Version 2.22.2
Genome Detective Platform

NGS Details (SRR3458562_Metagenome_example): Rotavirus A (segment 1)

Assembly

3302 (1 contig(s))
5815.6
171572
11070.59 rpm (after QC)
0
de novo + reference guided assembly
Bcf Tools

Coverage Map

Variant Tables

Assignment

Rotavirus A (Taxonomy ID: 28875)
86.0085
97.2452
1
1

Alignment

segment 1
4756.0 (NT) + 6962.0 (AA) = 11718.0
85.3646
Global, seeded, nucleotide + amino acids (AGA)

Alignment Detailed Statistics

BeginEndCoverageScoreConcordanceMatchesIdentitiesI/D/M/F*Stop Codons
NT13302100%475672.0%3302 (100%)2840 (86.0%)0/0
Mutations:
14G>A 30C>T 52C>T 69T>C 96A>T 102C>T 111C>T 123A>G 147C>T 150G>A 153T>C 159G>A 174G>A 175T>C 180G>A 181T>C 185G>A 189G>A 190T>C 192G>C 206A>G 207T>C 213C>T 219A>G 229T>C 231A>G 232C>T 241C>T 246A>G 249T>C 258C>T 261G>A 279A>G 285G>A 288G>A 291G>A 297G>A 303C>T 306A>G 309A>G 310T>C 312G>A 315G>A 321C>T 324A>G 336A>G 348G>A 351C>T 354T>C 357A>G 369A>G 370T>C 372A>T 375T>C 384G>A 396G>T 399C>T 403C>T 405A>G 429G>A 430C>T 444A>G 453C>T 485T>C 486C>T 498T>C 502G>A 507T>C 519A>G 523C>T 528C>T 531C>T 540C>T 546G>A 547A>G 561C>T 573T>C 576C>T 578C>A 579A>G 582G>A 585C>T 597C>T 600C>A 603A>G 615A>G 618A>G 627A>G 630G>A 658T>C 672C>T 681C>A 684C>T 690G>A 693A>T 696A>G 698A>G 702G>A 703T>C 705A>G 711G>A 712T>C 714A>G 732T>G 744G>A 745T>C 747A>G 765G>A 769T>C 777C>T 780G>A 789T>A 792T>C 807A>G 822A>G 823T>C 825G>A 828A>G 837T>C 861G>T 864T>C 885T>A 888A>G 900T>C 906G>A 915A>G 919G>A 920T>C 953T>C 954T>C 958C>T 960T>C 966C>T 981A>G 990G>A 999A>G 1005G>A 1014T>C 1020T>C 1023A>G 1029A>G 1036C>T 1038A>G 1041T>C 1044T>C 1048C>T 1050G>A 1078A>G 1081G>A 1083G>A 1086C>T 1101G>A 1114T>C 1131A>T 1134T>G 1144G>A 1146A>G 1155T>A 1158A>G 1170C>T 1174C>T 1178G>A 1179A>G 1188G>A 1191A>G 1212G>A 1218A>G 1230G>A 1236G>A 1239G>A 1245G>A 1254G>A 1257A>G 1269A>G 1290C>A 1299T>C 1308C>T 1310A>G 1314A>G 1317C>T 1323T>A 1326T>C 1347T>C 1356A>G 1371A>G 1380T>A 1390A>C 1410T>C 1411C>T 1413G>A 1419C>T 1428C>T 1437G>A 1440C>T 1443T>C 1459T>C 1461G>A 1467C>T 1470A>G 1479G>T 1485A>G 1488C>T 1497T>C 1500T>C 1506A>G 1512C>T 1515A>G 1524A>T 1527C>T 1530C>T 1536A>T 1539G>A 1542T>C 1548G>A 1558A>T 1560A>T 1566C>G 1567T>C 1569G>A 1575G>A 1578T>C 1584T>C 1593T>C 1596G>A 1602G>A 1605T>C 1611A>G 1629A>G 1635A>T 1641A>G 1642C>T 1650A>G 1651T>C 1659C>T 1676A>G 1680T>C 1681C>A 1683T>C 1690T>C 1695T>C 1701C>T 1707A>G 1710A>G 1716C>T 1722C>A 1752C>T 1753A>G 1755C>T 1758C>T 1764G>A 1767A>G 1776C>T 1782A>T 1788A>G 1797G>A 1800A>G 1803A>G 1815A>G 1833G>A 1848G>A 1854G>A 1873C>T 1884A>G 1887A>G 1890A>G 1905T>C 1914T>C 1917C>T 1920T>C 1923G>A 1926G>A 1927C>T 1929A>G 1932A>G 1935T>C 1944G>A 1947G>A 1953G>A 1956G>A 1960A>G 1962C>T 1968C>T 1974G>A 1980T>C 1983A>G 1992T>G 1998A>G 2001C>A 2016T>C 2023C>T 2025G>A 2031C>T 2037A>G 2049T>A 2061C>T 2073A>G 2082T>C 2086C>A 2101C>T 2106T>G 2112T>C 2124G>A 2127G>A 2133G>A 2151A>T 2152A>G 2155T>C 2163A>G 2166T>C 2175A>G 2185A>C 2202T>C 2205G>A 2211T>C 2217A>G 2223G>A 2232G>A 2238G>A 2244C>T 2247A>T 2253T>A 2260T>C 2268A>C 2286A>G 2292T>C 2298T>C 2301A>T 2304A>G 2313A>G 2328T>C 2343C>T 2346A>G 2349G>A 2355T>C 2367T>C 2394A>T 2403A>G 2415C>T 2427G>T 2439A>G 2445A>G 2451C>T 2454C>A 2455A>T 2457G>T 2461C>T 2469A>G 2473T>C 2475A>G 2502C>T 2504G>A 2505A>G 2514T>A 2529G>A 2538T>C 2547T>G 2556G>A 2571T>C 2574A>G 2577G>A 2589A>G 2590T>C 2599T>C 2604G>A 2613C>T 2619C>T 2631A>G 2646C>T 2652C>T 2664A>G 2673T>C 2676A>T 2682T>C 2685T>A 2688A>G 2691C>T 2694A>G 2697T>G 2706C>T 2727G>A 2733T>C 2736C>T 2754A>G 2772T>A 2796G>A 2805C>T 2812A>C 2829T>C 2838T>C 2844A>G 2850T>C 2856A>G 2859G>A 2862T>C 2868G>A 2875T>C 2877G>A 2883A>G 2886C>T 2896T>C 2902C>T 2907T>C 2911T>C 2916A>C 2937C>T 2943T>C 2946T>C 2952A>G 2955G>A 2973G>A 2976T>C 2979A>G 2983C>T 2988A>G 2991A>G 2994C>T 2997G>A 3000C>T 3012C>T 3027C>T 3033A>G 3034T>C 3039T>C 3042T>C 3054G>A 3057C>T 3058T>C 3060G>A 3063G>A 3072A>C 3081A>G 3087G>A 3093A>G 3105T>C 3108A>T 3111C>T 3117A>G 3120C>T 3126T>C 3129A>T 3135A>G 3147C>T 3148T>C 3150C>T 3153T>C 3156A>T 3165T>C 3177C>T 3178C>T 3183T>C 3186C>T 3189T>C 3195T>A 3225G>A 3237C>T 3244T>C 3252G>A 3258C>T 3261T>C 3264C>T 3267G>A 3287A>G
CDS
11089100%696297.7%1089 (100%)1059 (97.2%)0/0/0/01
Protein mutations:
R56K (185G>A) N63S (206A>G 207T>C) V156A (485T>C 486C>T) V162I (502G>A) I177V (547A>G) A187E (578C>A 579A>G) D194E (600C>A) D221E (681C>A) K227R (698A>G) N289K (885T>A) V301T (919G>A 920T>C) V312A (953T>C 954T>C) R314C (958C>T 960T>C) N354D (1078A>G) V355I (1081G>A 1083G>A) E376K (1144G>A 1146A>G) R387Q (1178G>A 1179A>G) E431G (1310A>G) T514S (1558A>T 1560A>T) I544M (1650A>G) K553R (1676A>G) L555I (1681C>A 1683T>C) N579D (1753A>G 1755C>T) H619Y (1873C>T) I648V (1960A>G 1962C>T) I712V (2152A>G) T813S (2455A>T 2457G>T) R829K (2504G>A 2505A>G) D889E (2685T>A) Y1044H (3148T>C 3150C>T)
Codon mutations:
TAC4TAT (30C>T) CTA12TTA (52C>T) AAT17AAC (69T>C) ATA26ATT (96A>T) TAC28TAT (102C>T) AAC31AAT (111C>T) GAA35GAG (123A>G) TCC43TCT (147C>T) AAG44AAA (150G>A) TGT45TGC (153T>C) GAG47GAA (159G>A) GGG52GGA (174G>A) TTA53CTA (175T>C) TCG54TCA (180G>A) TTA55CTA (181T>C) AGA56AAA (185G>A) AAG57AAA (189G>A) TTG58CTC (190T>C 192G>C) AAT63AGC (206A>G 207T>C) GTC65GTT (213C>T) GAA67GAG (219A>G) TTA71CTG (229T>C 231A>G) CTG72TTG (232C>T) CTA75TTA (241C>T) TCA76TCG (246A>G) TAT77TAC (249T>C) GAC80GAT (258C>T) AAG81AAA (261G>A) AGA87AGG (279A>G) TTG89TTA (285G>A) GTG90GTA (288G>A) AAG91AAA (291G>A) GCG93GCA (297G>A) GGC95GGT (303C>T) AAA96AAG (306A>G) CCA97CCG (309A>G) TTG98CTA (310T>C 312G>A) GAG99GAA (315G>A) GAC101GAT (321C>T) TTA102TTG (324A>G) GAA106GAG (336A>G) GAG110GAA (348G>A) AAC111AAT (351C>T) AAT112AAC (354T>C) AAA113AAG (357A>G) GAA117GAG (369A>G) TTA118CTT (370T>C 372A>T) TTT119TTC (375T>C) GCG122GCA (384G>A) ACG126ACT (396G>T) GAC127GAT (399C>T) CTA129TTG (403C>T 405A>G) TCG137TCA (429G>A) CTA138TTA (430C>T) TTA142TTG (444A>G) GTC145GTT (453C>T) GTC156GCT (485T>C 486C>T) CTT160CTC (498T>C) GTT162ATT (502G>A) TAT163TAC (507T>C) TTA167TTG (519A>G) CTA169TTA (523C>T) TTC170TTT (528C>T) ACC171ACT (531C>T) GCC174GCT (540C>T) ACG176ACA (546G>A) ATA177GTA (547A>G) GGC181GGT (561C>T) CAT185CAC (573T>C) AAC186AAT (576C>T) GCA187GAG (578C>A 579A>G) AAG188AAA (582G>A) TAC189TAT (585C>T) TAC193TAT (597C>T) GAC194GAA (600C>A) GTA195GTG (603A>G) AAA199AAG (615A>G) CCA200CCG (618A>G) TTA203TTG (627A>G) GTG204GTA (630G>A) TTA214CTA (658T>C) TTC218TTT (672C>T) GAC221GAA (681C>A) GAC222GAT (684C>T) TTG224TTA (690G>A) ATA225ATT (693A>T) GCA226GCG (696A>G) AAA227AGA (698A>G) GAG228GAA (702G>A) TTA229CTG (703T>C 705A>G) GTG231GTA (711G>A) TTA232CTG (712T>C 714A>G) TCT238TCG (732T>G) AAG242AAA (744G>A) TTA243CTG (745T>C 747A>G) TCG249TCA (765G>A) TTG251CTG (769T>C) GCC253GCT (777C>T) TTG254TTA (780G>A) ATT257ATA (789T>A) AAT258AAC (792T>C) ACA263ACG (807A>G) GAA268GAG (822A>G) TTG269CTA (823T>C 825G>A) GAA270GAG (828A>G) AAT273AAC (837T>C) CCG281CCT (861G>T) GAT282GAC (864T>C) AAT289AAA (885T>A) CAA290CAG (888A>G) AAT294AAC (900T>C) AGG296AGA (906G>A) GGA299GGG (915A>G) GTT301ACT (919G>A 920T>C) GTT312GCC (953T>C 954T>C) CGT314TGC (958C>T 960T>C) ATC316ATT (966C>T) TTA321TTG (981A>G) AAG324AAA (990G>A) TCA327TCG (999A>G) TCG329TCA (1005G>A) GTT332GTC (1014T>C) TTT334TTC (1020T>C) AGA335AGG (1023A>G) CAA337CAG (1029A>G) CTA340TTG (1036C>T 1038A>G) GAT341GAC (1041T>C) GCT342GCC (1044T>C) CTG344TTA (1048C>T 1050G>A) AAT354GAT (1078A>G) GTG355ATA (1081G>A 1083G>A) GAC356GAT (1086C>T) CGG361CGA (1101G>A) TTA366CTA (1114T>C) GTA371GTT (1131A>T) GTT372GTG (1134T>G) GAA376AAG (1144G>A 1146A>G) GTT379GTA (1155T>A) AAA380AAG (1158A>G) CAC384CAT (1170C>T) CTA386TTA (1174C>T) CGA387CAG (1178G>A 1179A>G) GAG390GAA (1188G>A) TTA391TTG (1191A>G) TCG398TCA (1212G>A) GCA400GCG (1218A>G) GAG404GAA (1230G>A) AGG406AGA (1236G>A) CAG407CAA (1239G>A) AAG409AAA (1245G>A) AGG412AGA (1254G>A) AAA413AAG (1257A>G) TCA417TCG (1269A>G) GTC424GTA (1290C>A) GAT427GAC (1299T>C) AAC430AAT (1308C>T) GAA431GGA (1310A>G) AGA432AGG (1314A>G) TAC433TAT (1317C>T) CCT435CCA (1323T>A) GGT436GGC (1326T>C) GTT443GTC (1347T>C) CCA446CCG (1356A>G) AGA451AGG (1371A>G) GTT454GTA (1380T>A) AGG458CGG (1390A>C) ATT464ATC (1410T>C) CTG465TTA (1411C>T 1413G>A) TAC467TAT (1419C>T) TTC470TTT (1428C>T) CAG473CAA (1437G>A) CAC474CAT (1440C>T) GCT475GCC (1443T>C) TTG481CTA (1459T>C 1461G>A) TAC483TAT (1467C>T) GCA484GCG (1470A>G) ACG487ACT (1479G>T) GAA489GAG (1485A>G) TAC490TAT (1488C>T) TTT493TTC (1497T>C) TAT494TAC (1500T>C) CAA496CAG (1506A>G) AAC498AAT (1512C>T) CAA499CAG (1515A>G) TCA502TCT (1524A>T) TAC503TAT (1527C>T) GGC504GGT (1530C>T) GTA506GTT (1536A>T) ACG507ACA (1539G>A) CGT508CGC (1542T>C) TTG510TTA (1548G>A) ACA514TCT (1558A>T 1560A>T) GTC516GTG (1566C>G) TTG517CTA (1567T>C 1569G>A) ACG519ACA (1575G>A) GAT520GAC (1578T>C) TCT522TCC (1584T>C) GAT525GAC (1593T>C) TCG526TCA (1596G>A) CAG528CAA (1602G>A) CAT529CAC (1605T>C) ACA531ACG (1611A>G) GGA537GGG (1629A>G) ATA539ATT (1635A>T) GGA541GGG (1641A>G) CTG542TTG (1642C>T) ATA544ATG (1650A>G) TTA545CTA (1651T>C) AAC547AAT (1659C>T) AAA553AGA (1676A>G) GTT554GTC (1680T>C) CTT555ATC (1681C>A 1683T>C) TTA558CTA (1690T>C) AAT559AAC (1695T>C) TAC561TAT (1701C>T) CAA563CAG (1707A>G) ACA564ACG (1710A>G) ATC566ATT (1716C>T) CTC568CTA (1722C>A) GGC578GGT (1752C>T) AAC579GAT (1753A>G 1755C>T) GTC580GTT (1758C>T) AAG582AAA (1764G>A) AAA583AAG (1767A>G) TAC586TAT (1776C>T) GCA588GCT (1782A>T) GCA590GCG (1788A>G) GAG593GAA (1797G>A) AAA594AAG (1800A>G) CAA595CAG (1803A>G) GCA599GCG (1815A>G) TTG605TTA (1833G>A) ACG610ACA (1848G>A) TTG612TTA (1854G>A) CAT619TAT (1873C>T) GCA622GCG (1884A>G) ACA623ACG (1887A>G) AAA624AAG (1890A>G) GAT629GAC (1905T>C) GAT632GAC (1914T>C) AAC633AAT (1917C>T) TAT634TAC (1920T>C) GCG635GCA (1923G>A) GTG636GTA (1926G>A) CTA637TTG (1927C>T 1929A>G) CAA638CAG (1932A>G) TTT639TTC (1935T>C) GAG642GAA (1944G>A) GTG643GTA (1947G>A) AAG645AAA (1953G>A) CAG646CAA (1956G>A) ATC648GTT (1960A>G 1962C>T) GAC650GAT (1968C>T) TCG652TCA (1974G>A) GAT654GAC (1980T>C) GTA655GTG (1983A>G) ACT658ACG (1992T>G) GCA660GCG (1998A>G) CGC661CGA (2001C>A) GTT666GTC (2016T>C) CTG669TTA (2023C>T 2025G>A) TCC671TCT (2031C>T) GTA673GTG (2037A>G) ATT677ATA (2049T>A) TAC681TAT (2061C>T) GGA685GGG (2073A>G) TTT688TTC (2082T>C) CGA690AGA (2086C>A) CTA695TTA (2101C>T) CTT696CTG (2106T>G) AAT698AAC (2112T>C) GGG702GGA (2124G>A) CAG703CAA (2127G>A) ACG705ACA (2133G>A) GCA711GCT (2151A>T) ATT712GTT (2152A>G) TTA713CTA (2155T>C) TCA715TCG (2163A>G) AAT716AAC (2166T>C) GTA719GTG (2175A>G) AGA723CGA (2185A>C) GAT728GAC (2202T>C) AGG729AGA (2205G>A) TTT731TTC (2211T>C) TTA733TTG (2217A>G) AAG735AAA (2223G>A) CAG738CAA (2232G>A) ACG740ACA (2238G>A) GTC742GTT (2244C>T) GCA743GCT (2247A>T) ACT745ACA (2253T>A) TTA748CTA (2260T>C) CTA750CTC (2268A>C) GTA756GTG (2286A>G) ACT758ACC (2292T>C) AAT760AAC (2298T>C) TCA761TCT (2301A>T) ACA762ACG (2304A>G) GTA765GTG (2313A>G) GAT770GAC (2328T>C) TAC775TAT (2343C>T) GGA776GGG (2346A>G) ACG777ACA (2349G>A) GAT779GAC (2355T>C) TAT783TAC (2367T>C) TCA792TCT (2394A>T) AAA795AAG (2403A>G) GCC799GCT (2415C>T) GCG803GCT (2427G>T) ACA807ACG (2439A>G) AAA809AAG (2445A>G) TAC811TAT (2451C>T) GTC812GTA (2454C>A) ACG813TCT (2455A>T 2457G>T) CTA815TTA (2461C>T) GAA817GAG (2469A>G) TTA819CTG (2473T>C 2475A>G) TCC828TCT (2502C>T) AGA829AAG (2504G>A 2505A>G) GCT832GCA (2514T>A) GCG837GCA (2529G>A) AAT840AAC (2538T>C) GCT843GCG (2547T>G) TCG846TCA (2556G>A) CGT851CGC (2571T>C) GCA852GCG (2574A>G) CAG853CAA (2577G>A) TTA857TTG (2589A>G) TTG858CTG (2590T>C) TTG861CTG (2599T>C) CAG862CAA (2604G>A) GTC865GTT (2613C>T) TTC867TTT (2619C>T) AAA871AAG (2631A>G) GAC876GAT (2646C>T) CTC878CTT (2652C>T) AAA882AAG (2664A>G) TTT885TTC (2673T>C) ACA886ACT (2676A>T) AGT888AGC (2682T>C) GAT889GAA (2685T>A) GCA890GCG (2688A>G) CAC891CAT (2691C>T) TTA892TTG (2694A>G) CCT893CCG (2697T>G) TAC896TAT (2706C>T) TTG903TTA (2727G>A) GAT905GAC (2733T>C) AAC906AAT (2736C>T) CAA912CAG (2754A>G) ACT918ACA (2772T>A) TCG926TCA (2796G>A) GCC929GCT (2805C>T) AGA932CGA (2812A>C) TAT937TAC (2829T>C) TAT940TAC (2838T>C) CCA942CCG (2844A>G) ATT944ATC (2850T>C) GAA946GAG (2856A>G) TTG947TTA (2859G>A) TAT948TAC (2862T>C) GTG950GTA (2868G>A) TTG953CTA (2875T>C 2877G>A) GAA955GAG (2883A>G) AAC956AAT (2886C>T) TTA960CTA (2896T>C) CTG962TTG (2902C>T) ATT963ATC (2907T>C) TTA965CTA (2911T>C) GGA966GGC (2916A>C) GAC973GAT (2937C>T) TAT975TAC (2943T>C) GTT976GTC (2946T>C) TCA978TCG (2952A>G) AAG979AAA (2955G>A) AAG985AAA (2973G>A) TAT986TAC (2976T>C) AGA987AGG (2979A>G) CTA989TTA (2983C>T) GAA990GAG (2988A>G) TCA991TCG (2991A>G) TAC992TAT (2994C>T) GTG993GTA (2997G>A) TAC994TAT (3000C>T) TCC998TCT (3012C>T) TGC1003TGT (3027C>T) CAA1005CAG (3033A>G) TTA1006CTA (3034T>C) TTT1007TTC (3039T>C) GAT1008GAC (3042T>C) CCG1012CCA (3054G>A) GAC1013GAT (3057C>T) TTG1014CTA (3058T>C 3060G>A) GAG1015GAA (3063G>A) ATA1018ATC (3072A>C) CCA1021CCG (3081A>G) AAG1023AAA (3087G>A) AAA1025AAG (3093A>G) GTT1029GTC (3105T>C) ACA1030ACT (3108A>T) TTC1031TTT (3111C>T) TTA1033TTG (3117A>G) CAC1034CAT (3120C>T) TAT1036TAC (3126T>C) GCA1037GCT (3129A>T) CTA1039CTG (3135A>G) AAC1043AAT (3147C>T) TAC1044CAT (3148T>C 3150C>T) GCT1045GCC (3153T>C) ATA1046ATT (3156A>T) GGT1049GGC (3165T>C) AGC1053AGT (3177C>T) CTA1054TTA (3178C>T) TTT1055TTC (3183T>C) TGC1056TGT (3186C>T) AAT1057AAC (3189T>C) CCT1059CCA (3195T>A) AAG1069AAA (3225G>A) ATC1073ATT (3237C>T) TTA1076CTA (3244T>C) TCG1078TCA (3252G>A) TAC1080TAT (3258C>T) ACT1081ACC (3261T>C) AAC1082AAT (3264C>T) GCG1083GCA (3267G>A)
Proteins
11089100%696297.7%1089 (100%)1059 (97.2%)0/0/0/01
Protein mutations:
R56K (185G>A) N63S (206A>G 207T>C) V156A (485T>C 486C>T) V162I (502G>A) I177V (547A>G) A187E (578C>A 579A>G) D194E (600C>A) D221E (681C>A) K227R (698A>G) N289K (885T>A) V301T (919G>A 920T>C) V312A (953T>C 954T>C) R314C (958C>T 960T>C) N354D (1078A>G) V355I (1081G>A 1083G>A) E376K (1144G>A 1146A>G) R387Q (1178G>A 1179A>G) E431G (1310A>G) T514S (1558A>T 1560A>T) I544M (1650A>G) K553R (1676A>G) L555I (1681C>A 1683T>C) N579D (1753A>G 1755C>T) H619Y (1873C>T) I648V (1960A>G 1962C>T) I712V (2152A>G) T813S (2455A>T 2457G>T) R829K (2504G>A 2505A>G) D889E (2685T>A) Y1044H (3148T>C 3150C>T)
Codon mutations:
TAC4TAT (30C>T) CTA12TTA (52C>T) AAT17AAC (69T>C) ATA26ATT (96A>T) TAC28TAT (102C>T) AAC31AAT (111C>T) GAA35GAG (123A>G) TCC43TCT (147C>T) AAG44AAA (150G>A) TGT45TGC (153T>C) GAG47GAA (159G>A) GGG52GGA (174G>A) TTA53CTA (175T>C) TCG54TCA (180G>A) TTA55CTA (181T>C) AGA56AAA (185G>A) AAG57AAA (189G>A) TTG58CTC (190T>C 192G>C) AAT63AGC (206A>G 207T>C) GTC65GTT (213C>T) GAA67GAG (219A>G) TTA71CTG (229T>C 231A>G) CTG72TTG (232C>T) CTA75TTA (241C>T) TCA76TCG (246A>G) TAT77TAC (249T>C) GAC80GAT (258C>T) AAG81AAA (261G>A) AGA87AGG (279A>G) TTG89TTA (285G>A) GTG90GTA (288G>A) AAG91AAA (291G>A) GCG93GCA (297G>A) GGC95GGT (303C>T) AAA96AAG (306A>G) CCA97CCG (309A>G) TTG98CTA (310T>C 312G>A) GAG99GAA (315G>A) GAC101GAT (321C>T) TTA102TTG (324A>G) GAA106GAG (336A>G) GAG110GAA (348G>A) AAC111AAT (351C>T) AAT112AAC (354T>C) AAA113AAG (357A>G) GAA117GAG (369A>G) TTA118CTT (370T>C 372A>T) TTT119TTC (375T>C) GCG122GCA (384G>A) ACG126ACT (396G>T) GAC127GAT (399C>T) CTA129TTG (403C>T 405A>G) TCG137TCA (429G>A) CTA138TTA (430C>T) TTA142TTG (444A>G) GTC145GTT (453C>T) GTC156GCT (485T>C 486C>T) CTT160CTC (498T>C) GTT162ATT (502G>A) TAT163TAC (507T>C) TTA167TTG (519A>G) CTA169TTA (523C>T) TTC170TTT (528C>T) ACC171ACT (531C>T) GCC174GCT (540C>T) ACG176ACA (546G>A) ATA177GTA (547A>G) GGC181GGT (561C>T) CAT185CAC (573T>C) AAC186AAT (576C>T) GCA187GAG (578C>A 579A>G) AAG188AAA (582G>A) TAC189TAT (585C>T) TAC193TAT (597C>T) GAC194GAA (600C>A) GTA195GTG (603A>G) AAA199AAG (615A>G) CCA200CCG (618A>G) TTA203TTG (627A>G) GTG204GTA (630G>A) TTA214CTA (658T>C) TTC218TTT (672C>T) GAC221GAA (681C>A) GAC222GAT (684C>T) TTG224TTA (690G>A) ATA225ATT (693A>T) GCA226GCG (696A>G) AAA227AGA (698A>G) GAG228GAA (702G>A) TTA229CTG (703T>C 705A>G) GTG231GTA (711G>A) TTA232CTG (712T>C 714A>G) TCT238TCG (732T>G) AAG242AAA (744G>A) TTA243CTG (745T>C 747A>G) TCG249TCA (765G>A) TTG251CTG (769T>C) GCC253GCT (777C>T) TTG254TTA (780G>A) ATT257ATA (789T>A) AAT258AAC (792T>C) ACA263ACG (807A>G) GAA268GAG (822A>G) TTG269CTA (823T>C 825G>A) GAA270GAG (828A>G) AAT273AAC (837T>C) CCG281CCT (861G>T) GAT282GAC (864T>C) AAT289AAA (885T>A) CAA290CAG (888A>G) AAT294AAC (900T>C) AGG296AGA (906G>A) GGA299GGG (915A>G) GTT301ACT (919G>A 920T>C) GTT312GCC (953T>C 954T>C) CGT314TGC (958C>T 960T>C) ATC316ATT (966C>T) TTA321TTG (981A>G) AAG324AAA (990G>A) TCA327TCG (999A>G) TCG329TCA (1005G>A) GTT332GTC (1014T>C) TTT334TTC (1020T>C) AGA335AGG (1023A>G) CAA337CAG (1029A>G) CTA340TTG (1036C>T 1038A>G) GAT341GAC (1041T>C) GCT342GCC (1044T>C) CTG344TTA (1048C>T 1050G>A) AAT354GAT (1078A>G) GTG355ATA (1081G>A 1083G>A) GAC356GAT (1086C>T) CGG361CGA (1101G>A) TTA366CTA (1114T>C) GTA371GTT (1131A>T) GTT372GTG (1134T>G) GAA376AAG (1144G>A 1146A>G) GTT379GTA (1155T>A) AAA380AAG (1158A>G) CAC384CAT (1170C>T) CTA386TTA (1174C>T) CGA387CAG (1178G>A 1179A>G) GAG390GAA (1188G>A) TTA391TTG (1191A>G) TCG398TCA (1212G>A) GCA400GCG (1218A>G) GAG404GAA (1230G>A) AGG406AGA (1236G>A) CAG407CAA (1239G>A) AAG409AAA (1245G>A) AGG412AGA (1254G>A) AAA413AAG (1257A>G) TCA417TCG (1269A>G) GTC424GTA (1290C>A) GAT427GAC (1299T>C) AAC430AAT (1308C>T) GAA431GGA (1310A>G) AGA432AGG (1314A>G) TAC433TAT (1317C>T) CCT435CCA (1323T>A) GGT436GGC (1326T>C) GTT443GTC (1347T>C) CCA446CCG (1356A>G) AGA451AGG (1371A>G) GTT454GTA (1380T>A) AGG458CGG (1390A>C) ATT464ATC (1410T>C) CTG465TTA (1411C>T 1413G>A) TAC467TAT (1419C>T) TTC470TTT (1428C>T) CAG473CAA (1437G>A) CAC474CAT (1440C>T) GCT475GCC (1443T>C) TTG481CTA (1459T>C 1461G>A) TAC483TAT (1467C>T) GCA484GCG (1470A>G) ACG487ACT (1479G>T) GAA489GAG (1485A>G) TAC490TAT (1488C>T) TTT493TTC (1497T>C) TAT494TAC (1500T>C) CAA496CAG (1506A>G) AAC498AAT (1512C>T) CAA499CAG (1515A>G) TCA502TCT (1524A>T) TAC503TAT (1527C>T) GGC504GGT (1530C>T) GTA506GTT (1536A>T) ACG507ACA (1539G>A) CGT508CGC (1542T>C) TTG510TTA (1548G>A) ACA514TCT (1558A>T 1560A>T) GTC516GTG (1566C>G) TTG517CTA (1567T>C 1569G>A) ACG519ACA (1575G>A) GAT520GAC (1578T>C) TCT522TCC (1584T>C) GAT525GAC (1593T>C) TCG526TCA (1596G>A) CAG528CAA (1602G>A) CAT529CAC (1605T>C) ACA531ACG (1611A>G) GGA537GGG (1629A>G) ATA539ATT (1635A>T) GGA541GGG (1641A>G) CTG542TTG (1642C>T) ATA544ATG (1650A>G) TTA545CTA (1651T>C) AAC547AAT (1659C>T) AAA553AGA (1676A>G) GTT554GTC (1680T>C) CTT555ATC (1681C>A 1683T>C) TTA558CTA (1690T>C) AAT559AAC (1695T>C) TAC561TAT (1701C>T) CAA563CAG (1707A>G) ACA564ACG (1710A>G) ATC566ATT (1716C>T) CTC568CTA (1722C>A) GGC578GGT (1752C>T) AAC579GAT (1753A>G 1755C>T) GTC580GTT (1758C>T) AAG582AAA (1764G>A) AAA583AAG (1767A>G) TAC586TAT (1776C>T) GCA588GCT (1782A>T) GCA590GCG (1788A>G) GAG593GAA (1797G>A) AAA594AAG (1800A>G) CAA595CAG (1803A>G) GCA599GCG (1815A>G) TTG605TTA (1833G>A) ACG610ACA (1848G>A) TTG612TTA (1854G>A) CAT619TAT (1873C>T) GCA622GCG (1884A>G) ACA623ACG (1887A>G) AAA624AAG (1890A>G) GAT629GAC (1905T>C) GAT632GAC (1914T>C) AAC633AAT (1917C>T) TAT634TAC (1920T>C) GCG635GCA (1923G>A) GTG636GTA (1926G>A) CTA637TTG (1927C>T 1929A>G) CAA638CAG (1932A>G) TTT639TTC (1935T>C) GAG642GAA (1944G>A) GTG643GTA (1947G>A) AAG645AAA (1953G>A) CAG646CAA (1956G>A) ATC648GTT (1960A>G 1962C>T) GAC650GAT (1968C>T) TCG652TCA (1974G>A) GAT654GAC (1980T>C) GTA655GTG (1983A>G) ACT658ACG (1992T>G) GCA660GCG (1998A>G) CGC661CGA (2001C>A) GTT666GTC (2016T>C) CTG669TTA (2023C>T 2025G>A) TCC671TCT (2031C>T) GTA673GTG (2037A>G) ATT677ATA (2049T>A) TAC681TAT (2061C>T) GGA685GGG (2073A>G) TTT688TTC (2082T>C) CGA690AGA (2086C>A) CTA695TTA (2101C>T) CTT696CTG (2106T>G) AAT698AAC (2112T>C) GGG702GGA (2124G>A) CAG703CAA (2127G>A) ACG705ACA (2133G>A) GCA711GCT (2151A>T) ATT712GTT (2152A>G) TTA713CTA (2155T>C) TCA715TCG (2163A>G) AAT716AAC (2166T>C) GTA719GTG (2175A>G) AGA723CGA (2185A>C) GAT728GAC (2202T>C) AGG729AGA (2205G>A) TTT731TTC (2211T>C) TTA733TTG (2217A>G) AAG735AAA (2223G>A) CAG738CAA (2232G>A) ACG740ACA (2238G>A) GTC742GTT (2244C>T) GCA743GCT (2247A>T) ACT745ACA (2253T>A) TTA748CTA (2260T>C) CTA750CTC (2268A>C) GTA756GTG (2286A>G) ACT758ACC (2292T>C) AAT760AAC (2298T>C) TCA761TCT (2301A>T) ACA762ACG (2304A>G) GTA765GTG (2313A>G) GAT770GAC (2328T>C) TAC775TAT (2343C>T) GGA776GGG (2346A>G) ACG777ACA (2349G>A) GAT779GAC (2355T>C) TAT783TAC (2367T>C) TCA792TCT (2394A>T) AAA795AAG (2403A>G) GCC799GCT (2415C>T) GCG803GCT (2427G>T) ACA807ACG (2439A>G) AAA809AAG (2445A>G) TAC811TAT (2451C>T) GTC812GTA (2454C>A) ACG813TCT (2455A>T 2457G>T) CTA815TTA (2461C>T) GAA817GAG (2469A>G) TTA819CTG (2473T>C 2475A>G) TCC828TCT (2502C>T) AGA829AAG (2504G>A 2505A>G) GCT832GCA (2514T>A) GCG837GCA (2529G>A) AAT840AAC (2538T>C) GCT843GCG (2547T>G) TCG846TCA (2556G>A) CGT851CGC (2571T>C) GCA852GCG (2574A>G) CAG853CAA (2577G>A) TTA857TTG (2589A>G) TTG858CTG (2590T>C) TTG861CTG (2599T>C) CAG862CAA (2604G>A) GTC865GTT (2613C>T) TTC867TTT (2619C>T) AAA871AAG (2631A>G) GAC876GAT (2646C>T) CTC878CTT (2652C>T) AAA882AAG (2664A>G) TTT885TTC (2673T>C) ACA886ACT (2676A>T) AGT888AGC (2682T>C) GAT889GAA (2685T>A) GCA890GCG (2688A>G) CAC891CAT (2691C>T) TTA892TTG (2694A>G) CCT893CCG (2697T>G) TAC896TAT (2706C>T) TTG903TTA (2727G>A) GAT905GAC (2733T>C) AAC906AAT (2736C>T) CAA912CAG (2754A>G) ACT918ACA (2772T>A) TCG926TCA (2796G>A) GCC929GCT (2805C>T) AGA932CGA (2812A>C) TAT937TAC (2829T>C) TAT940TAC (2838T>C) CCA942CCG (2844A>G) ATT944ATC (2850T>C) GAA946GAG (2856A>G) TTG947TTA (2859G>A) TAT948TAC (2862T>C) GTG950GTA (2868G>A) TTG953CTA (2875T>C 2877G>A) GAA955GAG (2883A>G) AAC956AAT (2886C>T) TTA960CTA (2896T>C) CTG962TTG (2902C>T) ATT963ATC (2907T>C) TTA965CTA (2911T>C) GGA966GGC (2916A>C) GAC973GAT (2937C>T) TAT975TAC (2943T>C) GTT976GTC (2946T>C) TCA978TCG (2952A>G) AAG979AAA (2955G>A) AAG985AAA (2973G>A) TAT986TAC (2976T>C) AGA987AGG (2979A>G) CTA989TTA (2983C>T) GAA990GAG (2988A>G) TCA991TCG (2991A>G) TAC992TAT (2994C>T) GTG993GTA (2997G>A) TAC994TAT (3000C>T) TCC998TCT (3012C>T) TGC1003TGT (3027C>T) CAA1005CAG (3033A>G) TTA1006CTA (3034T>C) TTT1007TTC (3039T>C) GAT1008GAC (3042T>C) CCG1012CCA (3054G>A) GAC1013GAT (3057C>T) TTG1014CTA (3058T>C 3060G>A) GAG1015GAA (3063G>A) ATA1018ATC (3072A>C) CCA1021CCG (3081A>G) AAG1023AAA (3087G>A) AAA1025AAG (3093A>G) GTT1029GTC (3105T>C) ACA1030ACT (3108A>T) TTC1031TTT (3111C>T) TTA1033TTG (3117A>G) CAC1034CAT (3120C>T) TAT1036TAC (3126T>C) GCA1037GCT (3129A>T) CTA1039CTG (3135A>G) AAC1043AAT (3147C>T) TAC1044CAT (3148T>C 3150C>T) GCT1045GCC (3153T>C) ATA1046ATT (3156A>T) GGT1049GGC (3165T>C) AGC1053AGT (3177C>T) CTA1054TTA (3178C>T) TTT1055TTC (3183T>C) TGC1056TGT (3186C>T) AAT1057AAC (3189T>C) CCT1059CCA (3195T>A) AAG1069AAA (3225G>A) ATC1073ATT (3237C>T) TTA1076CTA (3244T>C) TCG1078TCA (3252G>A) TAC1080TAT (3258C>T) ACT1081ACC (3261T>C) AAC1082AAT (3264C>T) GCG1083GCA (3267G>A)
*: Inserts / Deletes / Misaligned / Frameshifts

Analysis details

This analysis was performed with panviral2.43