculated by using the GCG command line: codonfrequency -BEG=1 -END=3 against the 1040 genes in the gtp4.1orfs database. AmAcid Codon Number /1000 Fraction .. (fMet) ATG 604.00 580.77 1.00 (fMet) GTG 351.00 337.50 1.00 (fMet) TTG 85.00 81.73 1.00 CODON USAGE FREQUENCY FOR ALL OTHER CODONS Calculated using the GCG command line codonfrequency -BEG=4 against 1031 genes in the gtp4.1orfs database. Nine open reading frames encoding genes with "authentic frameshifts" were excluded. AmAcid Codon Number /1000 Fraction .. Gly GGG 6886.00 19.70 0.28 Gly GGA 5663.00 16.20 0.23 Gly GGT 6685.00 19.12 0.27 Gly GGC 5184.00 14.83 0.21 Glu GAG 11047.00 31.60 0.53 Glu GAA 9898.00 28.31 0.47 Asp GAT 9229.00 26.40 0.58 Asp GAC 6636.00 18.98 0.42 Val GTG 12444.00 35.60 0.43 Val GTA 5547.00 15.87 0.19 Val GTT 6613.00 18.92 0.23 Val GTC 4343.00 12.42 0.15 Ala GCG 13563.00 38.80 0.38 Ala GCA 10745.00 30.74 0.30 Ala GCT 5701.00 16.31 0.16 Ala GCC 5495.00 15.72 0.15 Arg AGG 2109.00 6.03 0.08 Arg AGA 1760.00 5.03 0.07 Ser AGT 3752.00 10.73 0.16 Ser AGC 3575.00 10.23 0.15 Lys AAG 7579.00 21.68 0.54 Lys AAA 6371.00 18.22 0.46 Asn AAT 4557.00 13.04 0.52 Asn AAC 4150.00 11.87 0.48 Met ATG 6320.00 18.08 1.00 Ile ATA 3184.00 9.11 0.19 Ile ATT 7923.00 22.66 0.46 Ile ATC 6085.00 17.41 0.35 Thr ACG 6387.00 18.27 0.34 Thr ACA 3687.00 10.55 0.20 Thr ACT 3408.00 9.75 0.18 Thr ACC 5106.00 14.61 0.27 Trp TGG 3431.00 9.81 1.00 End TGA 0.00 0.00 0.00 Cys TGT 3604.00 10.31 0.54 Cys TGC 3111.00 8.90 0.46 End TAG 0.00 0.00 0.00 End TAA 0.00 0.00 0.00 Tyr TAT 5139.00 14.70 0.48 Tyr TAC 5501.00 15.74 0.52 Leu TTG 6928.00 19.82 0.19 Leu TTA 3058.00 8.75 0.09 Phe TTT 10859.00 31.06 0.70 Phe TTC 4759.00 13.61 0.30 Ser TCG 3751.00 10.73 0.16 Ser TCA 2821.00 8.07 0.12 Ser TCT 5607.00 16.04 0.24 Ser TCC 3718.00 10.64 0.16 Arg CGG 4380.00 12.53 0.17 Arg CGA 1995.00 5.71 0.08 Arg CGT 7454.00 21.32 0.29 Arg CGC 8356.00 23.90 0.32 Gln CAG 9311.00 26.63 0.69 Gln CAA 4172.00 11.93 0.31 His CAT 4111.00 11.76 0.43 His CAC 5544.00 15.86 0.57 Leu CTG 7904.00 22.61 0.22 Leu CTA 2018.00 5.77 0.06 Leu CTT 8278.00 23.68 0.23 Leu CTC 7406.00 21.19 0.21 Pro CCG 4501.00 12.88 0.31 Pro CCA 2295.00 6.56 0.16 Pro CCT 4601.00 13.16 0.31 Pro CCC 3341.00 9.56 0.23