Genome Detective

NGS Details (SRR3458562_Metagenome_example): Rotavirus A (segment 4)

Assembly

Coverage Length

2360 (1 contig(s))

Depth Of Coverage

22188.7

Number Of Reads

478129

Reads Per Million

30851.01 rpm (after QC)

Ambiguities

Assembly Method

de novo + reference guided assembly

Consensus Caller

Bcf Tools

Coverage Map

Map

Variant Tables

Consensus Variants

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Minority Variants

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SNP Variants Table

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Annotated Variants Table

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Assignment

Type

Rotavirus A (Taxonomy ID: 28875)

Reference Genome

NC_011510.2

NT Identity (%)

70.339

AA Identity (%)

74.5174

Number Of Stop Codons

Number Of CDS

Alignment

Segment

segment 4

Alignment Score

1920.0 (NT) + 4105.0 (AA) = 6025.0

Concordance (%)

60.6015

Alignment Method

Global, seeded, nucleotide + amino acids (AGA)

NT Alignment

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Region Bam File

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CDS Alignment

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Consensus Sequence

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Consensus Contigs

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Genome Region

Sequence starts at position 2 and ends at position 2361 relative to NC_011510.2 reference sequence.

NC_011510.2

SRR3458562_Metagenome_example-NC_011510.2-89-0

NC_011510.2

SRR3458562_Metagenome_example-NC_011510.2-89-0

GGCTATAAAATGGCTTCGCTCATTTATAGACAATTGCTCACGAATTCTTATACAGTAGATTTATCCGATGAGATACAAGAGATTGGATCAACTAAATCACAAAATGTCACAATTAATCCTGGACCATTTGCGCAAACAGGTTATGCTCCAGTTAACTGGGGACCTGGAGAAATTAATGATTCTACGACAGTTGAACCATTGCTGGATGGGCCTTATCAACCAACGACATTCAATCCACCAGTCGATTATTGGATGTTACTGGCTCCAACGACACCTGGCGTAATTGTTGAAGGTACAAATAATACAGATAGATGGTTAGCCACAATTTTAATCGAGCCAAATGTTCAGTCTGAAAATAGAACTTACACTATATTTGGTATTCAAGAACAATTAACGGTATCCAATACTTCACAAGACCAGTGGAAATTTATTGATGTCGTAAAAACAACTGCAAATGGAAGTATAGGACAATATGGACCATTACTATCCAGTCCGAAATTATATGCAGTTATGAAGCATAATGAAAAATTATATACATATGAAGGACAGACACCTAACGCTAGGACAGCACATTATTCAACAACGAATTATGATTCTGTTAATATGACTGCTTTTTGTGACTTTTATATAATTCCTAGATCTGAAGAGTCTAAATGTACGGAATACATTAATAATGGATTACCACCAATACAAAATACTAGAAATGTTGTACCATTATCGTTGACTGCTAGAGATGTAATACACTATAGAGCTCAAGCTAATGAAGATATTGTGATATCCAAGACATCATTGTGGAAAGAAATGCAATATAATAGAGATATAACTATTAGATTTAAATTTGCAAATACAATTATAAAATCAGGAGGGCTGGGATATAAGTGGTCAGAAATATCATTTAAGCCAGCGAATTATCAATACACATATACTCGTGATGGTGAAGAAGTTACCGCACATACTACTTGTTCAGTGAATGGCGTTAATGACTTCAGTTTTAATGGAG

GATATTTACCAACTGATTTTGTTGTATCTAAATTTGAAGTAATTAAAGAGAATTCATACGTCTATATCGATTACTGGGATGATTCACAAGCATTTCGTAACGTGGTGTATGTCCGATCGTTAGCAGCAAACTTGAATTCAGTTATGTGTACTGGAGGCAGCTATAATTTTAGTCTACCAGTTGGACAATGGCCTGTTTTAACTGGGGGAGCAGTTTCTTTACATTCAGCTGGTGTAACACTATCTACTCAATTTACAGATTTCGTATCATTAAATTCATTAAGATTTAGATTTAGACTAGCTGTCGAAGAACCACACTTTAAACTGACTAGAACTAGATTAGATAGATTGTATGGTCTGCCTGCTGCAGATCCAAATAATGGTAAAGAATATTATGAAATTGCTGGACGATTTTCACTTATATCATTAGTGCCATCAAATGATGACTATCAGACTCCTATAGCAAACTCAGTTACTGTACGACAAGATTTAGAAAGGCAGTTAGGAGAACTAAGAGAAGAGTTTAACGCTTTGTCTCAAGAAATTGCAATGTCGCAGTTAATCGATTTAGCGCTTCTACCATTAGATATGTTCTCAATGTTTTCTGGCATTAAAAGTACTATTGATGCTGCAAAATCAATGGCTACTAATGTTATGAAAAAATTCAAAAAGTCAGGATTAGCGAATTCAGTTTCAACACTGACAGATTCTTTATCAGACGCAGCATCATCAATATCAAGAGGTTCATCTATACGTTCGATTGGATCTTCAGCATCAGCATGGACGGATGTATCAACACAAATAACTGATATATCGTCATCAGTAAGTTCAGTTTCGACACAAACGTCAACTATCAGTAGAAGATTGAGACTAAAGGAAATGGCAACACAAACTGAGGGTATGAATTTTGATGATATATCAGCGGCTGTTTTGAAGACTAAGATAGATAAATCGACTCAAATATCACCAAACACAATACCTGACATTGTTACTGAAGCATC

GGAAAAATTCATACCAAATAGGGCTTACCGTGTTATAAACAACGATGATGTGTTTGAAGCTGGAATTGATGGAAAATTTTTTGCTTATAAAGTGGATACATTTGAGGAAATACCATTTGATGTACAAAAATTCGCTGACTTAGTTACAGATTCTCCAGTAATATCCGCTATAATTGATTTTAAAACACTTAAAAATTTGAACGATAATTACGGCATTACTAAGCAACAAGCATTTAATCTTTTAAGATCTGACCCAAGAGTTTTACGTGAATTCATTAATCAGGACAATCCTATAATTAGAAATAGAATTGAACAACTGATTATGCAATGCAGGTTGTGAGTAATTTCTAGAGGATGTGACC

.GCTATAAAATGGCTTCGCTCATATACAGACAGCTGCTCGCTAATTCTTACGCAGTGGATTTGTCTGATGAGATACAGTCAGTTGGATCAGAGAAGAACCAGCGCGTTACAGTGAATCCAGGACCATTTGCGCAGACAGTATATGCGCCAGTGAACTGGGGACCCGGTGAAGTGAATGACTCGACTGTAGTACAACCTGTGTTGGACGGACCGTATCAGCCAGCGTCGTTCGATCTACCAGTAGGAAATTGGATGTTGTTAGCGCCAACAGGACCAGGTGTGGTAGTGGAAGGGACGGACAATTCTGGCAGATGGTTATCTGTAATTCTGATTGAACCAGGTGTCACATCAGAAACTAGGACGTATACGATGTTTGGATCAAGTAAACAGGTGTTAGTGTCGAACGCGTCTGATACGAAATGGAAATTTGTTGAAATGATGAAGACGGCGATTGATGGTGACTATGCGGAATGGGGAACATTACTATCAGACACCAAACTCTATGGGATGATGAAATATGGAAAGAGACTATTCATATACGAAGGAGAAACCCCAAATGCCACGACCAAAAGATACATTGTGACGAATTATGCATCAGTTGAGGTAAGGCCATATAGTGACTTTTATATAATTTCAAGATCACAGGAATCAGCATGCACTGAGTATATAAACAACGGACTGCCACCCATCCAAAATACCAGGAATGTAGTGCCTGTGGCAATATCGTCAAGATCAATTGAACCAAGAAAAGTGCAGGCTAATGAAGATATTGTAGTTTCTAAGACGTCACTATGGAAAGAAATGCAATATAATAGAGATATCATAATTAGATTTAGGTTTGATAACTCAATAATAAAATCTGGAGGTTTGGGCTATAAGTGGGCTGAAATCTCATTTAAAGCTGCAAATTATCAATACAATTACATGAGAGACGGAGAAGAAGTTACAGCGCATACGACGTGCTCAGTTAATGGTGTTAATGATTTTAGCTTTAACGGAG

GCTCATTACCAACAGATTTCGCAATATCGAGATATGAAGTAATTAAAGAAAATTCGTATGTATACGTTGATTACTGGGACGATTCACAGGCATTCAGAAATATGGTCTATGTGCGATCATTGGCAGCGAATTTGAATGACGTAATGTGTTCTGGCGGAGATTACAGCTTCGCGCTACCTGCCGGACAATGGCCAGTGATGAAAGGGGGAGCGGTGACGTTGCACACAGCAGGAGTAACATTATCTACACAATTCACTGACTACGTATCACTGAACTCACTAAGGTTTAGATTTAGACTGGCAGTCGAAGAACCATCATTCACGATAACTAGAACACGTGTATCAAAACTGTATGGTTTACCAGCGGCGAACCCAAACGGCGGAAGGGAATATTATGAAGTGGCAGGAAGGTTTTCGCTGATATCATTGGTGCCATCAAATGATGACTACCAAACGCCAATTATGAACTCAGTAACAGTAAGACAAGACTTGGAAAGGCGTTTAAATGAGTTGAGAGAAGAGTTCAATAACTTATCACAAGAGATAGCTGTGTCACAGTTAATTGACTTAGCTATGCTGCCACTAGACATGTTTTCGATGTTCTCGGGAATTGAGGGTACTGTGAACGCAGCAAAATCGATGGCTACCAACGTGATGAGGAAATTCAAAAGTTCAAAACTCGCATCATCAGTGTCAATGTTGACGGACTCTTTGTCCGATGCGGCCTCATCTATCGCAAGGAGCACATCAATACGATCAATAGGATCGACGGCATCAGCTTGGGCTAATATTTCAGAACAAACGCAAGACGCCGTTAATGAAGTTGCGACGATATCATCACAAGTGTCACAAATAAGTGGGAAATTAAGATTAAAAGAAATTACGACTCAAACAGAAGGAATGAATTTCGATGACATATCAGCGGCGGTGCTAAAAGCCAAGATAGATAGATCAATACAGGTCGACCAAAACGCATTACCAGACGTCATCACAGAAGCGTC

AGAGAAATTCATACGTAATAGGGCGTATAGAGTAATAGACGGAGATGAAGCATTTGAGGCGGGCACTGACGGAAGATTTTTCGCGTACAAGGTGGAAACGCTTGAGGAAATGCCATTCAATATAGAAAAATTCGCAGATTTAGTTACCAACTCACCAGTGATATCGGCAATAATAGACTTTAAGACATTAAAAAACCTGAATGACAATTATGGGATAACTAGAGAGCAAGCATTTAATCTGTTACGGTCAAACCCCAAAGTTTTGCGTGGATTTATTGACCAAAACAATCCAATTATAAAAAACAGAATAGAACAATTAATCATGCAATGTAGATTGTGAGCAGCTTCTGGAGGATGTGAC.

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RVA_s4_g_p1

MASLIYRQLLTNSYTVDLSDEIQEIGSTKSQNVTINPGPFAQTGYAPVNWGPGEINDSTTVEPLLDGPYQPTTFNPPVDYWMLLAPTTPGVIVEGTNNTDRWLATILIEPNVQSENRTYTIFGIQEQLTVSNTSQDQWKFIDVVKTTANGSIGQYGPLLSSPKLYAVMKHNEKLYTYEGQTPNARTAHYSTTNYDSVNMTAFCDFYIIPRSEESKCTEYINNGLPPIQNTRNVVPLSLTARDVIHYRAQANEDIVISKTSLWKEMQYNRDITIRFKFANTIIKSGGLGYKWSEISFKPANYQYTYTRDGEEVTAHTTCSVNGVNDFSFNGGYLPTDFVVSKFEVIKENSYVYIDYWDDSQAFRNVVYVRSLAANLNSVMCTGGSYNFSLPVGQWPVLTGGAVSLHSAGVTLSTQFTDFVSLNSLRFRFRLAVEEPHFKLTRTRLDRLYGLPAADPNNGKEYYEIAGRFSLISLVPSNDDYQTPIANSVTVRQDLERQLGELREEFNALSQEIAMSQLIDLALLPLDMFSMFSGIKSTIDAAKSMATNVMKKFKKSGLANSVSTLTDSLSDAASSISRGSSIRSIGSSASAWTDVSTQITDISSSVSSVSTQTSTISRRLRLKEMATQTEGMNFDDISAAVLKTKIDKSTQISPNTIPDIVTEASEKFIPNRAYRVINNDDVFEAGIDGKFFAYKVDTFEEIPFDVQKFADLVTDSPVISAIIDFKTLKNLNDNYGITKQQAFNLLRSDPRVLREFINQDNPIIRNRIEQLIMQCRL*

MASLIYRQLLANSYAVDLSDEIQSVGSEKNQRVTVNPGPFAQTVYAPVNWGPGEVNDSTVVQPVLDGPYQPASFDLPVGNWMLLAPTGPGVVVEGTDNSGRWLSVILIEPGVTSETRTYTMFGSSKQVLVSNASDTKWKFVEMMKTAIDGDYAEWGTLLSDTKLYGMMKYGKRLFIYEGETPNATTKRYIVTNYASVEVRPYSDFYIISRSQESACTEYINNGLPPIQNTRNVVPVAISSRSIEPRKVQANEDIVVSKTSLWKEMQYNRDIIIRFRFDNSIIKSGGLGYKWAEISFKAANYQYNYMRDGEEVTAHTTCSVNGVNDFSFNGGSLPTDFAISRYEVIKENSYVYVDYWDDSQAFRNMVYVRSLAANLNDVMCSGGDYSFALPAGQWPVMKGGAVTLHTAGVTLSTQFTDYVSLNSLRFRFRLAVEEPSFTITRTRVSKLYGLPAANPNGGREYYEVAGRFSLISLVPSNDDYQTPIMNSVTVRQDLERRLNELREEFNNLSQEIAVSQLIDLAMLPLDMFSMFSGIEGTVNAAKSMATNVMRKFKSSKLASSVSMLTDSLSDAASSIARSTSIRSIGSTASAWANISEQTQDAVNEVATISSQVSQISGKLRLKEITTQTEGMNFDDISAAVLKAKIDRSIQVDQNALPDVITEASEKFIRNRAYRVIDGDEAFEAGTDGRFFAYKVETLEEMPFNIEKFADLVTNSPVISAIIDFKTLKNLNDNYGITREQAFNLLRSNPKVLRGFIDQNNPIIKNRIEQLIMQCRL*

Alignment Detailed Statistics


	Begin	End	Coverage	Score	Concordance	Matches	Identities	I/D/M/F^*	Stop Codons
NT	2	2361	99.9%	1920	40.7%	2360 (100%)	1660 (70.3%)	0/0
Mutations:	24T>A, 27T>C, 33A>G, 34T>C, 40A>G, 42G>T, 51T>C, 52A>G, 57A>G, 63A>G, 66C>T, 78A>G, 79G>T, 80A>C, 81G>A, 82A>G, 91A>G, 92C>A, 93T>G, 96A>G, 97T>A, 98C>A, 99A>C, 102A>G, 103A>C, 104A>G, 105T>C, 108C>T, 112A>G, 114T>G, 120T>A, 135A>G, 140G>T, 141T>A, 147T>G, 153T>G, 165T>C, 168A>T, 172A>G, 174T>G, 180T>C, 183T>G, 186G>T, 187A>G, 188C>T, 192T>A, 193G>C, 198A>T, 199T>G, 202C>T, 207T>C, 210G>A, 213T>G, 219A>G, 223A>G, 226A>T, 228A>G, 232A>G, 236C>T, 243C>A, 245A>G, 246T>A, 247T>A, 258A>G, 259C>T, 261G>A, 264T>G, 270G>A, 271A>G, 272C>G, 276T>A, 279C>T, 282A>G, 283A>G, 285T>A, 288T>G, 294T>G, 297A>G, 298A>G, 300T>C, 304A>T, 306A>T, 308A>G, 309T>C, 319G>T, 321C>T, 322A>G, 323C>T, 328T>C, 330A>G, 333C>T, 336G>A, 340A>G, 341A>G, 345T>C, 346C>A, 347A>C, 348G>A, 351T>A, 356A>C, 360A>G, 363T>G, 366C>T, 369T>G, 372A>G, 378T>A, 379A>T, 380T>C, 381T>A, 382C>A, 383A>G, 384A>T, 385G>A, 390A>G, 391T>G, 393A>G, 394A>T, 395C>T, 396G>A, 399A>G, 402C>G, 405T>C, 406A>G, 408T>G, 411A>T, 412C>G, 414A>T, 415G>A, 416A>C, 417C>G, 418C>A, 420G>A, 430A>G, 435T>A, 436G>A, 438C>G, 439G>A, 441A>G, 444A>G, 447A>G, 448A>G, 450T>G, 451G>A, 452C>T, 453A>T, 454A>G, 459A>T, 460A>G, 461G>A, 462T>C, 463A>T, 464T>A, 465A>T, 467G>C, 468A>G, 469C>G, 473A>G, 474T>G, 478C>A, 489C>A, 490A>G, 491G>A, 492T>C, 493C>A, 495G>C, 499T>C, 501A>C, 506C>G, 507A>G, 508G>A, 510T>G, 516G>A, 517C>T, 520A>G, 521A>G, 522T>A, 523G>A, 525A>G, 527A>G, 529T>C, 533A>T, 534T>C, 536C>T, 540T>C, 547C>G, 549G>A, 552A>C, 555T>A, 558C>T, 561T>C, 563G>C, 567A>C, 568G>A, 569C>A, 571C>A, 572A>G, 573T>A, 576T>C, 577T>A, 578C>T, 579A>T, 580A>G, 581C>T, 582A>G, 593A>C, 594T>A, 597T>A, 601A>G, 603T>G, 604A>G, 606G>A, 608C>G, 609T>G, 610G>C, 612T>A, 614T>A, 616T>A, 634C>T, 636T>A, 642T>A, 643G>C, 645A>G, 648G>A, 651T>A, 652A>G, 653A>C, 657T>C, 660G>T, 663A>G, 666C>T, 669T>A, 672T>C, 675T>C, 679T>C, 681A>G, 687A>C, 690A>C, 699T>C, 702A>G, 708T>A, 711A>G, 714A>T, 715T>G, 717A>G, 718T>G, 720G>A, 721T>A, 723G>A, 724A>T, 726T>G, 727G>T, 729T>A, 733G>T, 734A>C, 735T>A, 736G>A, 738A>T, 739A>G, 740T>A, 743A>C, 744C>A, 745T>A, 746A>G, 747T>A, 749G>A, 752C>T, 753T>G, 756A>G, 774G>A, 775A>G, 777A>T, 780C>T, 786A>G, 790T>C, 792G>A, 822A>C, 824C>T, 825T>A, 836A>G, 837A>G, 842C>A, 843A>T, 846T>C, 847A>T, 852T>A, 861A>T, 867G>T, 868C>T, 873A>C, 883T>G, 885A>T, 891A>C, 900G>A, 901C>G, 903A>T, 906G>A, 920C>A, 921A>T, 924T>C, 926C>T, 927T>G, 928C>A, 930T>A, 933T>C, 936T>A, 948C>A, 951A>G, 957T>G, 960T>G, 963T>C, 969G>T, 975C>T, 984C>T, 987C>T, 990T>C, 996T>C, 1002A>C, 1004A>C, 1005T>A, 1014T>A, 1020T>C, 1022T>C, 1023T>A, 1024G>A, 1029T>G, 1031A>G, 1034T>A, 1050G>A, 1056A>G, 1059C>T, 1062C>A, 1065T>C, 1066A>G, 1068C>T, 1080T>C, 1089A>G, 1095T>C, 1096C>A, 1098T>A, 1101C>T, 1102G>A, 1107G>C, 1113C>G, 1119G>A, 1122A>G, 1128A>G, 1131C>T, 1138T>G, 1139C>A, 1140A>C, 1143T>A, 1150A>T, 1155A>C, 1158C>A, 1159A>G, 1160G>A, 1161C>T, 1164T>C, 1166A>G, 1167T>C, 1170T>C, 1171A>G, 1172G>C, 1173T>G, 1179A>T, 1181T>C, 1182T>C, 1194T>A, 1197T>G, 1198T>A, 1200A>G, 1202C>A, 1203T>A, 1212A>G, 1215T>G, 1216T>A, 1218T>G, 1221A>G, 1224T>C, 1225T>A, 1230T>A, 1233T>A, 1240C>T, 1248T>A, 1254T>C, 1257A>T, 1260T>C, 1262T>A, 1270T>C, 1272A>G, 1275T>C, 1279T>C, 1284A>G, 1299A>G, 1302T>A, 1315C>T, 1316A>C, 1317C>A, 1320T>C, 1322A>C, 1323A>G, 1324C>A, 1326G>A, 1335T>A, 1336A>C, 1338A>T, 1339T>G, 1342G>T, 1343A>C, 1344T>A, 1346G>A, 1348T>C, 1357C>T, 1359G>A, 1362T>A, 1365T>G, 1368A>G, 1369G>A, 1371T>C, 1377T>C, 1378A>G, 1379A>G, 1380T>C, 1383T>A, 1385A>G, 1386A>G, 1399A>G, 1401T>G, 1404T>A, 1408C>A, 1410A>G, 1416A>G, 1419T>G, 1428A>G, 1449T>C, 1452G>A, 1455T>G, 1458T>A, 1461A>T, 1462G>A, 1463C>T, 1464A>G, 1473T>A, 1476T>A, 1480C>A, 1488T>C, 1491A>G, 1499A>G, 1500G>T, 1504G>A, 1505G>A, 1506A>T, 1509A>G, 1510C>T, 1512A>G, 1524T>C, 1527C>T, 1528G>A, 1529C>A, 1530T>C, 1533G>A, 1536T>A, 1542A>G, 1545T>A, 1548A>T, 1549A>G, 1554G>A, 1563C>T, 1566T>C, 1572G>T, 1573C>A, 1575T>G, 1578A>G, 1582T>C, 1587T>C, 1593C>T, 1596A>G, 1602T>C, 1605T>G, 1608C>A, 1612A>G, 1614A>G, 1615A>G, 1621A>G, 1623T>G, 1624G>A, 1626T>C, 1629T>A, 1638A>G, 1647T>C, 1650T>C, 1653T>G, 1658A>G, 1659A>G, 1670A>G, 1671G>T, 1675G>A, 1676G>A, 1678T>C, 1680A>C, 1683G>A, 1684A>T, 1685A>C, 1686T>A, 1692T>G, 1697C>T, 1698A>G, 1699C>T, 1704A>G, 1707T>C, 1713A>G, 1716A>C, 1719C>T, 1722A>G, 1725A>C, 1731A>T, 1734A>C, 1735T>G, 1740A>G, 1741G>A, 1743T>C, 1744T>A, 1749T>A, 1755T>A, 1758G>A, 1761T>A, 1767T>G, 1768T>A, 1770A>G, 1779A>T, 1783A>G, 1785G>T, 1786G>A, 1789G>A, 1791A>T, 1795A>G, 1796C>A, 1802T>C, 1803A>G, 1804A>C, 1805C>A, 1806T>A, 1809T>C, 1810A>G, 1811T>C, 1812A>C, 1813T>G, 1814C>T, 1815G>T, 1816T>A, 1817C>A, 1818A>T, 1819T>G, 1820C>A, 1824A>T, 1825A>G, 1826G>C, 1827T>G, 1828T>A, 1830A>G, 1831G>A, 1833T>A, 1836G>A, 1837A>T, 1843A>G, 1844C>T, 1849A>C, 1850C>A, 1851T>A, 1854C>A, 1858A>G, 1860A>G, 1862G>A, 1866G>A, 1870C>T, 1875G>A, 1881G>T, 1882G>A, 1884A>G, 1887A>T, 1893T>A, 1896G>A, 1899T>A, 1908T>C, 1914T>C, 1926T>G, 1929T>G, 1930T>C, 1932G>A, 1935G>A, 1936A>G, 1938T>C, 1949A>G, 1953G>A, 1955C>T, 1956T>A, 1959A>G, 1960A>G, 1962A>C, 1963T>G, 1964C>A, 1965A>C, 1967C>A, 1972A>G, 1975A>T, 1980T>A, 1984A>G, 1986T>C, 1987G>A, 1989T>C, 1992T>A, 1998A>G, 2001G>A, 2004A>G, 2015C>G, 2016A>T, 2025T>G, 2028C>T, 2029C>A, 2031T>A, 2034T>A, 2038A>G, 2041A>G, 2042A>G, 2043C>A, 2049T>A, 2051T>C, 2052G>A, 2058A>G, 2061T>G, 2064A>C, 2066T>C, 2070T>C, 2075A>G, 2082T>C, 2085T>G, 2088T>C, 2091A>G, 2097T>A, 2100A>G, 2101T>C, 2112A>G, 2118T>C, 2119G>A, 2122G>A, 2125C>G, 2136T>A, 2139C>T, 2148A>C, 2149G>A, 2151T>C, 2154T>A, 2160A>G, 2166C>G, 2169T>A, 2175T>A, 2178T>C, 2184A>G, 2188C>T, 2190T>A, 2196T>C, 2197T>C, 2202C>T, 2205T>C, 2211C>T, 2214C>G, 2217T>A, 2222A>G, 2223G>A, 2224C>G, 2226A>G, 2241T>G, 2245A>C, 2247A>G, 2250T>A, 2251G>A, 2256A>C, 2258G>A, 2265A>G, 2270A>G, 2274C>T, 2278A>G, 2280T>C, 2283G>A, 2284G>A, 2292T>A, 2295A>T, 2298T>A, 2300G>A, 2304T>C, 2310T>A, 2317C>T, 2319G>A, 2322T>C, 2331C>T, 2334G>A, 2342T>C, 2344A>G, 2345T>C, 2350A>G
CDS

RVA_s4_g_p1	1	777	100%	4105	78.6%	777 (100%)	579 (74.5%)	0/0/0/0	1
Protein mutations:	T11A (40A>G 42G>T), T15A (52A>G), E24S (79G>T 80A>C 81G>A), I25V (82A>G), T28E (91A>G 92C>A 93T>G), S30N (97T>A 98C>A 99A>C), N32R (103A>C 104A>G 105T>C), I35V (112A>G 114T>G), G44V (140G>T 141T>A), I55V (172A>G 174T>G), T60V (187A>G 188C>T), E62Q (193G>C), L64V (199T>G), T72A (223A>G), T73S (226A>T 228A>G), N75D (232A>G), P76L (236C>T), D79G (245A>G 246T>A), Y80N (247T>A), T88G (271A>G 272C>G), I92V (283A>G 285T>A), N97D (298A>G 300T>C), T99S (304A>T 306A>T), D100G (308A>G 309T>C), A104S (319G>T 321C>T), T105V (322A>G 323C>T), N111G (340A>G 341A>G), Q113T (346C>A 347A>C 348G>A), N116T (356A>C), I121M (372A>G), I124S (379A>T 380T>C 381T>A), Q125S (382C>A 383A>G 384A>T), E126K (385G>A), L128V (391T>G 393A>G), T129L (394A>T 395C>T 396G>A), T133A (406A>G 408T>G), Q135D (412C>G 414A>T), D136T (415G>A 416A>C 417C>G), Q137K (418C>A 420G>A), I141V (430A>G), D142E (435T>A), V143M (436G>A 438C>G), V144M (439G>A 441A>G), T147A (448A>G 450T>G), A148I (451G>A 452C>T 453A>T), N149D (454A>G), S151D (460A>G 461G>A 462T>C), I152Y (463A>T 464T>A 465A>T), G153A (467G>C 468A>G), Q154E (469C>G), Y155W (473A>G 474T>G), P157T (478C>A), S161D (490A>G 491G>A 492T>C), P162T (493C>A 495G>C), A166G (506C>G 507A>G), V167M (508G>A 510T>G), H170Y (517C>T), N171G (520A>G 521A>G 522T>A), E172K (523G>A 525A>G), K173R (527A>G), Y175F (533A>T 534T>C), T176I (536C>T), Q180E (547C>G 549G>A), R185T (563G>C), A187K (568G>A 569C>A), H188R (571C>A 572A>G 573T>A), S190I (577T>A 578C>T 579A>T), T191V (580A>G 581C>T 582A>G), D195A (593A>C 594T>A), N198E (601A>G 603T>G), M199V (604A>G 606G>A), T200R (608C>G 609T>G), A201P (610G>C 612T>A), F202Y (614T>A), C203S (616T>A), P209S (634C>T 636T>A), E212Q (643G>C 645A>G), K215A (652A>G 653A>C), L236V (715T>G 717A>G), S237A (718T>G 720G>A), L238I (721T>A 723G>A), T239S (724A>T 726T>G), A240S (727G>T 729T>A), D242S (733G>T 734A>C 735T>A), V243I (736G>A 738A>T), I244E (739A>G 740T>A), H245P (743A>C 744C>A), Y246R (745T>A 746A>G 747T>A), R247K (749G>A), A248V (752C>T 753T>G), I256V (775A>G 777A>T), T272I (824C>T 825T>A), K276R (836A>G 837A>G), A278D (842C>A 843A>T), T280S (847A>T), S292A (883T>G 885A>T), P298A (901C>G 903A>T), T304N (920C>A 921A>T), T306M (926C>T 927T>G), Y332S (1004A>C 1005T>A), V338A (1022T>C 1023T>A), V339I (1024G>A), K341R (1031A>G), F342Y (1034T>A), I353V (1066A>G 1068C>T), V365M (1102G>A), S377D (1138T>G 1139C>A 1140A>C), T381S (1150A>T), S384D (1159A>G 1160G>A 1161C>T), N386S (1166A>G 1167T>C), S388A (1171A>G 1172G>C 1173T>G), V391A (1181T>C 1182T>C), L397M (1198T>A 1200A>G), T398K (1202C>A 1203T>A), S403T (1216T>A 1218T>G), S406T (1225T>A), F418Y (1262T>A), H436S (1315C>T 1316A>C 1317C>A), K438T (1322A>C 1323A>G), L439I (1324C>A 1326G>A), L444V (1339T>G), D445S (1342G>T 1343A>C 1344T>A), R446K (1346G>A), D454N (1369G>A 1371T>C), N457G (1378A>G 1379A>G 1380T>C), K459R (1385A>G 1386A>G), I464V (1399A>G 1401T>G), A485M (1462G>A 1463C>T 1464A>G), Q497R (1499A>G 1500G>T), G499N (1504G>A 1505G>A 1506A>T), A507N (1528G>A 1529C>A 1530T>C), M514V (1549A>G), L522M (1573C>A 1575T>G), K535E (1612A>G 1614A>G), S536G (1615A>G), I538V (1621A>G 1623T>G), D539N (1624G>A 1626T>C), K550R (1658A>G 1659A>G), K554S (1670A>G 1671G>T), G556K (1675G>A 1676G>A), N559S (1684A>T 1685A>C 1686T>A), T563M (1697C>T 1698A>G), S576A (1735T>G), G578S (1741G>A 1743T>C), S579T (1744T>A), S587T (1768T>A 1770A>G), T592A (1783A>G 1785G>T), D593N (1786G>A), V594I (1789G>A 1791A>T), T596E (1795A>G 1796C>A), I598T (1802T>C 1803A>G), T599Q (1804A>C 1805C>A 1806T>A), I601A (1810A>G 1811T>C 1812A>C), S602V (1813T>G 1814C>T 1815G>T), S603N (1816T>A 1817C>A 1818A>T), S604E (1819T>G 1820C>A), S606A (1825A>G 1826G>C 1827T>G), S607T (1828T>A 1830A>G), V608I (1831G>A 1833T>A), T610S (1837A>T), T612V (1843A>G 1844C>T), T614Q (1849A>C 1850C>A 1851T>A), R617G (1858A>G 1860A>G), R618K (1862G>A), M624I (1881G>T), A625T (1882G>A 1884A>G), T643A (1936A>G 1938T>C), K647R (1949A>G), T649I (1955C>T 1956T>A), I651V (1960A>G 1962A>C), S652D (1963T>G 1964C>A 1965A>C), P653Q (1967C>A), T655A (1972A>G), I656L (1975A>T), I659V (1984A>G 1986T>C), V660I (1987G>A 1989T>C), P669R (2015C>G 2016A>T), N677D (2038A>G), N678G (2041A>G 2042A>G 2043C>A), D680E (2049T>A), V681A (2051T>C 2052G>A), I686T (2066T>C), K689R (2075A>G), D696E (2097T>A), F698L (2101T>C), I701M (2112A>G), D704N (2119G>A), V705I (2122G>A), Q706E (2125C>G), D714N (2149G>A 2151T>C), K738R (2222A>G 2223G>A), Q739E (2224C>G 2226A>G), D748N (2251G>A), R750K (2258G>A), E754G (2270A>G), N757D (2278A>G 2280T>C), D759N (2284G>A), R764K (2300G>A)
Codon mutations:	ATT5ATA (24T>A), TAT6TAC (27T>C), CAA8CAG (33A>G), TTG9CTG (34T>C), ACG11GCT (40A>G 42G>T), TAT14TAC (51T>C), ACA15GCA (52A>G), GTA16GTG (57A>G), TTA18TTG (63A>G), TCC19TCT (66C>T), CAA23CAG (78A>G), GAG24TCA (79G>T 80A>C 81G>A), ATT25GTT (82A>G), ACT28GAG (91A>G 92C>A 93T>G), AAA29AAG (96A>G), TCA30AAC (97T>A 98C>A 99A>C), CAA31CAG (102A>G), AAT32CGC (103A>C 104A>G 105T>C), GTC33GTT (108C>T), ATT35GTG (112A>G 114T>G), CCT37CCA (120T>A), CAA42CAG (135A>G), GGT44GTA (140G>T 141T>A), GCT46GCG (147T>G), GTT48GTG (153T>G), CCT52CCC (165T>C), GGA53GGT (168A>T), ATT55GTG (172A>G 174T>G), GAT57GAC (180T>C), TCT58TCG (183T>G), ACG59ACT (186G>T), ACA60GTA (187A>G 188C>T), GTT61GTA (192T>A), GAA62CAA (193G>C), CCA63CCT (198A>T), TTG64GTG (199T>G), CTG65TTG (202C>T), GAT66GAC (207T>C), GGG67GGA (210G>A), CCT68CCG (213T>G), CAA70CAG (219A>G), ACG72GCG (223A>G), ACA73TCG (226A>T 228A>G), AAT75GAT (232A>G), CCA76CTA (236C>T), GTC78GTA (243C>A), GAT79GGA (245A>G 246T>A), TAT80AAT (247T>A), TTA83TTG (258A>G), CTG84TTA (259C>T 261G>A), GCT85GCG (264T>G), ACG87ACA (270G>A), ACA88GGA (271A>G 272C>G), CCT89CCA (276T>A), GGC90GGT (279C>T), GTA91GTG (282A>G), ATT92GTA (283A>G 285T>A), GTT93GTG (288T>G), GGT95GGG (294T>G), ACA96ACG (297A>G), AAT97GAC (298A>G 300T>C), ACA99TCT (304A>T 306A>T), GAT100GGC (308A>G 309T>C), GCC104TCT (319G>T 321C>T), ACA105GTA (322A>G 323C>T), TTA107CTG (328T>C 330A>G), ATC108ATT (333C>T), GAG109GAA (336G>A), AAT111GGT (340A>G 341A>G), GTT112GTC (345T>C), CAG113ACA (346C>A 347A>C 348G>A), TCT114TCA (351T>A), AAT116ACT (356A>C), AGA117AGG (360A>G), ACT118ACG (363T>G), TAC119TAT (366C>T), ACT120ACG (369T>G), ATA121ATG (372A>G), GGT123GGA (378T>A), ATT124TCA (379A>T 380T>C 381T>A), CAA125AGT (382C>A 383A>G 384A>T), GAA126AAA (385G>A), CAA127CAG (390A>G), TTA128GTG (391T>G 393A>G), ACG129TTA (394A>T 395C>T 396G>A), GTA130GTG (399A>G), TCC131TCG (402C>G), AAT132AAC (405T>C), ACT133GCG (406A>G 408T>G), TCA134TCT (411A>T), CAA135GAT (412C>G 414A>T), GAC136ACG (415G>A 416A>C 417C>G), CAG137AAA (418C>A 420G>A), ATT141GTT (430A>G), GAT142GAA (435T>A), GTC143ATG (436G>A 438C>G), GTA144ATG (439G>A 441A>G), AAA145AAG (444A>G), ACA146ACG (447A>G), ACT147GCG (448A>G 450T>G), GCA148ATT (451G>A 452C>T 453A>T), AAT149GAT (454A>G), GGA150GGT (459A>T), AGT151GAC (460A>G 461G>A 462T>C), ATA152TAT (463A>T 464T>A 465A>T), GGA153GCG (467G>C 468A>G), CAA154GAA (469C>G), TAT155TGG (473A>G 474T>G), CCA157ACA (478C>A), TCC160TCA (489C>A), AGT161GAC (490A>G 491G>A 492T>C), CCG162ACC (493C>A 495G>C), TTA164CTC (499T>C 501A>C), GCA166GGG (506C>G 507A>G), GTT167ATG (508G>A 510T>G), AAG169AAA (516G>A), CAT170TAT (517C>T), AAT171GGA (520A>G 521A>G 522T>A), GAA172AAG (523G>A 525A>G), AAA173AGA (527A>G), TTA174CTA (529T>C), TAT175TTC (533A>T 534T>C), ACA176ATA (536C>T), TAT177TAC (540T>C), CAG180GAA (547C>G 549G>A), ACA181ACC (552A>C), CCT182CCA (555T>A), AAC183AAT (558C>T), GCT184GCC (561T>C), AGG185ACG (563G>C), ACA186ACC (567A>C), GCA187AAA (568G>A 569C>A), CAT188AGA (571C>A 572A>G 573T>A), TAT189TAC (576T>C), TCA190ATT (577T>A 578C>T 579A>T), ACA191GTG (580A>G 581C>T 582A>G), GAT195GCA (593A>C 594T>A), TCT196TCA (597T>A), AAT198GAG (601A>G 603T>G), ATG199GTA (604A>G 606G>A), ACT200AGG (608C>G 609T>G), GCT201CCA (610G>C 612T>A), TTT202TAT (614T>A), TGT203AGT (616T>A), CCT209TCA (634C>T 636T>A), TCT211TCA (642T>A), GAA212CAG (643G>C 645A>G), GAG213GAA (648G>A), TCT214TCA (651T>A), AAA215GCA (652A>G 653A>C), TGT216TGC (657T>C), ACG217ACT (660G>T), GAA218GAG (663A>G), TAC219TAT (666C>T), ATT220ATA (669T>A), AAT221AAC (672T>C), AAT222AAC (675T>C), TTA224CTG (679T>C 681A>G), CCA226CCC (687A>C), ATA227ATC (690A>C), ACT230ACC (699T>C), AGA231AGG (702A>G), GTT233GTA (708T>A), GTA234GTG (711A>G), CCA235CCT (714A>T), TTA236GTG (715T>G 717A>G), TCG237GCA (718T>G 720G>A), TTG238ATA (721T>A 723G>A), ACT239TCG (724A>T 726T>G), GCT240TCA (727G>T 729T>A), GAT242TCA (733G>T 734A>C 735T>A), GTA243ATT (736G>A 738A>T), ATA244GAA (739A>G 740T>A), CAC245CCA (743A>C 744C>A), TAT246AGA (745T>A 746A>G 747T>A), AGA247AAA (749G>A), GCT248GTG (752C>T 753T>G), CAA249CAG (756A>G), GTG255GTA (774G>A), ATA256GTT (775A>G 777A>T), TCC257TCT (780C>T), ACA259ACG (786A>G), TTG261CTA (790T>C 792G>A), ATA271ATC (822A>C), ACT272ATA (824C>T 825T>A), AAA276AGG (836A>G 837A>G), GCA278GAT (842C>A 843A>T), AAT279AAC (846T>C), ACA280TCA (847A>T), ATT281ATA (852T>A), TCA284TCT (861A>T), GGG286GGT (867G>T), CTG287TTG (868C>T), GGA288GGC (873A>C), TCA292GCT (883T>G 885A>T), ATA294ATC (891A>C), AAG297AAA (900G>A), CCA298GCT (901C>G 903A>T), GCG299GCA (906G>A), ACA304AAT (920C>A 921A>T), TAT305TAC (924T>C), ACT306ATG (926C>T 927T>G), CGT307AGA (928C>A 930T>A), GAT308GAC (933T>C), GGT309GGA (936T>A), ACC313ACA (948C>A), GCA314GCG (951A>G), ACT316ACG (957T>G), ACT317ACG (960T>G), TGT318TGC (963T>C), GTG320GTT (969G>T), GGC322GGT (975C>T), GAC325GAT (984C>T), TTC326TTT (987C>T), AGT327AGC (990T>C), AAT329AAC (996T>C), GGA331GGC (1002A>C), TAT332TCA (1004A>C 1005T>A), ACT335ACA (1014T>A), TTT337TTC (1020T>C), GTT338GCA (1022T>C 1023T>A), GTA339ATA (1024G>A), TCT340TCG (1029T>G), AAA341AGA (1031A>G), TTT342TAT (1034T>A), GAG347GAA (1050G>A), TCA349TCG (1056A>G), TAC350TAT (1059C>T), GTC351GTA (1062C>A), TAT352TAC (1065T>C), ATC353GTT (1066A>G 1068C>T), GAT357GAC (1080T>C), CAA360CAG (1089A>G), TTT362TTC (1095T>C), CGT363AGA (1096C>A 1098T>A), AAC364AAT (1101C>T), GTG365ATG (1102G>A), GTG366GTC (1107G>C), GTC368GTG (1113C>G), TCG370TCA (1119G>A), TTA371TTG (1122A>G), GCA373GCG (1128A>G), AAC374AAT (1131C>T), TCA377GAC (1138T>G 1139C>A 1140A>C), GTT378GTA (1143T>A), ACT381TCT (1150A>T), GGA382GGC (1155A>C), GGC383GGA (1158C>A), AGC384GAT (1159A>G 1160G>A 1161C>T), TAT385TAC (1164T>C), AAT386AGC (1166A>G 1167T>C), TTT387TTC (1170T>C), AGT388GCG (1171A>G 1172G>C 1173T>G), CCA390CCT (1179A>T), GTT391GCC (1181T>C 1182T>C), CCT395CCA (1194T>A), GTT396GTG (1197T>G), TTA397ATG (1198T>A 1200A>G), ACT398AAA (1202C>A 1203T>A), GCA401GCG (1212A>G), GTT402GTG (1215T>G), TCT403ACG (1216T>A 1218T>G), TTA404TTG (1221A>G), CAT405CAC (1224T>C), TCA406ACA (1225T>A), GCT407GCA (1230T>A), GGT408GGA (1233T>A), CTA411TTA (1240C>T), ACT413ACA (1248T>A), TTT415TTC (1254T>C), ACA416ACT (1257A>T), GAT417GAC (1260T>C), TTC418TAC (1262T>A), TTA421CTG (1270T>C 1272A>G), AAT422AAC (1275T>C), TTA424CTA (1279T>C), AGA425AGG (1284A>G), CTA430CTG (1299A>G), GCT431GCA (1302T>A), CAC436TCA (1315C>T 1316A>C 1317C>A), TTT437TTC (1320T>C), AAA438ACG (1322A>C 1323A>G), CTG439ATA (1324C>A 1326G>A), ACT442ACA (1335T>A), AGA443CGT (1336A>C 1338A>T), TTA444GTA (1339T>G), GAT445TCA (1342G>T 1343A>C 1344T>A), AGA446AAA (1346G>A), TTG447CTG (1348T>C), CTG450TTA (1357C>T 1359G>A), CCT451CCA (1362T>A), GCT452GCG (1365T>G), GCA453GCG (1368A>G), GAT454AAC (1369G>A 1371T>C), AAT456AAC (1377T>C), AAT457GGC (1378A>G 1379A>G 1380T>C), GGT458GGA (1383T>A), AAA459AGG (1385A>G 1386A>G), ATT464GTG (1399A>G 1401T>G), GCT465GCA (1404T>A), CGA467AGG (1408C>A 1410A>G), TCA469TCG (1416A>G), CTT470CTG (1419T>G), TTA473TTG (1428A>G), TAT480TAC (1449T>C), CAG481CAA (1452G>A), ACT482ACG (1455T>G), CCT483CCA (1458T>A), ATA484ATT (1461A>T), GCA485ATG (1462G>A 1463C>T 1464A>G), GTT488GTA (1473T>A), ACT489ACA (1476T>A), CGA491AGA (1480C>A), GAT493GAC (1488T>C), TTA494TTG (1491A>G), CAG497CGT (1499A>G 1500G>T), GGA499AAT (1504G>A 1505G>A 1506A>T), GAA500GAG (1509A>G), CTA501TTG (1510C>T 1512A>G), TTT505TTC (1524T>C), AAC506AAT (1527C>T), GCT507AAC (1528G>A 1529C>A 1530T>C), TTG508TTA (1533G>A), TCT509TCA (1536T>A), GAA511GAG (1542A>G), ATT512ATA (1545T>A), GCA513GCT (1548A>T), ATG514GTG (1549A>G), TCG515TCA (1554G>A), ATC518ATT (1563C>T), GAT519GAC (1566T>C), GCG521GCT (1572G>T), CTT522ATG (1573C>A 1575T>G), CTA523CTG (1578A>G), TTA525CTA (1582T>C), GAT526GAC (1587T>C), TTC528TTT (1593C>T), TCA529TCG (1596A>G), TTT531TTC (1602T>C), TCT532TCG (1605T>G), GGC533GGA (1608C>A), AAA535GAG (1612A>G 1614A>G), AGT536GGT (1615A>G), ATT538GTG (1621A>G 1623T>G), GAT539AAC (1624G>A 1626T>C), GCT540GCA (1629T>A), TCA543TCG (1638A>G), ACT546ACC (1647T>C), AAT547AAC (1650T>C), GTT548GTG (1653T>G), AAA550AGG (1658A>G 1659A>G), AAG554AGT (1670A>G 1671G>T), GGA556AAA (1675G>A 1676G>A), TTA557CTC (1678T>C 1680A>C), GCG558GCA (1683G>A), AAT559TCA (1684A>T 1685A>C 1686T>A), GTT561GTG (1692T>G), ACA563ATG (1697C>T 1698A>G), CTG564TTG (1699C>T), ACA565ACG (1704A>G), GAT566GAC (1707T>C), TTA568TTG (1713A>G), TCA569TCC (1716A>C), GAC570GAT (1719C>T), GCA571GCG (1722A>G), GCA572GCC (1725A>C), TCA574TCT (1731A>T), ATA575ATC (1734A>C), TCA576GCA (1735T>G), AGA577AGG (1740A>G), GGT578AGC (1741G>A 1743T>C), TCA579ACA (1744T>A), TCT580TCA (1749T>A), CGT582CGA (1755T>A), TCG583TCA (1758G>A), ATT584ATA (1761T>A), TCT586TCG (1767T>G), TCA587ACG (1768T>A 1770A>G), GCA590GCT (1779A>T), ACG592GCT (1783A>G 1785G>T), GAT593AAT (1786G>A), GTA594ATT (1789G>A 1791A>T), ACA596GAA (1795A>G 1796C>A), ATA598ACG (1802T>C 1803A>G), ACT599CAA (1804A>C 1805C>A 1806T>A), GAT600GAC (1809T>C), ATA601GCC (1810A>G 1811T>C 1812A>C), TCG602GTT (1813T>G 1814C>T 1815G>T), TCA603AAT (1816T>A 1817C>A 1818A>T), TCA604GAA (1819T>G 1820C>A), GTA605GTT (1824A>T), AGT606GCG (1825A>G 1826G>C 1827T>G), TCA607ACG (1828T>A 1830A>G), GTT608ATA (1831G>A 1833T>A), TCG609TCA (1836G>A), ACA610TCA (1837A>T), ACG612GTG (1843A>G 1844C>T), ACT614CAA (1849A>C 1850C>A 1851T>A), ATC615ATA (1854C>A), AGA617GGG (1858A>G 1860A>G), AGA618AAA (1862G>A), TTG619TTA (1866G>A), CTA621TTA (1870C>T), AAG622AAA (1875G>A), ATG624ATT (1881G>T), GCA625ACG (1882G>A 1884A>G), ACA626ACT (1887A>T), ACT628ACA (1893T>A), GAG629GAA (1896G>A), GGT630GGA (1899T>A), TTT633TTC (1908T>C), GAT635GAC (1914T>C), GCT639GCG (1926T>G), GTT640GTG (1929T>G), TTG641CTA (1930T>C 1932G>A), AAG642AAA (1935G>A), ACT643GCC (1936A>G 1938T>C), AAA647AGA (1949A>G), TCG648TCA (1953G>A), ACT649ATA (1955C>T 1956T>A), CAA650CAG (1959A>G), ATA651GTC (1960A>G 1962A>C), TCA652GAC (1963T>G 1964C>A 1965A>C), CCA653CAA (1967C>A), ACA655GCA (1972A>G), ATA656TTA (1975A>T), CCT657CCA (1980T>A), ATT659GTC (1984A>G 1986T>C), GTT660ATC (1987G>A 1989T>C), ACT661ACA (1992T>A), GCA663GCG (1998A>G), TCG664TCA (2001G>A), GAA665GAG (2004A>G), CCA669CGT (2015C>G 2016A>T), GCT672GCG (2025T>G), TAC673TAT (2028C>T), CGT674AGA (2029C>A 2031T>A), GTT675GTA (2034T>A), AAC677GAC (2038A>G), AAC678GGA (2041A>G 2042A>G 2043C>A), GAT680GAA (2049T>A), GTG681GCA (2051T>C 2052G>A), GAA683GAG (2058A>G), GCT684GCG (2061T>G), GGA685GGC (2064A>C), ATT686ACT (2066T>C), GAT687GAC (2070T>C), AAA689AGA (2075A>G), TTT691TTC (2082T>C), GCT692GCG (2085T>G), TAT693TAC (2088T>C), AAA694AAG (2091A>G), GAT696GAA (2097T>A), ACA697ACG (2100A>G), TTT698CTT (2101T>C), ATA701ATG (2112A>G), TTT703TTC (2118T>C), GAT704AAT (2119G>A), GTA705ATA (2122G>A), CAA706GAA (2125C>G), GCT709GCA (2136T>A), GAC710GAT (2139C>T), ACA713ACC (2148A>C), GAT714AAC (2149G>A 2151T>C), TCT715TCA (2154T>A), GTA717GTG (2160A>G), TCC719TCG (2166C>G), GCT720GCA (2169T>A), ATT722ATA (2175T>A), GAT723GAC (2178T>C), AAA725AAG (2184A>G), CTT727TTA (2188C>T 2190T>A), AAT729AAC (2196T>C), TTG730CTG (2197T>C), AAC731AAT (2202C>T), GAT732GAC (2205T>C), TAC734TAT (2211C>T), GGC735GGG (2214C>G), ATT736ATA (2217T>A), AAG738AGA (2222A>G 2223G>A), CAA739GAG (2224C>G 2226A>G), CTT744CTG (2241T>G), AGA746CGG (2245A>C 2247A>G), TCT747TCA (2250T>A), GAC748AAC (2251G>A), CCA749CCC (2256A>C), AGA750AAA (2258G>A), TTA752TTG (2265A>G), GAA754GGA (2270A>G), TTC755TTT (2274C>T), AAT757GAC (2278A>G 2280T>C), CAG758CAA (2283G>A), GAC759AAC (2284G>A), CCT761CCA (2292T>A), ATA762ATT (2295A>T), ATT763ATA (2298T>A), AGA764AAA (2300G>A), AAT765AAC (2304T>C), ATT767ATA (2310T>A), CTG770TTA (2317C>T 2319G>A), ATT771ATC (2322T>C), TGC774TGT (2331C>T), AGG775AGA (2334G>A)
Proteins

outer capsid spike protein VP4 (YP_002302230.1)	1	777	100%	4105	78.6%	777 (100%)	579 (74.5%)	0/0/0/0	1
Protein mutations:	T11A (40A>G 42G>T), T15A (52A>G), E24S (79G>T 80A>C 81G>A), I25V (82A>G), T28E (91A>G 92C>A 93T>G), S30N (97T>A 98C>A 99A>C), N32R (103A>C 104A>G 105T>C), I35V (112A>G 114T>G), G44V (140G>T 141T>A), I55V (172A>G 174T>G), T60V (187A>G 188C>T), E62Q (193G>C), L64V (199T>G), T72A (223A>G), T73S (226A>T 228A>G), N75D (232A>G), P76L (236C>T), D79G (245A>G 246T>A), Y80N (247T>A), T88G (271A>G 272C>G), I92V (283A>G 285T>A), N97D (298A>G 300T>C), T99S (304A>T 306A>T), D100G (308A>G 309T>C), A104S (319G>T 321C>T), T105V (322A>G 323C>T), N111G (340A>G 341A>G), Q113T (346C>A 347A>C 348G>A), N116T (356A>C), I121M (372A>G), I124S (379A>T 380T>C 381T>A), Q125S (382C>A 383A>G 384A>T), E126K (385G>A), L128V (391T>G 393A>G), T129L (394A>T 395C>T 396G>A), T133A (406A>G 408T>G), Q135D (412C>G 414A>T), D136T (415G>A 416A>C 417C>G), Q137K (418C>A 420G>A), I141V (430A>G), D142E (435T>A), V143M (436G>A 438C>G), V144M (439G>A 441A>G), T147A (448A>G 450T>G), A148I (451G>A 452C>T 453A>T), N149D (454A>G), S151D (460A>G 461G>A 462T>C), I152Y (463A>T 464T>A 465A>T), G153A (467G>C 468A>G), Q154E (469C>G), Y155W (473A>G 474T>G), P157T (478C>A), S161D (490A>G 491G>A 492T>C), P162T (493C>A 495G>C), A166G (506C>G 507A>G), V167M (508G>A 510T>G), H170Y (517C>T), N171G (520A>G 521A>G 522T>A), E172K (523G>A 525A>G), K173R (527A>G), Y175F (533A>T 534T>C), T176I (536C>T), Q180E (547C>G 549G>A), R185T (563G>C), A187K (568G>A 569C>A), H188R (571C>A 572A>G 573T>A), S190I (577T>A 578C>T 579A>T), T191V (580A>G 581C>T 582A>G), D195A (593A>C 594T>A), N198E (601A>G 603T>G), M199V (604A>G 606G>A), T200R (608C>G 609T>G), A201P (610G>C 612T>A), F202Y (614T>A), C203S (616T>A), P209S (634C>T 636T>A), E212Q (643G>C 645A>G), K215A (652A>G 653A>C), L236V (715T>G 717A>G), S237A (718T>G 720G>A), L238I (721T>A 723G>A), T239S (724A>T 726T>G), A240S (727G>T 729T>A), D242S (733G>T 734A>C 735T>A), V243I (736G>A 738A>T), I244E (739A>G 740T>A), H245P (743A>C 744C>A), Y246R (745T>A 746A>G 747T>A), R247K (749G>A), A248V (752C>T 753T>G), I256V (775A>G 777A>T), T272I (824C>T 825T>A), K276R (836A>G 837A>G), A278D (842C>A 843A>T), T280S (847A>T), S292A (883T>G 885A>T), P298A (901C>G 903A>T), T304N (920C>A 921A>T), T306M (926C>T 927T>G), Y332S (1004A>C 1005T>A), V338A (1022T>C 1023T>A), V339I (1024G>A), K341R (1031A>G), F342Y (1034T>A), I353V (1066A>G 1068C>T), V365M (1102G>A), S377D (1138T>G 1139C>A 1140A>C), T381S (1150A>T), S384D (1159A>G 1160G>A 1161C>T), N386S (1166A>G 1167T>C), S388A (1171A>G 1172G>C 1173T>G), V391A (1181T>C 1182T>C), L397M (1198T>A 1200A>G), T398K (1202C>A 1203T>A), S403T (1216T>A 1218T>G), S406T (1225T>A), F418Y (1262T>A), H436S (1315C>T 1316A>C 1317C>A), K438T (1322A>C 1323A>G), L439I (1324C>A 1326G>A), L444V (1339T>G), D445S (1342G>T 1343A>C 1344T>A), R446K (1346G>A), D454N (1369G>A 1371T>C), N457G (1378A>G 1379A>G 1380T>C), K459R (1385A>G 1386A>G), I464V (1399A>G 1401T>G), A485M (1462G>A 1463C>T 1464A>G), Q497R (1499A>G 1500G>T), G499N (1504G>A 1505G>A 1506A>T), A507N (1528G>A 1529C>A 1530T>C), M514V (1549A>G), L522M (1573C>A 1575T>G), K535E (1612A>G 1614A>G), S536G (1615A>G), I538V (1621A>G 1623T>G), D539N (1624G>A 1626T>C), K550R (1658A>G 1659A>G), K554S (1670A>G 1671G>T), G556K (1675G>A 1676G>A), N559S (1684A>T 1685A>C 1686T>A), T563M (1697C>T 1698A>G), S576A (1735T>G), G578S (1741G>A 1743T>C), S579T (1744T>A), S587T (1768T>A 1770A>G), T592A (1783A>G 1785G>T), D593N (1786G>A), V594I (1789G>A 1791A>T), T596E (1795A>G 1796C>A), I598T (1802T>C 1803A>G), T599Q (1804A>C 1805C>A 1806T>A), I601A (1810A>G 1811T>C 1812A>C), S602V (1813T>G 1814C>T 1815G>T), S603N (1816T>A 1817C>A 1818A>T), S604E (1819T>G 1820C>A), S606A (1825A>G 1826G>C 1827T>G), S607T (1828T>A 1830A>G), V608I (1831G>A 1833T>A), T610S (1837A>T), T612V (1843A>G 1844C>T), T614Q (1849A>C 1850C>A 1851T>A), R617G (1858A>G 1860A>G), R618K (1862G>A), M624I (1881G>T), A625T (1882G>A 1884A>G), T643A (1936A>G 1938T>C), K647R (1949A>G), T649I (1955C>T 1956T>A), I651V (1960A>G 1962A>C), S652D (1963T>G 1964C>A 1965A>C), P653Q (1967C>A), T655A (1972A>G), I656L (1975A>T), I659V (1984A>G 1986T>C), V660I (1987G>A 1989T>C), P669R (2015C>G 2016A>T), N677D (2038A>G), N678G (2041A>G 2042A>G 2043C>A), D680E (2049T>A), V681A (2051T>C 2052G>A), I686T (2066T>C), K689R (2075A>G), D696E (2097T>A), F698L (2101T>C), I701M (2112A>G), D704N (2119G>A), V705I (2122G>A), Q706E (2125C>G), D714N (2149G>A 2151T>C), K738R (2222A>G 2223G>A), Q739E (2224C>G 2226A>G), D748N (2251G>A), R750K (2258G>A), E754G (2270A>G), N757D (2278A>G 2280T>C), D759N (2284G>A), R764K (2300G>A)
Codon mutations:	ATT5ATA (24T>A), TAT6TAC (27T>C), CAA8CAG (33A>G), TTG9CTG (34T>C), ACG11GCT (40A>G 42G>T), TAT14TAC (51T>C), ACA15GCA (52A>G), GTA16GTG (57A>G), TTA18TTG (63A>G), TCC19TCT (66C>T), CAA23CAG (78A>G), GAG24TCA (79G>T 80A>C 81G>A), ATT25GTT (82A>G), ACT28GAG (91A>G 92C>A 93T>G), AAA29AAG (96A>G), TCA30AAC (97T>A 98C>A 99A>C), CAA31CAG (102A>G), AAT32CGC (103A>C 104A>G 105T>C), GTC33GTT (108C>T), ATT35GTG (112A>G 114T>G), CCT37CCA (120T>A), CAA42CAG (135A>G), GGT44GTA (140G>T 141T>A), GCT46GCG (147T>G), GTT48GTG (153T>G), CCT52CCC (165T>C), GGA53GGT (168A>T), ATT55GTG (172A>G 174T>G), GAT57GAC (180T>C), TCT58TCG (183T>G), ACG59ACT (186G>T), ACA60GTA (187A>G 188C>T), GTT61GTA (192T>A), GAA62CAA (193G>C), CCA63CCT (198A>T), TTG64GTG (199T>G), CTG65TTG (202C>T), GAT66GAC (207T>C), GGG67GGA (210G>A), CCT68CCG (213T>G), CAA70CAG (219A>G), ACG72GCG (223A>G), ACA73TCG (226A>T 228A>G), AAT75GAT (232A>G), CCA76CTA (236C>T), GTC78GTA (243C>A), GAT79GGA (245A>G 246T>A), TAT80AAT (247T>A), TTA83TTG (258A>G), CTG84TTA (259C>T 261G>A), GCT85GCG (264T>G), ACG87ACA (270G>A), ACA88GGA (271A>G 272C>G), CCT89CCA (276T>A), GGC90GGT (279C>T), GTA91GTG (282A>G), ATT92GTA (283A>G 285T>A), GTT93GTG (288T>G), GGT95GGG (294T>G), ACA96ACG (297A>G), AAT97GAC (298A>G 300T>C), ACA99TCT (304A>T 306A>T), GAT100GGC (308A>G 309T>C), GCC104TCT (319G>T 321C>T), ACA105GTA (322A>G 323C>T), TTA107CTG (328T>C 330A>G), ATC108ATT (333C>T), GAG109GAA (336G>A), AAT111GGT (340A>G 341A>G), GTT112GTC (345T>C), CAG113ACA (346C>A 347A>C 348G>A), TCT114TCA (351T>A), AAT116ACT (356A>C), AGA117AGG (360A>G), ACT118ACG (363T>G), TAC119TAT (366C>T), ACT120ACG (369T>G), ATA121ATG (372A>G), GGT123GGA (378T>A), ATT124TCA (379A>T 380T>C 381T>A), CAA125AGT (382C>A 383A>G 384A>T), GAA126AAA (385G>A), CAA127CAG (390A>G), TTA128GTG (391T>G 393A>G), ACG129TTA (394A>T 395C>T 396G>A), GTA130GTG (399A>G), TCC131TCG (402C>G), AAT132AAC (405T>C), ACT133GCG (406A>G 408T>G), TCA134TCT (411A>T), CAA135GAT (412C>G 414A>T), GAC136ACG (415G>A 416A>C 417C>G), CAG137AAA (418C>A 420G>A), ATT141GTT (430A>G), GAT142GAA (435T>A), GTC143ATG (436G>A 438C>G), GTA144ATG (439G>A 441A>G), AAA145AAG (444A>G), ACA146ACG (447A>G), ACT147GCG (448A>G 450T>G), GCA148ATT (451G>A 452C>T 453A>T), AAT149GAT (454A>G), GGA150GGT (459A>T), AGT151GAC (460A>G 461G>A 462T>C), ATA152TAT (463A>T 464T>A 465A>T), GGA153GCG (467G>C 468A>G), CAA154GAA (469C>G), TAT155TGG (473A>G 474T>G), CCA157ACA (478C>A), TCC160TCA (489C>A), AGT161GAC (490A>G 491G>A 492T>C), CCG162ACC (493C>A 495G>C), TTA164CTC (499T>C 501A>C), GCA166GGG (506C>G 507A>G), GTT167ATG (508G>A 510T>G), AAG169AAA (516G>A), CAT170TAT (517C>T), AAT171GGA (520A>G 521A>G 522T>A), GAA172AAG (523G>A 525A>G), AAA173AGA (527A>G), TTA174CTA (529T>C), TAT175TTC (533A>T 534T>C), ACA176ATA (536C>T), TAT177TAC (540T>C), CAG180GAA (547C>G 549G>A), ACA181ACC (552A>C), CCT182CCA (555T>A), AAC183AAT (558C>T), GCT184GCC (561T>C), AGG185ACG (563G>C), ACA186ACC (567A>C), GCA187AAA (568G>A 569C>A), CAT188AGA (571C>A 572A>G 573T>A), TAT189TAC (576T>C), TCA190ATT (577T>A 578C>T 579A>T), ACA191GTG (580A>G 581C>T 582A>G), GAT195GCA (593A>C 594T>A), TCT196TCA (597T>A), AAT198GAG (601A>G 603T>G), ATG199GTA (604A>G 606G>A), ACT200AGG (608C>G 609T>G), GCT201CCA (610G>C 612T>A), TTT202TAT (614T>A), TGT203AGT (616T>A), CCT209TCA (634C>T 636T>A), TCT211TCA (642T>A), GAA212CAG (643G>C 645A>G), GAG213GAA (648G>A), TCT214TCA (651T>A), AAA215GCA (652A>G 653A>C), TGT216TGC (657T>C), ACG217ACT (660G>T), GAA218GAG (663A>G), TAC219TAT (666C>T), ATT220ATA (669T>A), AAT221AAC (672T>C), AAT222AAC (675T>C), TTA224CTG (679T>C 681A>G), CCA226CCC (687A>C), ATA227ATC (690A>C), ACT230ACC (699T>C), AGA231AGG (702A>G), GTT233GTA (708T>A), GTA234GTG (711A>G), CCA235CCT (714A>T), TTA236GTG (715T>G 717A>G), TCG237GCA (718T>G 720G>A), TTG238ATA (721T>A 723G>A), ACT239TCG (724A>T 726T>G), GCT240TCA (727G>T 729T>A), GAT242TCA (733G>T 734A>C 735T>A), GTA243ATT (736G>A 738A>T), ATA244GAA (739A>G 740T>A), CAC245CCA (743A>C 744C>A), TAT246AGA (745T>A 746A>G 747T>A), AGA247AAA (749G>A), GCT248GTG (752C>T 753T>G), CAA249CAG (756A>G), GTG255GTA (774G>A), ATA256GTT (775A>G 777A>T), TCC257TCT (780C>T), ACA259ACG (786A>G), TTG261CTA (790T>C 792G>A), ATA271ATC (822A>C), ACT272ATA (824C>T 825T>A), AAA276AGG (836A>G 837A>G), GCA278GAT (842C>A 843A>T), AAT279AAC (846T>C), ACA280TCA (847A>T), ATT281ATA (852T>A), TCA284TCT (861A>T), GGG286GGT (867G>T), CTG287TTG (868C>T), GGA288GGC (873A>C), TCA292GCT (883T>G 885A>T), ATA294ATC (891A>C), AAG297AAA (900G>A), CCA298GCT (901C>G 903A>T), GCG299GCA (906G>A), ACA304AAT (920C>A 921A>T), TAT305TAC (924T>C), ACT306ATG (926C>T 927T>G), CGT307AGA (928C>A 930T>A), GAT308GAC (933T>C), GGT309GGA (936T>A), ACC313ACA (948C>A), GCA314GCG (951A>G), ACT316ACG (957T>G), ACT317ACG (960T>G), TGT318TGC (963T>C), GTG320GTT (969G>T), GGC322GGT (975C>T), GAC325GAT (984C>T), TTC326TTT (987C>T), AGT327AGC (990T>C), AAT329AAC (996T>C), GGA331GGC (1002A>C), TAT332TCA (1004A>C 1005T>A), ACT335ACA (1014T>A), TTT337TTC (1020T>C), GTT338GCA (1022T>C 1023T>A), GTA339ATA (1024G>A), TCT340TCG (1029T>G), AAA341AGA (1031A>G), TTT342TAT (1034T>A), GAG347GAA (1050G>A), TCA349TCG (1056A>G), TAC350TAT (1059C>T), GTC351GTA (1062C>A), TAT352TAC (1065T>C), ATC353GTT (1066A>G 1068C>T), GAT357GAC (1080T>C), CAA360CAG (1089A>G), TTT362TTC (1095T>C), CGT363AGA (1096C>A 1098T>A), AAC364AAT (1101C>T), GTG365ATG (1102G>A), GTG366GTC (1107G>C), GTC368GTG (1113C>G), TCG370TCA (1119G>A), TTA371TTG (1122A>G), GCA373GCG (1128A>G), AAC374AAT (1131C>T), TCA377GAC (1138T>G 1139C>A 1140A>C), GTT378GTA (1143T>A), ACT381TCT (1150A>T), GGA382GGC (1155A>C), GGC383GGA (1158C>A), AGC384GAT (1159A>G 1160G>A 1161C>T), TAT385TAC (1164T>C), AAT386AGC (1166A>G 1167T>C), TTT387TTC (1170T>C), AGT388GCG (1171A>G 1172G>C 1173T>G), CCA390CCT (1179A>T), GTT391GCC (1181T>C 1182T>C), CCT395CCA (1194T>A), GTT396GTG (1197T>G), TTA397ATG (1198T>A 1200A>G), ACT398AAA (1202C>A 1203T>A), GCA401GCG (1212A>G), GTT402GTG (1215T>G), TCT403ACG (1216T>A 1218T>G), TTA404TTG (1221A>G), CAT405CAC (1224T>C), TCA406ACA (1225T>A), GCT407GCA (1230T>A), GGT408GGA (1233T>A), CTA411TTA (1240C>T), ACT413ACA (1248T>A), TTT415TTC (1254T>C), ACA416ACT (1257A>T), GAT417GAC (1260T>C), TTC418TAC (1262T>A), TTA421CTG (1270T>C 1272A>G), AAT422AAC (1275T>C), TTA424CTA (1279T>C), AGA425AGG (1284A>G), CTA430CTG (1299A>G), GCT431GCA (1302T>A), CAC436TCA (1315C>T 1316A>C 1317C>A), TTT437TTC (1320T>C), AAA438ACG (1322A>C 1323A>G), CTG439ATA (1324C>A 1326G>A), ACT442ACA (1335T>A), AGA443CGT (1336A>C 1338A>T), TTA444GTA (1339T>G), GAT445TCA (1342G>T 1343A>C 1344T>A), AGA446AAA (1346G>A), TTG447CTG (1348T>C), CTG450TTA (1357C>T 1359G>A), CCT451CCA (1362T>A), GCT452GCG (1365T>G), GCA453GCG (1368A>G), GAT454AAC (1369G>A 1371T>C), AAT456AAC (1377T>C), AAT457GGC (1378A>G 1379A>G 1380T>C), GGT458GGA (1383T>A), AAA459AGG (1385A>G 1386A>G), ATT464GTG (1399A>G 1401T>G), GCT465GCA (1404T>A), CGA467AGG (1408C>A 1410A>G), TCA469TCG (1416A>G), CTT470CTG (1419T>G), TTA473TTG (1428A>G), TAT480TAC (1449T>C), CAG481CAA (1452G>A), ACT482ACG (1455T>G), CCT483CCA (1458T>A), ATA484ATT (1461A>T), GCA485ATG (1462G>A 1463C>T 1464A>G), GTT488GTA (1473T>A), ACT489ACA (1476T>A), CGA491AGA (1480C>A), GAT493GAC (1488T>C), TTA494TTG (1491A>G), CAG497CGT (1499A>G 1500G>T), GGA499AAT (1504G>A 1505G>A 1506A>T), GAA500GAG (1509A>G), CTA501TTG (1510C>T 1512A>G), TTT505TTC (1524T>C), AAC506AAT (1527C>T), GCT507AAC (1528G>A 1529C>A 1530T>C), TTG508TTA (1533G>A), TCT509TCA (1536T>A), GAA511GAG (1542A>G), ATT512ATA (1545T>A), GCA513GCT (1548A>T), ATG514GTG (1549A>G), TCG515TCA (1554G>A), ATC518ATT (1563C>T), GAT519GAC (1566T>C), GCG521GCT (1572G>T), CTT522ATG (1573C>A 1575T>G), CTA523CTG (1578A>G), TTA525CTA (1582T>C), GAT526GAC (1587T>C), TTC528TTT (1593C>T), TCA529TCG (1596A>G), TTT531TTC (1602T>C), TCT532TCG (1605T>G), GGC533GGA (1608C>A), AAA535GAG (1612A>G 1614A>G), AGT536GGT (1615A>G), ATT538GTG (1621A>G 1623T>G), GAT539AAC (1624G>A 1626T>C), GCT540GCA (1629T>A), TCA543TCG (1638A>G), ACT546ACC (1647T>C), AAT547AAC (1650T>C), GTT548GTG (1653T>G), AAA550AGG (1658A>G 1659A>G), AAG554AGT (1670A>G 1671G>T), GGA556AAA (1675G>A 1676G>A), TTA557CTC (1678T>C 1680A>C), GCG558GCA (1683G>A), AAT559TCA (1684A>T 1685A>C 1686T>A), GTT561GTG (1692T>G), ACA563ATG (1697C>T 1698A>G), CTG564TTG (1699C>T), ACA565ACG (1704A>G), GAT566GAC (1707T>C), TTA568TTG (1713A>G), TCA569TCC (1716A>C), GAC570GAT (1719C>T), GCA571GCG (1722A>G), GCA572GCC (1725A>C), TCA574TCT (1731A>T), ATA575ATC (1734A>C), TCA576GCA (1735T>G), AGA577AGG (1740A>G), GGT578AGC (1741G>A 1743T>C), TCA579ACA (1744T>A), TCT580TCA (1749T>A), CGT582CGA (1755T>A), TCG583TCA (1758G>A), ATT584ATA (1761T>A), TCT586TCG (1767T>G), TCA587ACG (1768T>A 1770A>G), GCA590GCT (1779A>T), ACG592GCT (1783A>G 1785G>T), GAT593AAT (1786G>A), GTA594ATT (1789G>A 1791A>T), ACA596GAA (1795A>G 1796C>A), ATA598ACG (1802T>C 1803A>G), ACT599CAA (1804A>C 1805C>A 1806T>A), GAT600GAC (1809T>C), ATA601GCC (1810A>G 1811T>C 1812A>C), TCG602GTT (1813T>G 1814C>T 1815G>T), TCA603AAT (1816T>A 1817C>A 1818A>T), TCA604GAA (1819T>G 1820C>A), GTA605GTT (1824A>T), AGT606GCG (1825A>G 1826G>C 1827T>G), TCA607ACG (1828T>A 1830A>G), GTT608ATA (1831G>A 1833T>A), TCG609TCA (1836G>A), ACA610TCA (1837A>T), ACG612GTG (1843A>G 1844C>T), ACT614CAA (1849A>C 1850C>A 1851T>A), ATC615ATA (1854C>A), AGA617GGG (1858A>G 1860A>G), AGA618AAA (1862G>A), TTG619TTA (1866G>A), CTA621TTA (1870C>T), AAG622AAA (1875G>A), ATG624ATT (1881G>T), GCA625ACG (1882G>A 1884A>G), ACA626ACT (1887A>T), ACT628ACA (1893T>A), GAG629GAA (1896G>A), GGT630GGA (1899T>A), TTT633TTC (1908T>C), GAT635GAC (1914T>C), GCT639GCG (1926T>G), GTT640GTG (1929T>G), TTG641CTA (1930T>C 1932G>A), AAG642AAA (1935G>A), ACT643GCC (1936A>G 1938T>C), AAA647AGA (1949A>G), TCG648TCA (1953G>A), ACT649ATA (1955C>T 1956T>A), CAA650CAG (1959A>G), ATA651GTC (1960A>G 1962A>C), TCA652GAC (1963T>G 1964C>A 1965A>C), CCA653CAA (1967C>A), ACA655GCA (1972A>G), ATA656TTA (1975A>T), CCT657CCA (1980T>A), ATT659GTC (1984A>G 1986T>C), GTT660ATC (1987G>A 1989T>C), ACT661ACA (1992T>A), GCA663GCG (1998A>G), TCG664TCA (2001G>A), GAA665GAG (2004A>G), CCA669CGT (2015C>G 2016A>T), GCT672GCG (2025T>G), TAC673TAT (2028C>T), CGT674AGA (2029C>A 2031T>A), GTT675GTA (2034T>A), AAC677GAC (2038A>G), AAC678GGA (2041A>G 2042A>G 2043C>A), GAT680GAA (2049T>A), GTG681GCA (2051T>C 2052G>A), GAA683GAG (2058A>G), GCT684GCG (2061T>G), GGA685GGC (2064A>C), ATT686ACT (2066T>C), GAT687GAC (2070T>C), AAA689AGA (2075A>G), TTT691TTC (2082T>C), GCT692GCG (2085T>G), TAT693TAC (2088T>C), AAA694AAG (2091A>G), GAT696GAA (2097T>A), ACA697ACG (2100A>G), TTT698CTT (2101T>C), ATA701ATG (2112A>G), TTT703TTC (2118T>C), GAT704AAT (2119G>A), GTA705ATA (2122G>A), CAA706GAA (2125C>G), GCT709GCA (2136T>A), GAC710GAT (2139C>T), ACA713ACC (2148A>C), GAT714AAC (2149G>A 2151T>C), TCT715TCA (2154T>A), GTA717GTG (2160A>G), TCC719TCG (2166C>G), GCT720GCA (2169T>A), ATT722ATA (2175T>A), GAT723GAC (2178T>C), AAA725AAG (2184A>G), CTT727TTA (2188C>T 2190T>A), AAT729AAC (2196T>C), TTG730CTG (2197T>C), AAC731AAT (2202C>T), GAT732GAC (2205T>C), TAC734TAT (2211C>T), GGC735GGG (2214C>G), ATT736ATA (2217T>A), AAG738AGA (2222A>G 2223G>A), CAA739GAG (2224C>G 2226A>G), CTT744CTG (2241T>G), AGA746CGG (2245A>C 2247A>G), TCT747TCA (2250T>A), GAC748AAC (2251G>A), CCA749CCC (2256A>C), AGA750AAA (2258G>A), TTA752TTG (2265A>G), GAA754GGA (2270A>G), TTC755TTT (2274C>T), AAT757GAC (2278A>G 2280T>C), CAG758CAA (2283G>A), GAC759AAC (2284G>A), CCT761CCA (2292T>A), ATA762ATT (2295A>T), ATT763ATA (2298T>A), AGA764AAA (2300G>A), AAT765AAC (2304T>C), ATT767ATA (2310T>A), CTG770TTA (2317C>T 2319G>A), ATT771ATC (2322T>C), TGC774TGT (2331C>T), AGG775AGA (2334G>A)

^*: Inserts / Deletes / Misaligned / Frameshifts

Analysis details

This analysis was performed with panviral2.43