Version 2.16.3
Genome Detective Platform

NGS Details (SRR3458562_Metagenome_example): Koala retrovirus

Assembly

2112 (2 contig(s))
16.0
313
20.20 rpm (after QC)
0
de novo + reference guided assembly
Bcf Tools

Coverage Map

Variant Tables

Assignment

Koala retrovirus (Taxonomy ID: 394239)
66.9484
71.4076
1
3

Alignment

1417.0 (NT) + 3557.0 (AA) = 4974.0
55.8751
Global, seeded, nucleotide + amino acids (AGA)

Alignment Detailed Statistics

BeginEndCoverageScoreConcordanceMatchesIdentitiesI/D/M/F*Stop Codons
NT1597373725.1%141733.9%2103 (98.3%)1426 (66.7%)27/9
Mutations:1598T>G, 1601A>G, 1602A>G, 1611T>C, 1614C>T, 1617C>T, 1620A>T, 1642T>A, 1647T>C, 1653T>C, 1654T>C, 1659T>C, 1662C>G, 1666A>G, 1671T>C, 1672A>C, 1673C>A, 1675G>C, 1677A>C, 1680T>C, 1686A>G, 1687C>T, 1689C>G, 1690C>G, 1692T>G, 1701C>T, 1707T>C, 1710C>T, 1728C>T, 1734C>T, 1737G>A, 1743C>G, 1749A>G, 1750G>A, 1751T>C, 1752C>A, 1758T>C, 1761C>A, 1770A>G, 1771A>C, 1776A>G, 1779G>A, 1785T>G, 1788G>A, 1795C>A, 1797C>A, 1803C>T, 1806C>T, 1808T>C, 1812A>G, 1814T>C, 1815T>C, 1816A>G, 1822G>C, 1823C>G, 1824C>A, 1827T>C, 1830A>G, 1833A>G, 1834C>T, 1836C>G, 1837G>C, 1839G>A, 1842C>T, 1843C>G, 1844T>A, 1845C>G, 1849A>G, 1851T>C, 1852G>A, 1853A>T, 1856C>G, 1857C>A, 1860C>T, 1864C>T, 1866T>G, 1868A>C, 1872A>C, 1875T>C, 1876C>G, 1877A>G, 1878G>T, 1884T>C, 1885C>T, 1909C>A, 1911T>C, 1912C>T, 1914C>G, 1915C>A, 1916T>A, 1917G>A, 1918G>A, 1923C>T, 1928G>A, 1930A>G, 1935A>G, 1948A>C, 1949A>G, 1950A>G, 1953G>C, 1956A>C, 1957G>T, 1962G>A, 1965C>G, 1971C>T, 1980C>T, 1992A>G, 1995C>G, 1996T>A, 2007A>G, 2009C>A, 2010A>C, 2016C>T, 2019G>C, 2022C>G, 2025T>A, 2031A>T, 2034A>G, 2035C>A, 2037T>G, 2040A>C, 2046G>A, 2049T>C, 2051A>T, 2052T>C, 2056A>C, 2058A>G, 2060A>T, 2061T>C, 2067A>T, 2076C>T, 2077T>A, 2079T>C, 2082T>A, 2087G>C, 2088A>C, 2091A>G, 2094G>A, 2097G>C, 2098G>T, 2100G>A, 2107A>C, 2110T>G, 2115T>C, 2118C>T, 2127T>G, 2130C>T, 2132C>T, 2139T>C, 2141A>G, 2142A>G, 2149T>C, 2151A>T, 2154A>G, 2157G>A, 2166A>G, 2167C>T, 2169C>A, 2175C>G, 2176C>G, 2177A>C, 2179T>G, 2180C>A, 2181C>G, 2184G>A, 2186A>G, 2187G>T, 2193C>A, 2194A>G, 2196A>G, 2198A>G, 2199G>A, 2214A>G, 2218C>T, 2220T>C, 2222A>G, 2223G>A, 2226A>G, 2235G>A, 2238A>G, 2241A>G, 2245C>G, 2248G>C, 2250A>G, 2254G>A, 2256G>A, 2257A>G, 2267C>G, 2271G>A, 2277A>G, 2281A>G, 2282G>A, 2284C>A, 2286G>A, 2292C>T, 2295G>A, 2298C>G, 2301G>A, 2307A>G, 2310C>T, 2316C>T, 2319A>G, 2331G>A, 2334A>G, 2337A>T, 2338A>G, 2339G>A, 2340T>A, 2342A>G, 2346A>G, 2347G>A, 2349G>C, 2350T>A, 2351T>G, 2355A>G, 2357G>A, 2362C>G, 2365G>A, 2366C>G, 2369G>A, 2370G>T, 2371A>T, 2372A>T, 2374C>A, 2375T>G, 2378G>A, 2379C>A, 2381A>T, 2382C>T, 2386G>T, 2389_2394delATGAGG, 2396C>G, 2397A>C, 2403G>A, 2404G>C, 2406A>G, 2407G>T, 2408G>C, 2409_2410insGGGAACCTGGGCAAT, 2412A>G, 2413C>A, 2415G>C, 2418T>A, 2421G>C, 2427A>G, 2430T>C, 2433G>A, 2436C>T, 2439A>G, 2442C>T, 2453G>A, 2454G>A, 2457C>A, 2460T>C, 2470G>A, 2472G>C, 2479C>A, 2480G>A, 2485A>G, 2486A>G, 2487G>A, 2491_2493delGCC, 2495G>A, 2496G>A, 2498A>G, 2500A>C, 2502C>G, 2505T>G, 2511G>A, 2512A>G, 2514C>T, 2517G>A, 2519G>A, 2520T>A, 2520_2521insGAAGATAAA, 2523C>T, 2532T>A, 2568G>T, 2571A>G, 2573C>A, 2574T>G, 2583G>T, 2584A>C, 2585T>A, 2586C>A, 2588C>A, 2591C>G, 2595G>T, 2596T>G, 2597T>G, 2598T>G, 2601G>T, 2605G>A, 2637G>A, 2640T>A, 2641A>T, 2643G>A, 2649G>A, 2650A>C, 2652G>A, 2653G>A, 2654G>A, 2656T>G, 2657C>A, 2658C>A, 2662C>A, 2663G>A, 2664G>A, 2665A>T, 2667A>C, 2668G>T, 2669T>G, 2670C>G, 2674G>A, 2675C>T, 2676T>G, 2679G>T, 2682G>C, 2685G>A, 2688C>G, 2689A>C, 2690G>A, 2691C>A, 2692A>C, 2693A>G, 2694A>G, 2695G>C, 2696T>A, 2697T>G, 2700C>T, 2703T>A, 2709C>T, 2713A>C, 2714A>G, 2715G>A, 2719C>A, 2720T>C, 2721T>C, 2722T>G, 2724G>T, 2725A>G, 2727A>C, 2728A>T, 2730T>G, 2734C>G, 2735A>T, 2736A>G, 2737A>G, 2738A>G, 2739G>A, 2741A>G, 2742A>G, 2745G>A, 2754A>G, 2757C>T, 2758T>C, 2766A>C, 2769C>T, 2772A>G, 2778T>A, 2780C>T, 2781T>A, 2787G>T, 2788T>C, 2793C>T, 2796G>A, 2800C>T, 2802C>A, 2805C>G, 2812C>A, 2814A>G, 2815A>G, 2816A>G, 2826C>T, 2827C>T, 2828A>C, 2829G>T, 2833T>G, 2834C>A, 2835C>A, 2836A>C, 2837C>A, 2840A>G, 2841G>A, 2842G>A, 2844C>A, 2848C>G, 2850G>A, 2853A>G, 2854A>T, 2856A>T, 2857T>G, 2858G>T, 2860G>A, 2862A>T, 2863G>A, 2866C>A, 2867G>A, 2868C>A, 2872G>A, 2873C>T, 2876T>C, 2877G>T, 2878T>G, 2879G>T, 2880T>G, 2883A>G, 2884G>A, 2885T>C, 2889G>C, 2890A>C, 2892C>A, 2895G>A, 2898G>T, 2901G>T, 2907C>T, 2911T>C, 2914C>T, 2916C>T, 2917G>T, 2918A>C, 2919A>T, 2920A>C, 2921A>C, 2922G>C, 2924C>A, 2925G>A, 2928C>A, 2929C>A, 2930C>A, 2931T>G, 2935T>G, 2936C>A, 2938A>C, 2939T>A, 2940C>A, 2943C>T, 2943_2944insATA, 2945C>A, 2949A>C, 2953C>T, 2955C>G, 2956C>G, 2958A>G, 2960T>A, 2961C>G, 2968A>C, 2969T>A, 2970G>A, 2972T>C, 2973T>C, 2979C>A, 2982G>A, 2984A>C, 2985G>C, 2991T>G, 2997A>T, 2998C>T, 3003C>A, 3006T>G, 3012C>T, 3015A>C, 3019G>C, 3020T>A, 3024A>T, 3025G>A, 3027G>T, 3028G>C, 3037T>G, 3039A>C, 3040G>A, 3041A>G, 3045C>T, 3046T>A, 3054G>A, 3055G>T, 3057T>A, 3060T>C, 3061C>A, 3072A>C, 3073A>T, 3078C>T, 3080A>G, 3081G>A, 3084A>G, 3087C>T, 3090G>A, 3093G>A, 3096T>A, 3099C>T, 3100A>T, 3105C>G, 3108C>T, 3109A>G, 3111C>T, 3120C>A, 3121T>A, 3123G>C, 3124G>C, 3126T>A, 3127T>C, 3128T>A, 3132G>C, 3135T>C, 3138G>A, 3141A>T, 3145T>G, 3146G>T, 3150G>A, 3153G>C, 3156C>T, 3162C>T, 3165C>T, 3168T>C, 3169T>C, 3172T>C, 3177T>G, 3180A>T, 3182A>G, 3183A>G, 3186A>G, 3192A>G, 3201C>T, 3207G>A, 3213C>A, 3216A>G, 3219T>C, 3225G>A, 3234C>T, 3240A>G, 3243A>G, 3252T>A, 3255T>C, 3258C>A, 3261A>G, 3273C>T, 3282A>C, 3283C>T, 3285C>G, 3288T>C, 3289T>G, 3300C>T, 3301A>G, 3302G>A, 3303C>A, 3305A>G, 3306C>G, 3308C>A, 3315T>C, 3316T>A, 3321T>A, 3324A>G, 3328C>T, 3330C>A, 3339T>C, 3345T>C, 3351C>G, 3353A>G, 3354G>A, 3355C>T, 3365A>C, 3366C>T, 3372G>A, 3376T>C, 3378G>T, 3381C>T, 3384G>C, 3387T>C, 3404A>G, 3405A>T, 3407A>C, 3408A>G, 3411C>A, 3413A>G, 3414T>A, 3417T>C, 3420C>G, 3426A>C, 3435T>C, 3438G>A, 3441A>G, 3444G>C, 3450A>G, 3462T>C, 3465C>G, 3469C>A, 3474C>T, 3477T>C, 3480G>A, 3486C>A, 3490C>A, 3495T>C, 3501A>C, 3502T>A, 3503C>A, 3511G>A, 3512C>T, 3513T>C, 3515T>A, 3516C>A, 3517A>C, 3522C>T, 3528A>G, 3529G>A, 3530T>C, 3531G>C, 3532A>C, 3534G>C, 3540A>G, 3543T>C, 3546T>G, 3555C>G, 3558G>T, 3559G>C, 3561A>G, 3566C>G, 3567C>A, 3568C>G, 3570A>C, 3573G>C, 3574T>A, 3576C>A, 3578G>A, 3579A>G, 3586A>T, 3587A>T, 3594G>T, 3597A>G, 3598C>A, 3599G>A, 3600A>G, 3601A>G, 3602G>C, 3603G>A, 3606C>A, 3607T>C, 3609A>G, 3611A>T, 3616C>T, 3618A>G, 3619A>T, 3620G>C, 3622A>G, 3624G>C, 3625T>C, 3627G>A, 3630A>C, 3634C>A, 3638T>C, 3639G>C, 3642G>T, 3645C>T, 3648A>G, 3658C>A, 3664C>A, 3667G>A, 3668A>G, 3669G>A, 3672A>G, 3675T>A, 3678G>A, 3681T>C, 3682C>T, 3684C>G, 3690T>C, 3691T>A, 3692T>G, 3693G>T, 3694C>T, 3696A>G, 3697A>C, 3698A>G, 3699A>G, 3702G>C, 3706A>C, 3709A>C, 3720C>G, 3721C>G, 3722C>A, 3723A>G, 3726C>A, 3729A>G
CDS
21352259.4%160575.8%307 (96.5%)227 (71.4%)8/3/0/01
Protein mutations:L213W (1598T>G), Q214R (1601A>G 1602A>G), S228T (1642T>A), S232P (1654T>C), N236D (1666A>G), T238Q (1672A>C 1673C>A), G239R (1675G>C 1677A>C), L244V (1690C>G 1692T>G), V264T (1750G>A 1751T>C 1752C>A), L283P (1808T>C), V285A (1814T>C 1815T>C), N286D (1816A>G), A288R (1822G>C 1823C>G 1824C>A), E293Q (1837G>C 1839G>A), L295E (1843C>G 1844T>A 1845C>G), N297D (1849A>G 1851T>C), E298M (1852G>A 1853A>T), A299G (1856C>G 1857C>A), N303T (1868A>C), Q306G (1876C>G 1877A>G 1878G>T), H309Y (1885C>T), R317S (1909C>A 1911T>C), L319K (1915C>A 1916T>A 1917G>A), V320I (1918G>A), R323Q (1928G>A), T324A (1930A>G), K330R (1948A>C 1949A>G 1950A>G), A333S (1957G>T), L346M (1996T>A), T350N (2009C>A 2010A>C), Y364F (2051A>T 2052T>C), Y367F (2060A>T 2061T>C), S373T (2077T>A 2079T>C), G376A (2087G>C 2088A>C), A380S (2098G>T 2100G>A), M383L (2107A>C), S384A (2110T>G), P391L (2132C>T), K394R (2141A>G 2142A>G), D405E (2175C>G), H406A (2176C>G 2177A>C), S407E (2179T>G 2180C>A 2181C>G), Q409R (2186A>G 2187G>T), I412V (2194A>G 2196A>G), K413R (2198A>G 2199G>A), H420Y (2218C>T 2220T>C), K421R (2222A>G 2223G>A), Q429E (2245C>G), E430Q (2248G>C 2250A>G), E432K (2254G>A 2256G>A), K433E (2257A>G), T436R (2267C>G), R441E (2281A>G 2282G>A), S460E (2338A>G 2339G>A 2340T>A), E461G (2342A>G), G463S (2347G>A 2349G>C), F464S (2350T>A 2351T>G), G466E (2357G>A), Q468E (2362C>G), A469R (2365G>A 2366C>G), G470D (2369G>A 2370G>T), N471F (2371A>T 2372A>T), L472R (2374C>A 2375T>G), S473K (2378G>A 2379C>A), N474I (2381A>T 2382C>T), A476S (2386G>T), M477_R478del (2389_2394delATGAGG), A479G (2396C>G 2397A>C), E482Q (2404G>C 2406A>G), G483S (2407G>T 2408G>C), G483_R484insGNLGN (2409_2410insGGGAACCTGGGCAAT), P485T (2413C>A 2415G>C), R498K (2453G>A 2454G>A), E504N (2470G>A 2472G>C), R507K (2479C>A 2480G>A), K509G (2485A>G 2486A>G 2487G>A), A511del (2491_2493delGCC), R512K (2495G>A 2496G>A), E513G (2498A>G), T514P (2500A>C 2502C>G), N515K (2505T>G), T518A (2512A>G 2514C>T), G520E (2519G>A 2520T>A), G520_D521insEDK (2520_2521insGAAGATAAA)
Codon mutations:TTG213TGG (1598T>G), CAA214CGG (1601A>G 1602A>G), CCT217CCC (1611T>C), TTC218TTT (1614C>T), TCC219TCT (1617C>T), TCA220TCT (1620A>T), TCT228ACT (1642T>A), AAT229AAC (1647T>C), CCT231CCC (1653T>C), TCT232CCT (1654T>C), TTT233TTC (1659T>C), TCC234TCG (1662C>G), AAT236GAT (1666A>G), CCT237CCC (1671T>C), ACA238CAA (1672A>C 1673C>A), GGA239CGC (1675G>C 1677A>C), CTT240CTC (1680T>C), GGA242GGG (1686A>G), CTC243TTG (1687C>T 1689C>G), CTT244GTG (1690C>G 1692T>G), CTC247CTT (1701C>T), TTT249TTC (1707T>C), TCC250TCT (1710C>T), GAC256GAT (1728C>T), TGC258TGT (1734C>T), CAG259CAA (1737G>A), CTC261CTG (1743C>G), CAA263CAG (1749A>G), GTC264ACA (1750G>A 1751T>C 1752C>A), TTT266TTC (1758T>C), ACC267ACA (1761C>A), GAA270GAG (1770A>G), AGA271CGA (1771A>C), GAA272GAG (1776A>G), AGG273AGA (1779G>A), CTT275CTG (1785T>G), TTG276TTA (1788G>A), CGC279AGA (1795C>A 1797C>A), AAC281AAT (1803C>T), GTC282GTT (1806C>T), CTT283CCT (1808T>C), GGA284GGG (1812A>G), GTT285GCC (1814T>C 1815T>C), AAC286GAC (1816A>G), GCC288CGA (1822G>C 1823C>G 1824C>A), CCT289CCC (1827T>C), ACA290ACG (1830A>G), CAA291CAG (1833A>G), CTC292TTG (1834C>T 1836C>G), GAG293CAA (1837G>C 1839G>A), AAC294AAT (1842C>T), CTC295GAG (1843C>G 1844T>A 1845C>G), AAT297GAC (1849A>G 1851T>C), GAG298ATG (1852G>A 1853A>T), GCC299GGA (1856C>G 1857C>A), TTC300TTT (1860C>T), CTT302TTG (1864C>T 1866T>G), AAT303ACT (1868A>C), CGA304CGC (1872A>C), CCT305CCC (1875T>C), CAG306GGT (1876C>G 1877A>G 1878G>T), GAT308GAC (1884T>C), CAC309TAC (1885C>T), CGT317AGC (1909C>A 1911T>C), CTC318TTG (1912C>T 1914C>G), CTG319AAA (1915C>A 1916T>A 1917G>A), GTC320ATC (1918G>A), TAC321TAT (1923C>T), CGG323CAG (1928G>A), ACT324GCT (1930A>G), CTA325CTG (1935A>G), AAA330CGG (1948A>C 1949A>G 1950A>G), GGG331GGC (1953G>C), GCA332GCC (1956A>C), GCA333TCA (1957G>T), AGG334AGA (1962G>A), CGC335CGG (1965C>G), ACC337ACT (1971C>T), GCC340GCT (1980C>T), GAA344GAG (1992A>G), GTC345GTG (1995C>G), TTG346ATG (1996T>A), CCA349CCG (2007A>G), ACA350AAC (2009C>A 2010A>C), CCC352CCT (2016C>T), CCG353CCC (2019G>C), TCC354TCG (2022C>G), GTT355GTA (2025T>A), CTA357CTT (2031A>T), GAA358GAG (2034A>G), CGT359AGG (2035C>A 2037T>G), CTA360CTC (2040A>C), GAG362GAA (2046G>A), GCT363GCC (2049T>C), TAT364TTC (2051A>T 2052T>C), AGA366CGG (2056A>C 2058A>G), TAT367TTC (2060A>T 2061T>C), CCA369CCT (2067A>T), CCC372CCT (2076C>T), TCT373ACC (2077T>A 2079T>C), TCT374TCA (2082T>A), GGA376GCC (2087G>C 2088A>C), CAA377CAG (2091A>G), AAG378AAA (2094G>A), GCG379GCC (2097G>C), GCG380TCA (2098G>T 2100G>A), ATG383CTG (2107A>C), TCC384GCC (2110T>G), TTT385TTC (2115T>C), ATC386ATT (2118C>T), TCT389TCG (2127T>G), GCC390GCT (2130C>T), CCG391CTG (2132C>T), ATT393ATC (2139T>C), AAA394AGG (2141A>G 2142A>G), TTA397CTT (2149T>C 2151A>T), CAA398CAG (2154A>G), AGG399AGA (2157G>A), GGA402GGG (2166A>G), CTC403TTA (2167C>T 2169C>A), GAC405GAG (2175C>G), CAT406GCT (2176C>G 2177A>C), TCC407GAG (2179T>G 2180C>A 2181C>G), TTG408TTA (2184G>A), CAG409CGT (2186A>G 2187G>T), CTC411CTA (2193C>A), ATA412GTG (2194A>G 2196A>G), AAG413AGA (2198A>G 2199G>A), GTA418GTG (2214A>G), CAT420TAC (2218C>T 2220T>C), AAG421AGA (2222A>G 2223G>A), AGA422AGG (2226A>G), GAG425GAA (2235G>A), GAA426GAG (2238A>G), GAA427GAG (2241A>G), CAA429GAA (2245C>G), GAA430CAG (2248G>C 2250A>G), GAG432AAA (2254G>A 2256G>A), AAA433GAA (2257A>G), ACA436AGA (2267C>G), GAG437GAA (2271G>A), AGA439AGG (2277A>G), AGA441GAA (2281A>G 2282G>A), CGG442AGA (2284C>A 2286G>A), GAC444GAT (2292C>T), AGG445AGA (2295G>A), CGC446CGG (2298C>G), CAG447CAA (2301G>A), AAA449AAG (2307A>G), AAC450AAT (2310C>T), ACC452ACT (2316C>T), AAA453AAG (2319A>G), GCG457GCA (2331G>A), GTA458GTG (2334A>G), GTA459GTT (2337A>T), AGT460GAA (2338A>G 2339G>A 2340T>A), GAG461GGG (2342A>G), AAA462AAG (2346A>G), GGG463AGC (2347G>A 2349G>C), TTC464AGC (2350T>A 2351T>G), AGA465AGG (2355A>G), GGG466GAG (2357G>A), CAG468GAG (2362C>G), GCA469AGA (2365G>A 2366C>G), GGG470GAT (2369G>A 2370G>T), AAT471TTT (2371A>T 2372A>T), CTG472AGG (2374C>A 2375T>G), AGC473AAA (2378G>A 2379C>A), AAC474ATT (2381A>T 2382C>T), GCA476TCA (2386G>T), ATG477_AGG478del (2389_2394delATGAGG), GCA479GGC (2396C>G 2397A>C), AGG481AGA (2403G>A), GAA482CAG (2404G>C 2406A>G), GGA483TCA (2407G>T 2408G>C), GGA483_AGA484insGGGAACCTGGGCAAT (2409_2410insGGGAACCTGGGCAAT), AGA484AGG (2412A>G), CCG485ACC (2413C>A 2415G>C), CCT486CCA (2418T>A), CTG487CTC (2421G>C), AAA489AAG (2427A>G), GAT490GAC (2430T>C), CAG491CAA (2433G>A), TGC492TGT (2436C>T), GCA493GCG (2439A>G), TAC494TAT (2442C>T), AGG498AAA (2453G>A 2454G>A), GGC499GGA (2457C>A), CAT500CAC (2460T>C), GAG504AAC (2470G>A 2472G>C), CGG507AAG (2479C>A 2480G>A), AAG509GGA (2485A>G 2486A>G 2487G>A), GCC511del (2491_2493delGCC), AGG512AAA (2495G>A 2496G>A), GAA513GGA (2498A>G), ACC514CCG (2500A>C 2502C>G), AAT515AAG (2505T>G), CTG517CTA (2511G>A), ACC518GCT (2512A>G 2514C>T), CTG519CTA (2517G>A), GGT520GAA (2519G>A 2520T>A), GGT520_GAC521insGAAGATAAA (2520_2521insGAAGATAAA), GAC521GAT (2523C>T)
136632.4%195274.8%366 (99.7%)260 (70.8%)1/0/0/00
Protein mutations:M1L (2641A>T 2643G>A), M4L (2650A>C 2652G>A), G5K (2653G>A 2654G>A), S6E (2656T>G 2657C>A 2658C>A), R8K (2662C>A 2663G>A 2664G>A), T9S (2665A>T 2667A>C), V10W (2668G>T 2669T>G 2670C>G), A12M (2674G>A 2675C>T 2676T>G), S17Q (2689A>C 2690G>A 2691C>A), K18R (2692A>C 2693A>G 2694A>G), V19Q (2695G>C 2696T>A 2697T>G), K25R (2713A>C 2714A>G 2715G>A), L27T (2719C>A 2720T>C 2721T>C), L28V (2722T>G 2724G>T), K29D (2725A>G 2727A>C), I30L (2728A>T 2730T>G), Q32V (2734C>G 2735A>T 2736A>G), K33G (2737A>G 2738A>G 2739G>A), Q34R (2741A>G 2742A>G), A47V (2780C>T 2781T>A), L58M (2812C>A 2814A>G), K59G (2815A>G 2816A>G), Q63S (2827C>T 2828A>C 2829G>T), S65E (2833T>G 2834C>A 2835C>A), T66Q (2836A>C 2837C>A), E67G (2840A>G 2841G>A), G68R (2842G>A 2844C>A), Q70E (2848C>G 2850G>A), T72S (2854A>T 2856A>T), W73V (2857T>G 2858G>T), E74N (2860G>A 2862A>T), D75N (2863G>A), R76K (2866C>A 2867G>A 2868C>A), A78I (2872G>A 2873C>T), M79T (2876T>C 2877G>T), C80V (2878T>G 2879G>T 2880T>G), V82T (2884G>A 2885T>C), N84Q (2890A>C 2892C>A), E86D (2898G>T), E87D (2901G>T), H92Y (2914C>T 2916C>T), E93S (2917G>T 2918A>C 2919A>T), K94P (2920A>C 2921A>C 2922G>C), P95Q (2924C>A 2925G>A), P97K (2929C>A 2930C>A 2931T>G), S99D (2935T>G 2936C>A), I100Q (2938A>C 2939T>A 2940C>A), D101_P102insI (2943_2944insATA), P102Q (2945C>A), Q106E (2956C>G 2958A>G), L107Q (2960T>A 2961C>G), M110Q (2968A>C 2969T>A 2970G>A), V111A (2972T>C 2973T>C), K115T (2984A>C 2985G>C), N122K (3006T>G), V127Q (3019G>C 3020T>A), V129I (3025G>A 3027G>T), E130Q (3028G>C), S133A (3037T>G 3039A>C), D134S (3040G>A 3041A>G), S136T (3046T>A), A139S (3055G>T 3057T>A), M145L (3073A>T), K147R (3080A>G 3081G>A), R154W (3100A>T), I157V (3109A>G 3111C>T), F160L (3120C>A), L161I (3121T>A 3123G>C), D162Q (3124G>C 3126T>A), L163Q (3127T>C 3128T>A), C169V (3145T>G 3146G>T), K181R (3182A>G 3183A>G), S217A (3289T>G), S221E (3301A>G 3302G>A 3303C>A), H222R (3305A>G 3306C>G), T223N (3308C>A), S226T (3316T>A), K238R (3353A>G 3354G>A), N242T (3365A>C 3366C>T), E255G (3404A>G 3405A>T), K256T (3407A>C 3408A>G), N258R (3413A>G 3414T>A), L277I (3469C>A), S288N (3502T>A 3503C>A), A291I (3511G>A 3512C>T 3513T>C), L292Q (3515T>A 3516C>A), N293H (3517A>C), V297T (3529G>A 3530T>C 3531G>C), M298L (3532A>C 3534G>C), V307L (3559G>C 3561A>G), A309G (3566C>G 3567C>A), P310A (3568C>G 3570A>C), Y312K (3574T>A 3576C>A), R313Q (3578G>A 3579A>G), K316L (3586A>T 3587A>T), R320K (3598C>A 3599G>A 3600A>G), R321A (3601A>G 3602G>C 3603G>A), Q324L (3611A>T), K328D (3622A>G 3624G>C), V333A (3638T>C 3639G>C), L340I (3658C>A), E343R (3667G>A 3668A>G 3669G>A), L351S (3691T>A 3692T>G 3693G>T), K353R (3697A>C 3698A>G 3699A>G), K356Q (3706A>C), P361E (3721C>G 3722C>A 3723A>G)
Codon mutations:ATG1TTA (2641A>T 2643G>A), AAG3AAA (2649G>A), ATG4CTA (2650A>C 2652G>A), GGA5AAA (2653G>A 2654G>A), TCC6GAA (2656T>G 2657C>A 2658C>A), CGG8AAA (2662C>A 2663G>A 2664G>A), ACA9TCC (2665A>T 2667A>C), GTC10TGG (2668G>T 2669T>G 2670C>G), GCT12ATG (2674G>A 2675C>T 2676T>G), GGG13GGT (2679G>T), GCG14GCC (2682G>C), ACG15ACA (2685G>A), GGC16GGG (2688C>G), AGC17CAA (2689A>C 2690G>A 2691C>A), AAA18CGG (2692A>C 2693A>G 2694A>G), GTT19CAG (2695G>C 2696T>A 2697T>G), TAC20TAT (2700C>T), CCT21CCA (2703T>A), ACC23ACT (2709C>T), AAG25CGA (2713A>C 2714A>G 2715G>A), CTT27ACC (2719C>A 2720T>C 2721T>C), TTG28GTT (2722T>G 2724G>T), AAA29GAC (2725A>G 2727A>C), ATT30TTG (2728A>T 2730T>G), CAA32GTG (2734C>G 2735A>T 2736A>G), AAG33GGA (2737A>G 2738A>G 2739G>A), CAA34CGG (2741A>G 2742A>G), GTG35GTA (2745G>A), TCA38TCG (2754A>G), TTC39TTT (2757C>T), TTG40CTG (2758T>C), ATA42ATC (2766A>C), CCC43CCT (2769C>T), GAA44GAG (2772A>G), CCT46CCA (2778T>A), GCT47GTA (2780C>T 2781T>A), CTG49CTT (2787G>T), TTA50CTA (2788T>C), GGC51GGT (2793C>T), AGG52AGA (2796G>A), CTC54TTA (2800C>T 2802C>A), CTC55CTG (2805C>G), CTA58ATG (2812C>A 2814A>G), AAA59GGA (2815A>G 2816A>G), ATC62ATT (2826C>T), CAG63TCT (2827C>T 2828A>C 2829G>T), TCC65GAA (2833T>G 2834C>A 2835C>A), ACA66CAA (2836A>C 2837C>A), GAG67GGA (2840A>G 2841G>A), GGC68AGA (2842G>A 2844C>A), CAG70GAA (2848C>G 2850G>A), GTA71GTG (2853A>G), ACA72TCT (2854A>T 2856A>T), TGG73GTG (2857T>G 2858G>T), GAA74AAT (2860G>A 2862A>T), GAC75AAC (2863G>A), CGC76AAA (2866C>A 2867G>A 2868C>A), GCC78ATC (2872G>A 2873C>T), ATG79ACT (2876T>C 2877G>T), TGT80GTG (2878T>G 2879G>T 2880T>G), TTA81TTG (2883A>G), GTC82ACC (2884G>A 2885T>C), CTG83CTC (2889G>C), AAC84CAA (2890A>C 2892C>A), TTG85TTA (2895G>A), GAG86GAT (2898G>T), GAG87GAT (2901G>T), TAC89TAT (2907C>T), TTA91CTA (2911T>C), CAC92TAT (2914C>T 2916C>T), GAA93TCT (2917G>T 2918A>C 2919A>T), AAG94CCC (2920A>C 2921A>C 2922G>C), CCG95CAA (2924C>A 2925G>A), GTC96GTA (2928C>A), CCT97AAG (2929C>A 2930C>A 2931T>G), TCT99GAT (2935T>G 2936C>A), ATC100CAA (2938A>C 2939T>A 2940C>A), GAC101GAT (2943C>T), GAC101_CCG102insATA (2943_2944insATA), CCG102CAG (2945C>A), TCA103TCC (2949A>C), CTC105TTG (2953C>T 2955C>G), CAA106GAG (2956C>G 2958A>G), CTC107CAG (2960T>A 2961C>G), ATG110CAA (2968A>C 2969T>A 2970G>A), GTT111GCC (2972T>C 2973T>C), GCC113GCA (2979C>A), GAG114GAA (2982G>A), AAG115ACC (2984A>C 2985G>C), GGT117GGG (2991T>G), GGA119GGT (2997A>T), CTG120TTG (2998C>T), GCC121GCA (3003C>A), AAT122AAG (3006T>G), GTC124GTT (3012C>T), CCA125CCC (3015A>C), GTG127CAG (3019G>C 3020T>A), GTA128GTT (3024A>T), GTG129ATT (3025G>A 3027G>T), GAA130CAA (3028G>C), TCA133GCC (3037T>G 3039A>C), GAT134AGT (3040G>A 3041A>G), GCC135GCT (3045C>T), TCA136ACA (3046T>A), GTG138GTA (3054G>A), GCT139TCA (3055G>T 3057T>A), GTT140GTC (3060T>C), CGA141AGA (3061C>A), CCA144CCC (3072A>C), ATG145TTG (3073A>T), AGC146AGT (3078C>T), AAG147AGA (3080A>G 3081G>A), GAA148GAG (3084A>G), GCC149GCT (3087C>T), CGG150CGA (3090G>A), GAG151GAA (3093G>A), GGT152GGA (3096T>A), ATC153ATT (3099C>T), AGG154TGG (3100A>T), CCC155CCG (3105C>G), CAC156CAT (3108C>T), ATC157GTT (3109A>G 3111C>T), TTC160TTA (3120C>A), TTG161ATC (3121T>A 3123G>C), GAT162CAA (3124G>C 3126T>A), TTG163CAG (3127T>C 3128T>A), GGG164GGC (3132G>C), ATT165ATC (3135T>C), CTG166CTA (3138G>A), GTA167GTT (3141A>T), TGC169GTC (3145T>G 3146G>T), CAG170CAA (3150G>A), TCG171TCC (3153G>C), CCC172CCT (3156C>T), AAC174AAT (3162C>T), ACC175ACT (3165C>T), CCT176CCC (3168T>C), TTG177CTG (3169T>C), TTA178CTA (3172T>C), CCT179CCG (3177T>G), GTA180GTT (3180A>T), AAA181AGG (3182A>G 3183A>G), AAA182AAG (3186A>G), GGA184GGG (3192A>G), GAC187GAT (3201C>T), CGG189CGA (3207G>A), GTC191GTA (3213C>A), CAA192CAG (3216A>G), GAT193GAC (3219T>C), AGG195AGA (3225G>A), AAC198AAT (3234C>T), AGA200AGG (3240A>G), GTA201GTG (3243A>G), ATT204ATA (3252T>A), CAT205CAC (3255T>C), CCC206CCA (3258C>A), ACA207ACG (3261A>G), CCC211CCT (3273C>T), CTA214CTC (3282A>C), CTC215TTG (3283C>T 3285C>G), AGT216AGC (3288T>C), TCC217GCC (3289T>G), CCC220CCT (3300C>T), AGC221GAA (3301A>G 3302G>A 3303C>A), CAC222CGG (3305A>G 3306C>G), ACC223AAC (3308C>A), TAT225TAC (3315T>C), TCA226ACA (3316T>A), GTT227GTA (3321T>A), TTA228TTG (3324A>G), CTC230TTA (3328C>T 3330C>A), GCT233GCC (3339T>C), TTT235TTC (3345T>C), CTC237CTG (3351C>G), AAG238AGA (3353A>G 3354G>A), CTA239TTA (3355C>T), AAC242ACT (3365A>C 3366C>T), CAG244CAA (3372G>A), TTG246CTT (3376T>C 3378G>T), TTC247TTT (3381C>T), GCG248GCC (3384G>C), TTT249TTC (3387T>C), GAA255GGT (3404A>G 3405A>T), AAA256ACG (3407A>C 3408A>G), GGC257GGA (3411C>A), AAT258AGA (3413A>G 3414T>A), ACT259ACC (3417T>C), GGC260GGG (3420C>G), CTA262CTC (3426A>C), ACT265ACC (3435T>C), CGG266CGA (3438G>A), CTA267CTG (3441A>G), CCG268CCC (3444G>C), GGA270GGG (3450A>G), TCT274TCC (3462T>C), CCC275CCG (3465C>G), CTC277ATC (3469C>A), TTC278TTT (3474C>T), GAT279GAC (3477T>C), GAG280GAA (3480G>A), CTC282CTA (3486C>A), CGG284AGG (3490C>A), GAT285GAC (3495T>C), GCA287GCC (3501A>C), TCC288AAC (3502T>A 3503C>A), GCT291ATC (3511G>A 3512C>T 3513T>C), CTC292CAA (3515T>A 3516C>A), AAC293CAC (3517A>C), CCC294CCT (3522C>T), GTA296GTG (3528A>G), GTG297ACC (3529G>A 3530T>C 3531G>C), ATG298CTC (3532A>C 3534G>C), CAA300CAG (3540A>G), TAT301TAC (3543T>C), GTT302GTG (3546T>G), CTC305CTG (3555C>G), CTG306CTT (3558G>T), GTA307CTG (3559G>C 3561A>G), GCC309GGA (3566C>G 3567C>A), CCA310GCC (3568C>G 3570A>C), ACG311ACC (3573G>C), TAC312AAA (3574T>A 3576C>A), CGA313CAG (3578G>A 3579A>G), AAA316TTA (3586A>T 3587A>T), GGG318GGT (3594G>T), ACA319ACG (3597A>G), CGA320AAG (3598C>A 3599G>A 3600A>G), AGG321GCA (3601A>G 3602G>C 3603G>A), CTC322CTA (3606C>A), TTA323CTG (3607T>C 3609A>G), CAG324CTG (3611A>T), CTA326TTG (3616C>T 3618A>G), AGT327TCT (3619A>T 3620G>C), AAG328GAC (3622A>G 3624G>C), TTG329CTA (3625T>C 3627G>A), GGA330GGC (3630A>C), CGA332AGA (3634C>A), GTG333GCC (3638T>C 3639G>C), TCG334TCT (3642G>T), GCC335GCT (3645C>T), AAA336AAG (3648A>G), CTT340ATT (3658C>A), CGG342AGG (3664C>A), GAG343AGA (3667G>A 3668A>G 3669G>A), GAA344GAG (3672A>G), GTT345GTA (3675T>A), ACG346ACA (3678G>A), TAT347TAC (3681T>C), CTC348TTG (3682C>T 3684C>G), TAT350TAC (3690T>C), TTG351AGT (3691T>A 3692T>G 3693G>T), CTA352TTG (3694C>T 3696A>G), AAA353CGG (3697A>C 3698A>G 3699A>G), GGG354GGC (3702G>C), AAG356CAG (3706A>C), AGA357CGA (3709A>C), ACC360ACG (3720C>G), CCA361GAG (3721C>G 3722C>A 3723A>G), GCC362GCA (3726C>A), CGA363CGG (3729A>G)
Proteins
21352259.4%160575.8%307 (96.5%)227 (71.4%)8/3/0/01
Protein mutations:L213W (1598T>G), Q214R (1601A>G 1602A>G), S228T (1642T>A), S232P (1654T>C), N236D (1666A>G), T238Q (1672A>C 1673C>A), G239R (1675G>C 1677A>C), L244V (1690C>G 1692T>G), V264T (1750G>A 1751T>C 1752C>A), L283P (1808T>C), V285A (1814T>C 1815T>C), N286D (1816A>G), A288R (1822G>C 1823C>G 1824C>A), E293Q (1837G>C 1839G>A), L295E (1843C>G 1844T>A 1845C>G), N297D (1849A>G 1851T>C), E298M (1852G>A 1853A>T), A299G (1856C>G 1857C>A), N303T (1868A>C), Q306G (1876C>G 1877A>G 1878G>T), H309Y (1885C>T), R317S (1909C>A 1911T>C), L319K (1915C>A 1916T>A 1917G>A), V320I (1918G>A), R323Q (1928G>A), T324A (1930A>G), K330R (1948A>C 1949A>G 1950A>G), A333S (1957G>T), L346M (1996T>A), T350N (2009C>A 2010A>C), Y364F (2051A>T 2052T>C), Y367F (2060A>T 2061T>C), S373T (2077T>A 2079T>C), G376A (2087G>C 2088A>C), A380S (2098G>T 2100G>A), M383L (2107A>C), S384A (2110T>G), P391L (2132C>T), K394R (2141A>G 2142A>G), D405E (2175C>G), H406A (2176C>G 2177A>C), S407E (2179T>G 2180C>A 2181C>G), Q409R (2186A>G 2187G>T), I412V (2194A>G 2196A>G), K413R (2198A>G 2199G>A), H420Y (2218C>T 2220T>C), K421R (2222A>G 2223G>A), Q429E (2245C>G), E430Q (2248G>C 2250A>G), E432K (2254G>A 2256G>A), K433E (2257A>G), T436R (2267C>G), R441E (2281A>G 2282G>A), S460E (2338A>G 2339G>A 2340T>A), E461G (2342A>G), G463S (2347G>A 2349G>C), F464S (2350T>A 2351T>G), G466E (2357G>A), Q468E (2362C>G), A469R (2365G>A 2366C>G), G470D (2369G>A 2370G>T), N471F (2371A>T 2372A>T), L472R (2374C>A 2375T>G), S473K (2378G>A 2379C>A), N474I (2381A>T 2382C>T), A476S (2386G>T), M477_R478del (2389_2394delATGAGG), A479G (2396C>G 2397A>C), E482Q (2404G>C 2406A>G), G483S (2407G>T 2408G>C), G483_R484insGNLGN (2409_2410insGGGAACCTGGGCAAT), P485T (2413C>A 2415G>C), R498K (2453G>A 2454G>A), E504N (2470G>A 2472G>C), R507K (2479C>A 2480G>A), K509G (2485A>G 2486A>G 2487G>A), A511del (2491_2493delGCC), R512K (2495G>A 2496G>A), E513G (2498A>G), T514P (2500A>C 2502C>G), N515K (2505T>G), T518A (2512A>G 2514C>T), G520E (2519G>A 2520T>A), G520_D521insEDK (2520_2521insGAAGATAAA)
Codon mutations:TTG213TGG (1598T>G), CAA214CGG (1601A>G 1602A>G), CCT217CCC (1611T>C), TTC218TTT (1614C>T), TCC219TCT (1617C>T), TCA220TCT (1620A>T), TCT228ACT (1642T>A), AAT229AAC (1647T>C), CCT231CCC (1653T>C), TCT232CCT (1654T>C), TTT233TTC (1659T>C), TCC234TCG (1662C>G), AAT236GAT (1666A>G), CCT237CCC (1671T>C), ACA238CAA (1672A>C 1673C>A), GGA239CGC (1675G>C 1677A>C), CTT240CTC (1680T>C), GGA242GGG (1686A>G), CTC243TTG (1687C>T 1689C>G), CTT244GTG (1690C>G 1692T>G), CTC247CTT (1701C>T), TTT249TTC (1707T>C), TCC250TCT (1710C>T), GAC256GAT (1728C>T), TGC258TGT (1734C>T), CAG259CAA (1737G>A), CTC261CTG (1743C>G), CAA263CAG (1749A>G), GTC264ACA (1750G>A 1751T>C 1752C>A), TTT266TTC (1758T>C), ACC267ACA (1761C>A), GAA270GAG (1770A>G), AGA271CGA (1771A>C), GAA272GAG (1776A>G), AGG273AGA (1779G>A), CTT275CTG (1785T>G), TTG276TTA (1788G>A), CGC279AGA (1795C>A 1797C>A), AAC281AAT (1803C>T), GTC282GTT (1806C>T), CTT283CCT (1808T>C), GGA284GGG (1812A>G), GTT285GCC (1814T>C 1815T>C), AAC286GAC (1816A>G), GCC288CGA (1822G>C 1823C>G 1824C>A), CCT289CCC (1827T>C), ACA290ACG (1830A>G), CAA291CAG (1833A>G), CTC292TTG (1834C>T 1836C>G), GAG293CAA (1837G>C 1839G>A), AAC294AAT (1842C>T), CTC295GAG (1843C>G 1844T>A 1845C>G), AAT297GAC (1849A>G 1851T>C), GAG298ATG (1852G>A 1853A>T), GCC299GGA (1856C>G 1857C>A), TTC300TTT (1860C>T), CTT302TTG (1864C>T 1866T>G), AAT303ACT (1868A>C), CGA304CGC (1872A>C), CCT305CCC (1875T>C), CAG306GGT (1876C>G 1877A>G 1878G>T), GAT308GAC (1884T>C), CAC309TAC (1885C>T), CGT317AGC (1909C>A 1911T>C), CTC318TTG (1912C>T 1914C>G), CTG319AAA (1915C>A 1916T>A 1917G>A), GTC320ATC (1918G>A), TAC321TAT (1923C>T), CGG323CAG (1928G>A), ACT324GCT (1930A>G), CTA325CTG (1935A>G), AAA330CGG (1948A>C 1949A>G 1950A>G), GGG331GGC (1953G>C), GCA332GCC (1956A>C), GCA333TCA (1957G>T), AGG334AGA (1962G>A), CGC335CGG (1965C>G), ACC337ACT (1971C>T), GCC340GCT (1980C>T), GAA344GAG (1992A>G), GTC345GTG (1995C>G), TTG346ATG (1996T>A), CCA349CCG (2007A>G), ACA350AAC (2009C>A 2010A>C), CCC352CCT (2016C>T), CCG353CCC (2019G>C), TCC354TCG (2022C>G), GTT355GTA (2025T>A), CTA357CTT (2031A>T), GAA358GAG (2034A>G), CGT359AGG (2035C>A 2037T>G), CTA360CTC (2040A>C), GAG362GAA (2046G>A), GCT363GCC (2049T>C), TAT364TTC (2051A>T 2052T>C), AGA366CGG (2056A>C 2058A>G), TAT367TTC (2060A>T 2061T>C), CCA369CCT (2067A>T), CCC372CCT (2076C>T), TCT373ACC (2077T>A 2079T>C), TCT374TCA (2082T>A), GGA376GCC (2087G>C 2088A>C), CAA377CAG (2091A>G), AAG378AAA (2094G>A), GCG379GCC (2097G>C), GCG380TCA (2098G>T 2100G>A), ATG383CTG (2107A>C), TCC384GCC (2110T>G), TTT385TTC (2115T>C), ATC386ATT (2118C>T), TCT389TCG (2127T>G), GCC390GCT (2130C>T), CCG391CTG (2132C>T), ATT393ATC (2139T>C), AAA394AGG (2141A>G 2142A>G), TTA397CTT (2149T>C 2151A>T), CAA398CAG (2154A>G), AGG399AGA (2157G>A), GGA402GGG (2166A>G), CTC403TTA (2167C>T 2169C>A), GAC405GAG (2175C>G), CAT406GCT (2176C>G 2177A>C), TCC407GAG (2179T>G 2180C>A 2181C>G), TTG408TTA (2184G>A), CAG409CGT (2186A>G 2187G>T), CTC411CTA (2193C>A), ATA412GTG (2194A>G 2196A>G), AAG413AGA (2198A>G 2199G>A), GTA418GTG (2214A>G), CAT420TAC (2218C>T 2220T>C), AAG421AGA (2222A>G 2223G>A), AGA422AGG (2226A>G), GAG425GAA (2235G>A), GAA426GAG (2238A>G), GAA427GAG (2241A>G), CAA429GAA (2245C>G), GAA430CAG (2248G>C 2250A>G), GAG432AAA (2254G>A 2256G>A), AAA433GAA (2257A>G), ACA436AGA (2267C>G), GAG437GAA (2271G>A), AGA439AGG (2277A>G), AGA441GAA (2281A>G 2282G>A), CGG442AGA (2284C>A 2286G>A), GAC444GAT (2292C>T), AGG445AGA (2295G>A), CGC446CGG (2298C>G), CAG447CAA (2301G>A), AAA449AAG (2307A>G), AAC450AAT (2310C>T), ACC452ACT (2316C>T), AAA453AAG (2319A>G), GCG457GCA (2331G>A), GTA458GTG (2334A>G), GTA459GTT (2337A>T), AGT460GAA (2338A>G 2339G>A 2340T>A), GAG461GGG (2342A>G), AAA462AAG (2346A>G), GGG463AGC (2347G>A 2349G>C), TTC464AGC (2350T>A 2351T>G), AGA465AGG (2355A>G), GGG466GAG (2357G>A), CAG468GAG (2362C>G), GCA469AGA (2365G>A 2366C>G), GGG470GAT (2369G>A 2370G>T), AAT471TTT (2371A>T 2372A>T), CTG472AGG (2374C>A 2375T>G), AGC473AAA (2378G>A 2379C>A), AAC474ATT (2381A>T 2382C>T), GCA476TCA (2386G>T), ATG477_AGG478del (2389_2394delATGAGG), GCA479GGC (2396C>G 2397A>C), AGG481AGA (2403G>A), GAA482CAG (2404G>C 2406A>G), GGA483TCA (2407G>T 2408G>C), GGA483_AGA484insGGGAACCTGGGCAAT (2409_2410insGGGAACCTGGGCAAT), AGA484AGG (2412A>G), CCG485ACC (2413C>A 2415G>C), CCT486CCA (2418T>A), CTG487CTC (2421G>C), AAA489AAG (2427A>G), GAT490GAC (2430T>C), CAG491CAA (2433G>A), TGC492TGT (2436C>T), GCA493GCG (2439A>G), TAC494TAT (2442C>T), AGG498AAA (2453G>A 2454G>A), GGC499GGA (2457C>A), CAT500CAC (2460T>C), GAG504AAC (2470G>A 2472G>C), CGG507AAG (2479C>A 2480G>A), AAG509GGA (2485A>G 2486A>G 2487G>A), GCC511del (2491_2493delGCC), AGG512AAA (2495G>A 2496G>A), GAA513GGA (2498A>G), ACC514CCG (2500A>C 2502C>G), AAT515AAG (2505T>G), CTG517CTA (2511G>A), ACC518GCT (2512A>G 2514C>T), CTG519CTA (2517G>A), GGT520GAA (2519G>A 2520T>A), GGT520_GAC521insGAAGATAAA (2520_2521insGAAGATAAA), GAC521GAT (2523C>T)
136632.4%195274.8%366 (99.7%)260 (70.8%)1/0/0/00
Protein mutations:M1L (2641A>T 2643G>A), M4L (2650A>C 2652G>A), G5K (2653G>A 2654G>A), S6E (2656T>G 2657C>A 2658C>A), R8K (2662C>A 2663G>A 2664G>A), T9S (2665A>T 2667A>C), V10W (2668G>T 2669T>G 2670C>G), A12M (2674G>A 2675C>T 2676T>G), S17Q (2689A>C 2690G>A 2691C>A), K18R (2692A>C 2693A>G 2694A>G), V19Q (2695G>C 2696T>A 2697T>G), K25R (2713A>C 2714A>G 2715G>A), L27T (2719C>A 2720T>C 2721T>C), L28V (2722T>G 2724G>T), K29D (2725A>G 2727A>C), I30L (2728A>T 2730T>G), Q32V (2734C>G 2735A>T 2736A>G), K33G (2737A>G 2738A>G 2739G>A), Q34R (2741A>G 2742A>G), A47V (2780C>T 2781T>A), L58M (2812C>A 2814A>G), K59G (2815A>G 2816A>G), Q63S (2827C>T 2828A>C 2829G>T), S65E (2833T>G 2834C>A 2835C>A), T66Q (2836A>C 2837C>A), E67G (2840A>G 2841G>A), G68R (2842G>A 2844C>A), Q70E (2848C>G 2850G>A), T72S (2854A>T 2856A>T), W73V (2857T>G 2858G>T), E74N (2860G>A 2862A>T), D75N (2863G>A), R76K (2866C>A 2867G>A 2868C>A), A78I (2872G>A 2873C>T), M79T (2876T>C 2877G>T), C80V (2878T>G 2879G>T 2880T>G), V82T (2884G>A 2885T>C), N84Q (2890A>C 2892C>A), E86D (2898G>T), E87D (2901G>T), H92Y (2914C>T 2916C>T), E93S (2917G>T 2918A>C 2919A>T), K94P (2920A>C 2921A>C 2922G>C), P95Q (2924C>A 2925G>A), P97K (2929C>A 2930C>A 2931T>G), S99D (2935T>G 2936C>A), I100Q (2938A>C 2939T>A 2940C>A), D101_P102insI (2943_2944insATA), P102Q (2945C>A), Q106E (2956C>G 2958A>G), L107Q (2960T>A 2961C>G), M110Q (2968A>C 2969T>A 2970G>A), V111A (2972T>C 2973T>C), K115T (2984A>C 2985G>C), N122K (3006T>G), V127Q (3019G>C 3020T>A), V129I (3025G>A 3027G>T), E130Q (3028G>C), S133A (3037T>G 3039A>C), D134S (3040G>A 3041A>G), S136T (3046T>A), A139S (3055G>T 3057T>A), M145L (3073A>T), K147R (3080A>G 3081G>A), R154W (3100A>T), I157V (3109A>G 3111C>T), F160L (3120C>A), L161I (3121T>A 3123G>C), D162Q (3124G>C 3126T>A), L163Q (3127T>C 3128T>A), C169V (3145T>G 3146G>T), K181R (3182A>G 3183A>G), S217A (3289T>G), S221E (3301A>G 3302G>A 3303C>A), H222R (3305A>G 3306C>G), T223N (3308C>A), S226T (3316T>A), K238R (3353A>G 3354G>A), N242T (3365A>C 3366C>T), E255G (3404A>G 3405A>T), K256T (3407A>C 3408A>G), N258R (3413A>G 3414T>A), L277I (3469C>A), S288N (3502T>A 3503C>A), A291I (3511G>A 3512C>T 3513T>C), L292Q (3515T>A 3516C>A), N293H (3517A>C), V297T (3529G>A 3530T>C 3531G>C), M298L (3532A>C 3534G>C), V307L (3559G>C 3561A>G), A309G (3566C>G 3567C>A), P310A (3568C>G 3570A>C), Y312K (3574T>A 3576C>A), R313Q (3578G>A 3579A>G), K316L (3586A>T 3587A>T), R320K (3598C>A 3599G>A 3600A>G), R321A (3601A>G 3602G>C 3603G>A), Q324L (3611A>T), K328D (3622A>G 3624G>C), V333A (3638T>C 3639G>C), L340I (3658C>A), E343R (3667G>A 3668A>G 3669G>A), L351S (3691T>A 3692T>G 3693G>T), K353R (3697A>C 3698A>G 3699A>G), K356Q (3706A>C), P361E (3721C>G 3722C>A 3723A>G)
Codon mutations:ATG1TTA (2641A>T 2643G>A), AAG3AAA (2649G>A), ATG4CTA (2650A>C 2652G>A), GGA5AAA (2653G>A 2654G>A), TCC6GAA (2656T>G 2657C>A 2658C>A), CGG8AAA (2662C>A 2663G>A 2664G>A), ACA9TCC (2665A>T 2667A>C), GTC10TGG (2668G>T 2669T>G 2670C>G), GCT12ATG (2674G>A 2675C>T 2676T>G), GGG13GGT (2679G>T), GCG14GCC (2682G>C), ACG15ACA (2685G>A), GGC16GGG (2688C>G), AGC17CAA (2689A>C 2690G>A 2691C>A), AAA18CGG (2692A>C 2693A>G 2694A>G), GTT19CAG (2695G>C 2696T>A 2697T>G), TAC20TAT (2700C>T), CCT21CCA (2703T>A), ACC23ACT (2709C>T), AAG25CGA (2713A>C 2714A>G 2715G>A), CTT27ACC (2719C>A 2720T>C 2721T>C), TTG28GTT (2722T>G 2724G>T), AAA29GAC (2725A>G 2727A>C), ATT30TTG (2728A>T 2730T>G), CAA32GTG (2734C>G 2735A>T 2736A>G), AAG33GGA (2737A>G 2738A>G 2739G>A), CAA34CGG (2741A>G 2742A>G), GTG35GTA (2745G>A), TCA38TCG (2754A>G), TTC39TTT (2757C>T), TTG40CTG (2758T>C), ATA42ATC (2766A>C), CCC43CCT (2769C>T), GAA44GAG (2772A>G), CCT46CCA (2778T>A), GCT47GTA (2780C>T 2781T>A), CTG49CTT (2787G>T), TTA50CTA (2788T>C), GGC51GGT (2793C>T), AGG52AGA (2796G>A), CTC54TTA (2800C>T 2802C>A), CTC55CTG (2805C>G), CTA58ATG (2812C>A 2814A>G), AAA59GGA (2815A>G 2816A>G), ATC62ATT (2826C>T), CAG63TCT (2827C>T 2828A>C 2829G>T), TCC65GAA (2833T>G 2834C>A 2835C>A), ACA66CAA (2836A>C 2837C>A), GAG67GGA (2840A>G 2841G>A), GGC68AGA (2842G>A 2844C>A), CAG70GAA (2848C>G 2850G>A), GTA71GTG (2853A>G), ACA72TCT (2854A>T 2856A>T), TGG73GTG (2857T>G 2858G>T), GAA74AAT (2860G>A 2862A>T), GAC75AAC (2863G>A), CGC76AAA (2866C>A 2867G>A 2868C>A), GCC78ATC (2872G>A 2873C>T), ATG79ACT (2876T>C 2877G>T), TGT80GTG (2878T>G 2879G>T 2880T>G), TTA81TTG (2883A>G), GTC82ACC (2884G>A 2885T>C), CTG83CTC (2889G>C), AAC84CAA (2890A>C 2892C>A), TTG85TTA (2895G>A), GAG86GAT (2898G>T), GAG87GAT (2901G>T), TAC89TAT (2907C>T), TTA91CTA (2911T>C), CAC92TAT (2914C>T 2916C>T), GAA93TCT (2917G>T 2918A>C 2919A>T), AAG94CCC (2920A>C 2921A>C 2922G>C), CCG95CAA (2924C>A 2925G>A), GTC96GTA (2928C>A), CCT97AAG (2929C>A 2930C>A 2931T>G), TCT99GAT (2935T>G 2936C>A), ATC100CAA (2938A>C 2939T>A 2940C>A), GAC101GAT (2943C>T), GAC101_CCG102insATA (2943_2944insATA), CCG102CAG (2945C>A), TCA103TCC (2949A>C), CTC105TTG (2953C>T 2955C>G), CAA106GAG (2956C>G 2958A>G), CTC107CAG (2960T>A 2961C>G), ATG110CAA (2968A>C 2969T>A 2970G>A), GTT111GCC (2972T>C 2973T>C), GCC113GCA (2979C>A), GAG114GAA (2982G>A), AAG115ACC (2984A>C 2985G>C), GGT117GGG (2991T>G), GGA119GGT (2997A>T), CTG120TTG (2998C>T), GCC121GCA (3003C>A), AAT122AAG (3006T>G), GTC124GTT (3012C>T), CCA125CCC (3015A>C), GTG127CAG (3019G>C 3020T>A), GTA128GTT (3024A>T), GTG129ATT (3025G>A 3027G>T), GAA130CAA (3028G>C), TCA133GCC (3037T>G 3039A>C), GAT134AGT (3040G>A 3041A>G), GCC135GCT (3045C>T), TCA136ACA (3046T>A), GTG138GTA (3054G>A), GCT139TCA (3055G>T 3057T>A), GTT140GTC (3060T>C), CGA141AGA (3061C>A), CCA144CCC (3072A>C), ATG145TTG (3073A>T), AGC146AGT (3078C>T), AAG147AGA (3080A>G 3081G>A), GAA148GAG (3084A>G), GCC149GCT (3087C>T), CGG150CGA (3090G>A), GAG151GAA (3093G>A), GGT152GGA (3096T>A), ATC153ATT (3099C>T), AGG154TGG (3100A>T), CCC155CCG (3105C>G), CAC156CAT (3108C>T), ATC157GTT (3109A>G 3111C>T), TTC160TTA (3120C>A), TTG161ATC (3121T>A 3123G>C), GAT162CAA (3124G>C 3126T>A), TTG163CAG (3127T>C 3128T>A), GGG164GGC (3132G>C), ATT165ATC (3135T>C), CTG166CTA (3138G>A), GTA167GTT (3141A>T), TGC169GTC (3145T>G 3146G>T), CAG170CAA (3150G>A), TCG171TCC (3153G>C), CCC172CCT (3156C>T), AAC174AAT (3162C>T), ACC175ACT (3165C>T), CCT176CCC (3168T>C), TTG177CTG (3169T>C), TTA178CTA (3172T>C), CCT179CCG (3177T>G), GTA180GTT (3180A>T), AAA181AGG (3182A>G 3183A>G), AAA182AAG (3186A>G), GGA184GGG (3192A>G), GAC187GAT (3201C>T), CGG189CGA (3207G>A), GTC191GTA (3213C>A), CAA192CAG (3216A>G), GAT193GAC (3219T>C), AGG195AGA (3225G>A), AAC198AAT (3234C>T), AGA200AGG (3240A>G), GTA201GTG (3243A>G), ATT204ATA (3252T>A), CAT205CAC (3255T>C), CCC206CCA (3258C>A), ACA207ACG (3261A>G), CCC211CCT (3273C>T), CTA214CTC (3282A>C), CTC215TTG (3283C>T 3285C>G), AGT216AGC (3288T>C), TCC217GCC (3289T>G), CCC220CCT (3300C>T), AGC221GAA (3301A>G 3302G>A 3303C>A), CAC222CGG (3305A>G 3306C>G), ACC223AAC (3308C>A), TAT225TAC (3315T>C), TCA226ACA (3316T>A), GTT227GTA (3321T>A), TTA228TTG (3324A>G), CTC230TTA (3328C>T 3330C>A), GCT233GCC (3339T>C), TTT235TTC (3345T>C), CTC237CTG (3351C>G), AAG238AGA (3353A>G 3354G>A), CTA239TTA (3355C>T), AAC242ACT (3365A>C 3366C>T), CAG244CAA (3372G>A), TTG246CTT (3376T>C 3378G>T), TTC247TTT (3381C>T), GCG248GCC (3384G>C), TTT249TTC (3387T>C), GAA255GGT (3404A>G 3405A>T), AAA256ACG (3407A>C 3408A>G), GGC257GGA (3411C>A), AAT258AGA (3413A>G 3414T>A), ACT259ACC (3417T>C), GGC260GGG (3420C>G), CTA262CTC (3426A>C), ACT265ACC (3435T>C), CGG266CGA (3438G>A), CTA267CTG (3441A>G), CCG268CCC (3444G>C), GGA270GGG (3450A>G), TCT274TCC (3462T>C), CCC275CCG (3465C>G), CTC277ATC (3469C>A), TTC278TTT (3474C>T), GAT279GAC (3477T>C), GAG280GAA (3480G>A), CTC282CTA (3486C>A), CGG284AGG (3490C>A), GAT285GAC (3495T>C), GCA287GCC (3501A>C), TCC288AAC (3502T>A 3503C>A), GCT291ATC (3511G>A 3512C>T 3513T>C), CTC292CAA (3515T>A 3516C>A), AAC293CAC (3517A>C), CCC294CCT (3522C>T), GTA296GTG (3528A>G), GTG297ACC (3529G>A 3530T>C 3531G>C), ATG298CTC (3532A>C 3534G>C), CAA300CAG (3540A>G), TAT301TAC (3543T>C), GTT302GTG (3546T>G), CTC305CTG (3555C>G), CTG306CTT (3558G>T), GTA307CTG (3559G>C 3561A>G), GCC309GGA (3566C>G 3567C>A), CCA310GCC (3568C>G 3570A>C), ACG311ACC (3573G>C), TAC312AAA (3574T>A 3576C>A), CGA313CAG (3578G>A 3579A>G), AAA316TTA (3586A>T 3587A>T), GGG318GGT (3594G>T), ACA319ACG (3597A>G), CGA320AAG (3598C>A 3599G>A 3600A>G), AGG321GCA (3601A>G 3602G>C 3603G>A), CTC322CTA (3606C>A), TTA323CTG (3607T>C 3609A>G), CAG324CTG (3611A>T), CTA326TTG (3616C>T 3618A>G), AGT327TCT (3619A>T 3620G>C), AAG328GAC (3622A>G 3624G>C), TTG329CTA (3625T>C 3627G>A), GGA330GGC (3630A>C), CGA332AGA (3634C>A), GTG333GCC (3638T>C 3639G>C), TCG334TCT (3642G>T), GCC335GCT (3645C>T), AAA336AAG (3648A>G), CTT340ATT (3658C>A), CGG342AGG (3664C>A), GAG343AGA (3667G>A 3668A>G 3669G>A), GAA344GAG (3672A>G), GTT345GTA (3675T>A), ACG346ACA (3678G>A), TAT347TAC (3681T>C), CTC348TTG (3682C>T 3684C>G), TAT350TAC (3690T>C), TTG351AGT (3691T>A 3692T>G 3693G>T), CTA352TTG (3694C>T 3696A>G), AAA353CGG (3697A>C 3698A>G 3699A>G), GGG354GGC (3702G>C), AAG356CAG (3706A>C), AGA357CGA (3709A>C), ACC360ACG (3720C>G), CCA361GAG (3721C>G 3722C>A 3723A>G), GCC362GCA (3726C>A), CGA363CGG (3729A>G)
*: Inserts / Deletes / Misaligned / Frameshifts

Analysis details

This analysis was performed with panviral2.43