Genomic Codon Composition and Epidemiological Landscape of H5N9 Influenza A Virus

This dataset comprises 439 complete H5N9 influenza A virus sequences from NCBI, processed using local Python and Biopython scripts. Sequences underwent completeness validation, MAFFT alignment (--auto), and trimming. Per-sequence metrics include ENc, CAI (human/avian), GC3, RSCU, CPB, and PR2. Collection year and country were extracted from FASTA headers. Includes aligned FASTA, codon metrics CSV, QC reports, and plots.ODON USAGE SUMMARY: H5N9========================================Total sequences: 439Valid CDS: 96 (21.9%)Valid CAI: 96 (21.9%)
METRIC STATISTICS (Mean ± SD): ENc (Effective Number of Codons): 34.265 ± 2.156 CPB (Codon Pair Bias): 5.206 ± 1.119 CAI_human: 3.419 ± 0.156 CAI_avian: 3.440 ± 0.159 GC3: 0.453 ± 0.030 PR2_A (A3/(A3+T3)): 0.586 ± 0.031 PR2_G (G3/(G3+C3)): 0.508 ± 0.048
INTERPRETATION: → Strong codon usage bias (ENc < 40) → Similar adaptation to human/avian hostsData processed by [email protected]