Genome Detective

NGS Details (SRR3458562_Metagenome_example): Pinniped bocaparvovirus 2

Assembly

Coverage Length

1030 (6 contig(s))

Depth Of Coverage

1.0

Number Of Reads

Reads Per Million

0.65 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

Download annotated variants table (csv)

Assignment

Type

Pinniped bocaparvovirus 2 (Taxonomy ID: 1511870)

Reference Genome

NC_038536.1

NT Identity (%)

93.8735

AA Identity (%)

91.222

Number Of Stop Codons

Number Of CDS

Alignment

Alignment Score

1746.0 (NT) + 3405.0 (AA) = 5151.0

Concordance (%)

88.7033

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 453 and ends at position 4706 relative to NC_038536.1 reference sequence.

NC_038536.1

SRR3458562_Metagenome_example-NC_038536.1-120-0

NC_038536.1

SRR3458562_Metagenome_example-NC_038536.1-120-0

NC_038536.1

SRR3458562_Metagenome_example-NC_038536.1-120-0

GCGCTGTTAATGTTCCTGCGGCCAATGACGTATACAACAACATATGCATATAAAGATTATATCAAAAGCGAAAGCATTCATGTAATGAGTAACCTATAAAGGTCATAGTCCGTGTTAATGAATAACCAGACAGCCAATCAGGAAAGAGCACGCCCATGGTGTGATGGGCGGAGAGGGGCGTTACTGGGCGGGGAAATGAGTATATAAGCACGCGCACATCCGGGTTCAAGTCATTCTGCTTCCGGGATCCGTCGGAGACAGACCTCTCTCGGTGAGTGATGGCGATTCCTCTTGCTGCTGTCAATGATCTTATGCAATTTCCTGGGCCTTGCTATACCTATGTGCTCAAATTTCCATACGCTGACTGGCGCTTCAATGAGATCCGTCTACAACGGGCACTGGGATATCCAACTCATGACATCCTGGATAATCCCGACATCTATGCGTCTATGCCGGGTCAGTCTGAGCCTGCTGAACAATCTGCATTCCTTGAGACCAGAGGACCAATGCAGGCATACACCCTATTACTGGCACGCACTGCTTATACGGCGGCATTTAGCTTTTTCTCGGCGAAGCAAGGGAAATGCCCTCCTGCTGCTAGTATTTTTACTCAATGTGAACTTGGCGAGCGAGATCTTCATGTACATGTAGTGATGGGTGGAGAAGGCCTGTCAAGATACAACGCCAAAGCCATCCGGTCTCAATTAGCCTTCAAGTGGCTAGACGCCATTCAGAGTCAGCTTGAATACAATTTGAAGTACGGGCACACGGCTGACAAGGTCTTTTGTGATGTTCTGATTGATTGCTGCTACCGCGCCAAGCAAACATGTGTAGACATGAAAACCCAATACTGTGATGTGCTTCAATACAAGAGCCGAAGCGGCGAGATGTATGCCTGCCGAGTAGATGCGCTAGACTACATCTGTAACTATCTTCTCTGCAAGAATCTCCGCTTCTTTACACATGTTGATCCAGAAAAGGCGACTCCGTTTGTCGCCTA

CTTTCCGTGCACCAATAAGACGTATGCCGCATCATTTGTGAATGGGAAGTGGATTCCGATTGAGCTTAGAAAACAATGGCTTCAGTATCTCAGAGACTCTGTAGTTAAAAAGCTTGAGCCGGTATTCTCTGGTGATATATTCGGAGATCTTCCAAAGGTACCTAATGCCAAATGGCAGACTGATTCTGCTTCTCCATCATCAAGCAAGCCAACAAAAAGAGAGACTTTAATGCTTGATTGTATTGATCGCTGTGAAAAGAATCACTATCTCACATATGAAGATCTTGTTGATGGCTGTCCTGATCTTGTAATCATGCTAGAATCACAACCCGGGGGGAGTCGCTTGATTGAGACATTGATTCAGATGGTTCACATAAAGCTATGTCAAAAATATACTGCTTTGAGCTATATTCGAATGAGATATGAGCCTATTGAATTGATTCCATCAAACAAGGCATATCAGCTACTGGCCTTTCAGGGATACAATCCCTTTCAAGCATTTCACTGGCTTTGCTGTGTTTTAAATAAAACAGCCGGCAAACAAAACACAGTTAGTTTCTTTGGGCCAGCTAGCACTGGAAAAACCAACATGGCTAAATCCATAGTTAACGCTGCCAAGCTATATGGATGTGTTAATCACCAAAACAAGAATTTTGTGTTCAATGATTGTGCCTCTAAATTTGTATGTTGGTGGGAAGAGTGCTTGATGCATTCTGACTGGGTTGAGCAGGCTAAATGTATCCTTGGCGGTACTGAATTTAGAATTGACAGAAAACATAGAGATTCCATGCTCCTTCCACAAACGCCTTTAATTATTTCTACCAACAATGACATTTACACGGTTGTTGGTGGAAATACTGTATCCCATGTACATGCAAAGCCTTTAAAGGAACGAGTTGTTCAGCTCAACTTTATGAAACAGCTACAACCGACATTCGGGGAAATCACTCCTGAAGACGTGATTGCTCTTCTACAAGCCTGTATCGATCGCTTTCCTGAT

TTGACTCTGGCTGGCTTCTGCGCTCAGTGGAACCTAGAGAAGGTTCCCAATGATTTTCCTCTCGCTAATCTCTGTCCTGGTCATGTTCAGGACTTTGTTCTGTATGAGCACGGGCTGTGCACTGCATGTGGAGGCTACTATCCGCTAGAGGAGAGAGACCGTGGTGACGTGGAAGCTGCTGTGACAGCAGAACCTGCGCCTGCTGAGTTCAAAGTACCAGGTAAGCTATTACTCATATGGGTGTTGCCTTTCCGCGTTGTTTCTGCTGACACTGACACTGATTCATTTATTACAGCTACTCCGCCTAACACGCCAACCAAGAGGCGTCGGGCAGAGTCCACTGACAGTGGACCTTCAACTTCCACGCAGTCTTCTCCTGCGAAAAAGCCTCGCAAGCAAAAGGTGAGAACCAAGATCCTCTTTGAGGACGATTGGTCTGCTCAGCCTAGTGATCGCCTAGACAGAATTCGCTATGAGCGGTTCGTCAAAAGCATCACACGCTCGCCGCGAGCAGAGGACGAGGAGTCGGAGCCGGAGTCGGAGTCCTCCGAGATGTCGCCGGCAGAATGGGGGGAGATGCTCGGCCTCATCACGCGGGGACTGGAGGACGAACCGATCGTCCTCCACTGCTTCGAGACGCTTGAAGGGCTCGAAGACGACACCGATGGAAGTCTTCAATCGCCATAAGGCAGAGACTGGCATCAATCTGTCCATGTGTGGCTTCTACTGGCACAGCACTAGACTGGCCAGGGCCGGGACTGATTGGATCTTTAATGAGGGGAAACCATTGTTTCAATCTAAATGTACCAATAATCTTGTATCTTGGGATATTGTAAGAGAAATGTTGTTTCAATTCAAAAAAACAATGGATCAAAAATATAGAAATATATTGTATCATGGGATGAGGGGGGCTGATTGTGATAAATGCAAATACTGGGATAATGTGTACTTGGAACACTTGGCTAACATTGAAACAAATGATGTTGTTATGCAGGACATT

TCTGATGAAGAAATGTTGAGTGCTGCCATGGAGGTAGATGGCACCCACGAATAGAAAGCCTGGTGGCTGGGTGGTGCCTGGATTCAAATACCTGGGACCGTTTAATCCATTAAATAACGGGGAACCTGTAAATTTTGTTGACGCCGCTGCTAAGGCGCATGATCAAGCCTATCAAGATATTATTGATTCTGGTCAAAATCCTTACTTTAGCTTCAATAAAGCTGACGCTGATTTTATTGAGACTCTGTCTCACGACTCTTCTGTTGGTAGTTGGCTGGGCCGCTCTGCGTTCCATCTAAAAAAGGTACTTGCTCCACACTTGCCTCAGGACGGTGGAGAACAGCCGGGGCCTTCAGGGGCAAAGAAGCCGCGCCTTGATCCAAAGCAGGATCGAGCTCAAAAGCGGAAGCTTTACTTTGCTCGCTCCAACAAACAAGCCAAGCAACCGAGAATGTCTGCAGGCGCAGAACCTACAGAAGACGTGGCCGGATCTGCGGATCCCGCGGCCGAGGGAAGGGCGGGAGGAGCCAATGGAGGTGGTGGAGGCATGGGAGGAGGTGGAGGACATGGAGTGGGAGTAAGCACGGGCGGGTGGCAGGCGGGAACTGTGTTTACTGATAGTGCCATTATCACCACGGGAACACGTCAGTGGTACGCGCCCATTTACAATGGTCATTTGTACAAACTGCTGAAACCAGATTCTGGCCTTCATAGCAATTGGACTGGTATCAGCACACCATGGGGATATTTCAATTTCAATGAGTATGACGCGCACTTTTCTCCACAAGACTGGCAGCGTTTGCTGAACGAATATAAACGCTGGCGTCCAAAGTCCATGCATGTGAAGATCTACAACTTGCAAATTAAGCAAGTGGTCACATTGGGTGCGGACACGTTGTATAATAATGATTTGACTGCTGGTGTGCATATATTCTGTGATGGGTCGCATCAGTTCCCATATTCTCAACATCCATGGGATACTGGTGTTATGCCTGAACTT

CCAAATAAGGTATGGAAGCTATCACAGTATGCCTATTTCCAGGCGCTAAATGATCTTATAGATACAAACGCAGGCAGCAACGCAGATGTTGGAAACATTGAAAAACATATAATGAAAGCTGCGCCGTTTTACATTCTGGAAAGCGCTAGTCATCAAGTACTTCGAACCGGAGAAGAAACCAGTTTTACATTTGAATTTGACTGTGGGTGGGTTACCAATGATAGAGTGTATTGTCCACCACAGGCAGATTTTAATCCTTTAGTAAACACGCGCCGATATTTTCCCACAAGACAAACTGGAGCGGGCGCCGCAAACAAATTTACATACCATAGATACAATCCATATAACAAACCGAGCATCTGGATGCCTGGTCCTAGCTTGGGATACATTGGAGCCACTCAAACATCTGCAAATCCAGAAAAAGCACGAGGACCTGTCACTGTTGTCTATCAGCCACCGTATACAACTGCAGACGGAGCCAGCGCAAACACTGAACAAAACAAGGACCAGCAAACACTGCTACCAAAATTGACTGAAGCGTCTATGCAAAATGCTGGATTTGACGTGGCGCCTGTTAACAACGCATGCAATGATCTTGGATACATCACTATGGCATACGATTCCAGGGAAGAAAGTGAGCAAAGTACAACAATCACAGTCAAAGACGTGGACGCGGATTTTGCTAGATATGGGGCTGTGTTTGTACAAGACGGAACAAACAAGGAAATCAAAGCAGACGGAACTGCGCTCACTACACAAGACAGAAAAAACTTTTCAGAACTTAGAAATGTATGGATGTATCCAAATCAGGCATGGGACGCAACTCCCATATCGAGAGATACTCCGATATGGGTAAAGTCGCCAAGAACAGATAGGCACACCATGTTTGATACCTCAGACGGAACGATTCCAATGGCACATCCACCGGGGACCATTTTTGTAAAGGTGGCAAAAATACCAATCCCAGGCGACCAAGACTCATATCTGAATCTATATGTGA

CAGGACAGGTCACTTGCCAAGTCATCTGGGAGGCAGAAAGATTCCAGACCAAAAACTGGAGACCAGAAGTACGAACCGACGTGTCGGCGTTTTCAGACCCCACATTATACACTGTCAATGCGGCGGGGGTATACAATACACCAGAAACATTCAAGGAGGGGATGCCAACAAAGCGCGGGATCAATCGTGTACTGTAACATGGATGTATGTATATACAAGAACGAGACAATAAAGCTTTACATTTTGATATATCTTTATACAGCACCTGTTGTTCACGTCATCATATGTTAATTTTATCATGGCGCGGCTTCTTTGCCCCTGAAGGCCCCGGCTGTTCTCCACCGTCCTGAGGCAAAGAAGCCGCGCCTTGATCCAAAGCAGGATCGAGCTCAAAAGCGGAAGCTTTACTTGCTCGCTCCAACAAACAAGCCAAGCCAAC

....................................................................................................................................................................................................................................................................................................................................................................................................................................................................CCGGGTCAGTCTGAGCCTGCTGAACAATCTGCATTCCTTGAGACCAGAGGACCAATGCAGGCATACACCCTAATACTGGCACGCACTGCTTATACGGCGCCATTTAGCTTTTTCT...................................................................................GTGATGGGTGGAGAAGGCCTGTCAAGGTACAACGCCAAAGCCATCCGGTCTCAATTAGCCTTCAAGTGGCTAG.....................................................................................................................................................................................................................................................................................

........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................

..................AGACCGGCCATCGAGGTAGATCGCAGCCACGAATAGAAAGCCTGGTGGCTGGGTGGTGCCTGGATTCAAGTACCTGGGACCGTTTAATCCATTAAGTAACGGGGAACCTGTAAATTTTGTTG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGGACTGGTATCAGCACACCATGGGGATATTTCAATTTCAATGAGTATGACGCGCACTTTTCTCCACAAGACTGGCAGCGTTTGCTGAACGAATATAAACGCTGGCGTCCAAAGTCCATGCATGTGAAGATCTACAACTTGCAAATTAAGCAAGTGGTCACATTGGGTGCGGACACGTTGTAT----------AAACTGCTGGTGTGCATATATTCTGTGATGGGTGGGATCAGTTGTCATATTCTGAACATCCATGGGATAGGGGGGCTATGACTGAGCTT

CCATATAAGGTATGGAAGCTAT........................................................................................................TTTTACATTCTGGAAAGCGCTAGTCATCAAGTACTTCGAACCGGAGAAGAAACCAGTTTTACTTTTGAATTTGACTGTGGGTGGGTTACCAATGACAGAGTATATTGTCCACCG--------TTTTAATCCTTTAGTAAACACGCGTCGATATTTTCCTACAAGACAAACGGGGACTGGTGCAAACAATAAATTWACATAYKACAGATACAATCCATACAACAAACCAAGCATCTGGATGCCTGGTCCTAGCCCAGGCTACATTGGAAGCACACAGACAT....................................................................................................................................................................CATGTTAACAACGCTTGCAATGATCTTGGATACATCACTATGGCATACGATTCCAGAGAGGAAAGTGAGCAAAGTACAACAATCACAGTCAAAGACGTAGACGCCGACTTTGCTAGATATGGGGCTGTGTTTGTAC......................................................................................................................................................................................................................................................................................................

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D1R54_gp1

MAIPLAAVNDLMQFPGPCYTYVLKFPYADWRFNEIRLQRALGYPTHDILDNPDIYASMPGQSEPAEQSAFLETRGPMQAYTLLLARTAYTAAFSFFSAKQGKCPPAASIFTQCELGERDLHVHVVMGGEGLSRYNAKAIRSQLAFKWLDAIQSQLEYNLKYGHTADKVFCDVLIDCCYRAKQTCVDMKTQYCDVLQYKSRSGEMYACRVDALDYICNYLLCKNLRFFTHVDPEKATPFVAYFPCTNKTYAASFVNGKWIPIELRKQWLQYLRDSVVKKLEPVFSGDIFGDLPKVPNAKWQTDSASPSSSKPTKRETLMLDCIDRCEKNHYLTYEDLVDGCPDLVIMLESQPGGSRLIETLIQMVHIKLCQKYTALSYIRMRYEPIELIPSNKAYQLLAFQGYNPFQAFHWLCCVLNKTAGKQNTVSFFGPASTGKTNMAKSIVNAAKLYGCVNHQNKNFVFNDCASKFVCWWEECLMHSDWVEQAKCILGGTEFRIDRKHRDSMLLPQTPLIISTNNDIYTVVGGNTVSHVHAKPLKERVVQLNFMKQLQPTFGEITPEDVIALLQACIDRFPDLTLAGFCAQWNLEKVPNDFPLANLCPGHVQDFVLYEHGLCTACGGYYPLEERDRGDVEAAVTAEPAPAEFKVPGKLLLIWVLPFRVVSADTDTDSFITATPPNTPTKRRRAESTDSGPSTSTQSSPAKKPRKQKVRTKILFEDDWSAQPSDRLDRIRYERFVKSITRSPRAEDEESEPESESSEMSPAEWGEMLGLITRGLEDEPIVLHCFETLEGLEDDTDGSLQSP*

..........................................................PGQSEPAEQSAFLETRGPMQAYTLILARTAYTAPFSFFX...........................VMGGEGLSRYNAKAIRSQLAFKWLX..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................

D1R54_gp2

MSGSSKASHARREQRTRSRSRSRSPPRCRRQNGGRCSASSRGDWRTNRSSSTASRRLKGSKTTPMEVFNRHKAETGINLSMCGFYWHSTRLARAGTDWIFNEGKPLFQSKCTNNLVSWDIVREMLFQFKKTMDQKYRNILYHGMRGADCDKCKYWDNVYLEHLANIETNDVVMQDISDEEMLSAAMEVDGTHE*

......................................................................................................................................................................................RPAIEVDRSHE*

D1R54_gp3

MAPTNRKPGGWVVPGFKYLGPFNPLNNGEPVNFVDAAAKAHDQAYQDIIDSGQNPYFSFNKADADFIETLSHDSSVGSWLGRSAFHLKKVLAPHLPQDGGEQPGPSGAKKPRLDPKQDRAQKRKLYFARSNKQAKQPRMSAGAEPTEDVAGSADPAAEGRAGGANGGGGGMGGGGGHGVGVSTGGWQAGTVFTDSAIITTGTRQWYAPIYNGHLYKLLKPDSGLHSNWTGISTPWGYFNFNEYDAHFSPQDWQRLLNEYKRWRPKSMHVKIYNLQIKQVVTLGADTLYNNDLTAGVHIFCDGSHQFPYSQHPWDTGVMPELPNKVWKLSQYAYFQALNDLIDTNAGSNADVGNIEKHIMKAAPFYILESASHQVLRTGEETSFTFEFDCGWVTNDRVYCPPQADFNPLVNTRRYFPTRQTGAGAANKFTYHRYNPYNKPSIWMPGPSLGYIGATQTSANPEKARGPVTVVYQPPYTTADGASANTEQNKDQQTLLPKLTEASMQNAGFDVAPVNNACNDLGYITMAYDSREESEQSTTITVKDVDADFARYGAVFVQDGTNKEIKADGTALTTQDRKNFSELRNVWMYPNQAWDATPISRDTPIWVKSPRTDRHTMFDTSDGTIPMAHPPGTIFVKVAKIPIPGDQDSYLNLYVTGQVTCQVIWEAERFQTKNWRPEVRTDVSAFSDPTLYTVNAAGVYNTPETFKEGMPTKRGINRVL*

IAATNRKPGGWVVPGFKYLGPFNPLSNGEPVNFVX................................................................................................................................................................................................WTGISTPWGYFNFNEYDAHFSPQDWQRLLNEYKRWRPKSMHVKIYNLQIKQVVTLGADTLY---XTAGVHIFCDGWDQLSYSEHPWDRGAMTELPYKVWKLX..................................FYILESASHQVLRTGEETSFTFEFDCGWVTNDRVYCPP--XFNPLVNTRRYFPTRQTGTGANNKXTYXRYNPYNKPSIWMPGPSPGYIGSTQTX......................................................HVNNACNDLGYITMAYDSREESEQSTTITVKDVDADFARYGAVFVX...................................................................................................................................................................

Alignment Detailed Statistics


	Begin	End	Coverage	Score	Concordance	Matches	Identities	I/D/M/F^*	Stop Codons
NT	453	4706	18.9%	1746	87.8%	1012 (98.3%)	950 (92.2%)	0/18
Mutations:	525T>A 552G>C 677A>G 3021T>A 3022G>C 3024T>G 3030G>C 3040G>C 3044C>G 3088A>G 3114A>G 3902_3911delAATAATGATT 3912T>A 3913G>A 3945C>G 3947C>G 3955C>G 3956C>T 3965C>G 3981C>G 3982T>G 3985T>G 3987T>C 3992C>A 3997A>G 4004A>T 4189A>T 4222T>C 4228G>A 4240A>G 4241_4248delCAGGCAGA 4273C>T 4285C>T 4297T>G 4300A>G 4301G>A 4303G>T 4306C>T 4309C>A 4310G>A 4311C>A 4312A>C 4315C>T 4321T>W 4327C>Y 4328C>K 4330T>C 4345T>C 4354G>A 4379T>C 4380T>C 4381G>A 4384A>C 4394G>A 4395C>G 4399T>A 4402A>G 4572C>A 4585A>T 4627G>A 4630A>G 4669G>A 4675G>C 4678T>C
CDS

D1R54_gp1	59	149	8.0%	397	95.0%	64 (100%)	60 (93.8%)	0/0/0/0	0
Protein mutations:	L83I (525T>A) A92P (552G>C)
Codon mutations:	TTA83ATA (525T>A) GCA92CCA (552G>C) AGA133AGG (677A>G)
D1R54_gp2	183	194	6.2%	44	61.1%	12 (100%)	7 (58.3%)	0/0/0/0	1
Protein mutations:	S183R (3021T>A) A184P (3022G>C 3024T>G) M186I (3030G>C) G190R (3040G>C) T191S (3044C>G)
Codon mutations:	AGT183AGA (3021T>A) GCT184CCG (3022G>C 3024T>G) ATG186ATC (3030G>C) GGC190CGC (3040G>C) ACC191AGC (3044C>G)
D1R54_gp3	1	557	38.2%	1604	76.9%	270 (98.2%)	247 (89.8%)	0/5/4/2	0
Protein mutations:	M1I (3040G>C) P3A (3044C>G) N26S (3114A>G) N289_D291del (3902_3911delAATAATGATT) S303W (3945C>G) H304D (3947C>G) F306L (3955C>G) P307S (3956C>T) Q310E (3965C>G) T315R (3981C>G 3982T>G) V317A (3987T>C) P319T (3992C>A) N323Y (4004A>T) Q402_A403del (4241_4248delCAGGCAGA) A422T (4301G>A 4303G>T) A425N (4310G>A 4311C>A 4312A>C) L448P (4379T>C 4380T>C 4381G>A) A453S (4394G>A 4395C>G) P512H (4572C>A)
Codon mutations:	ATG1ATC (3040G>C) CCC3GCC (3044C>G) AAA17AAG (3088A>G) AAT26AGT (3114A>G) AAT289_GAT291del (3902_3911delAATAATGATT) TTG292-AA (3902_3911delAATAATGATT 3912T>A 3913G>A) TCG303TGG (3945C>G) CAT304GAT (3947C>G) TTC306TTG (3955C>G) CCA307TCA (3956C>T) CAA310GAA (3965C>G) ACT315AGG (3981C>G 3982T>G) GGT316GGG (3985T>G) GTT317GCT (3987T>C) CCT319ACT (3992C>A) GAA320GAG (3997A>G) AAT323TAT (4004A>T) ACA384ACT (4189A>T) GAT395GAC (4222T>C) GTG397GTA (4228G>A) CCA401CCG (4240A>G) CAG402_GCA403del (4241_4248delCAGGCAGA) GAT404--T (4241_4248delCAGGCAGA) CGC412CGT (4273C>T) CCC416CCT (4285C>T) ACT420ACG (4297T>G) GGA421GGG (4300A>G) GCG422ACT (4301G>A 4303G>T) GGC423GGT (4306C>T) GCC424GCA (4309C>A) GCA425AAC (4310G>A 4311C>A 4312A>C) AAC426AAT (4315C>T) TTT428TTW (4321T>W) TAC430TAY (4327C>Y) CAT431KAC (4328C>K 4330T>C) TAT436TAC (4345T>C) CCG439CCA (4354G>A) TTG448CCA (4379T>C 4380T>C 4381G>A) GGA449GGC (4384A>C) GCC453AGC (4394G>A 4395C>G) ACT454ACA (4399T>A) CAA455CAG (4402A>G) CCT512CAT (4572C>A) GCA516GCT (4585A>T) AGG530AGA (4627G>A) GAA531GAG (4630A>G) GTG544GTA (4669G>A) GCG546GCC (4675G>C) GAT547GAC (4678T>C)
D1R54_gp4	90	419	41.2%	1360	75.3%	235 (97.9%)	216 (90.0%)	0/5/4/2	0
Protein mutations:	N151_D153del (3902_3911delAATAATGATT) S165W (3945C>G) H166D (3947C>G) F168L (3955C>G) P169S (3956C>T) Q172E (3965C>G) T177R (3981C>G 3982T>G) V179A (3987T>C) P181T (3992C>A) N185Y (4004A>T) Q264_A265del (4241_4248delCAGGCAGA) A284T (4301G>A 4303G>T) A287N (4310G>A 4311C>A 4312A>C) L310P (4379T>C 4380T>C 4381G>A) A315S (4394G>A 4395C>G) P374H (4572C>A)
Codon mutations:	AAT151_GAT153del (3902_3911delAATAATGATT) TTG154-AA (3902_3911delAATAATGATT 3912T>A 3913G>A) TCG165TGG (3945C>G) CAT166GAT (3947C>G) TTC168TTG (3955C>G) CCA169TCA (3956C>T) CAA172GAA (3965C>G) ACT177AGG (3981C>G 3982T>G) GGT178GGG (3985T>G) GTT179GCT (3987T>C) CCT181ACT (3992C>A) GAA182GAG (3997A>G) AAT185TAT (4004A>T) ACA246ACT (4189A>T) GAT257GAC (4222T>C) GTG259GTA (4228G>A) CCA263CCG (4240A>G) CAG264_GCA265del (4241_4248delCAGGCAGA) GAT266--T (4241_4248delCAGGCAGA) CGC274CGT (4273C>T) CCC278CCT (4285C>T) ACT282ACG (4297T>G) GGA283GGG (4300A>G) GCG284ACT (4301G>A 4303G>T) GGC285GGT (4306C>T) GCC286GCA (4309C>A) GCA287AAC (4310G>A 4311C>A 4312A>C) AAC288AAT (4315C>T) TTT290TTW (4321T>W) TAC292TAY (4327C>Y) CAT293KAC (4328C>K 4330T>C) TAT298TAC (4345T>C) CCG301CCA (4354G>A) TTG310CCA (4379T>C 4380T>C 4381G>A) GGA311GGC (4384A>C) GCC315AGC (4394G>A 4395C>G) ACT316ACA (4399T>A) CAA317CAG (4402A>G) CCT374CAT (4572C>A) GCA378GCT (4585A>T) AGG392AGA (4627G>A) GAA393GAG (4630A>G) GTG406GTA (4669G>A) GCG408GCC (4675G>C) GAT409GAC (4678T>C)
Proteins

NS1 (YP_009507354.1)	59	149	8.0%	397	95.0%	64 (100%)	60 (93.8%)	0/0/0/0	0
Protein mutations:	L83I (525T>A) A92P (552G>C)
Codon mutations:	TTA83ATA (525T>A) GCA92CCA (552G>C) AGA133AGG (677A>G)
NP (YP_009507355.1)	183	194	6.2%	44	61.1%	12 (100%)	7 (58.3%)	0/0/0/0	1
Protein mutations:	S183R (3021T>A) A184P (3022G>C 3024T>G) M186I (3030G>C) G190R (3040G>C) T191S (3044C>G)
Codon mutations:	AGT183AGA (3021T>A) GCT184CCG (3022G>C 3024T>G) ATG186ATC (3030G>C) GGC190CGC (3040G>C) ACC191AGC (3044C>G)
VP1 (YP_009507356.1)	1	557	38.2%	1604	76.9%	270 (98.2%)	247 (89.8%)	0/5/4/2	0
Protein mutations:	M1I (3040G>C) P3A (3044C>G) N26S (3114A>G) N289_D291del (3902_3911delAATAATGATT) S303W (3945C>G) H304D (3947C>G) F306L (3955C>G) P307S (3956C>T) Q310E (3965C>G) T315R (3981C>G 3982T>G) V317A (3987T>C) P319T (3992C>A) N323Y (4004A>T) Q402_A403del (4241_4248delCAGGCAGA) A422T (4301G>A 4303G>T) A425N (4310G>A 4311C>A 4312A>C) L448P (4379T>C 4380T>C 4381G>A) A453S (4394G>A 4395C>G) P512H (4572C>A)
Codon mutations:	ATG1ATC (3040G>C) CCC3GCC (3044C>G) AAA17AAG (3088A>G) AAT26AGT (3114A>G) AAT289_GAT291del (3902_3911delAATAATGATT) TTG292-AA (3902_3911delAATAATGATT 3912T>A 3913G>A) TCG303TGG (3945C>G) CAT304GAT (3947C>G) TTC306TTG (3955C>G) CCA307TCA (3956C>T) CAA310GAA (3965C>G) ACT315AGG (3981C>G 3982T>G) GGT316GGG (3985T>G) GTT317GCT (3987T>C) CCT319ACT (3992C>A) GAA320GAG (3997A>G) AAT323TAT (4004A>T) ACA384ACT (4189A>T) GAT395GAC (4222T>C) GTG397GTA (4228G>A) CCA401CCG (4240A>G) CAG402_GCA403del (4241_4248delCAGGCAGA) GAT404--T (4241_4248delCAGGCAGA) CGC412CGT (4273C>T) CCC416CCT (4285C>T) ACT420ACG (4297T>G) GGA421GGG (4300A>G) GCG422ACT (4301G>A 4303G>T) GGC423GGT (4306C>T) GCC424GCA (4309C>A) GCA425AAC (4310G>A 4311C>A 4312A>C) AAC426AAT (4315C>T) TTT428TTW (4321T>W) TAC430TAY (4327C>Y) CAT431KAC (4328C>K 4330T>C) TAT436TAC (4345T>C) CCG439CCA (4354G>A) TTG448CCA (4379T>C 4380T>C 4381G>A) GGA449GGC (4384A>C) GCC453AGC (4394G>A 4395C>G) ACT454ACA (4399T>A) CAA455CAG (4402A>G) CCT512CAT (4572C>A) GCA516GCT (4585A>T) AGG530AGA (4627G>A) GAA531GAG (4630A>G) GTG544GTA (4669G>A) GCG546GCC (4675G>C) GAT547GAC (4678T>C)
VP2 (YP_009507357.1)	90	419	41.2%	1360	75.3%	235 (97.9%)	216 (90.0%)	0/5/4/2	0
Protein mutations:	N151_D153del (3902_3911delAATAATGATT) S165W (3945C>G) H166D (3947C>G) F168L (3955C>G) P169S (3956C>T) Q172E (3965C>G) T177R (3981C>G 3982T>G) V179A (3987T>C) P181T (3992C>A) N185Y (4004A>T) Q264_A265del (4241_4248delCAGGCAGA) A284T (4301G>A 4303G>T) A287N (4310G>A 4311C>A 4312A>C) L310P (4379T>C 4380T>C 4381G>A) A315S (4394G>A 4395C>G) P374H (4572C>A)
Codon mutations:	AAT151_GAT153del (3902_3911delAATAATGATT) TTG154-AA (3902_3911delAATAATGATT 3912T>A 3913G>A) TCG165TGG (3945C>G) CAT166GAT (3947C>G) TTC168TTG (3955C>G) CCA169TCA (3956C>T) CAA172GAA (3965C>G) ACT177AGG (3981C>G 3982T>G) GGT178GGG (3985T>G) GTT179GCT (3987T>C) CCT181ACT (3992C>A) GAA182GAG (3997A>G) AAT185TAT (4004A>T) ACA246ACT (4189A>T) GAT257GAC (4222T>C) GTG259GTA (4228G>A) CCA263CCG (4240A>G) CAG264_GCA265del (4241_4248delCAGGCAGA) GAT266--T (4241_4248delCAGGCAGA) CGC274CGT (4273C>T) CCC278CCT (4285C>T) ACT282ACG (4297T>G) GGA283GGG (4300A>G) GCG284ACT (4301G>A 4303G>T) GGC285GGT (4306C>T) GCC286GCA (4309C>A) GCA287AAC (4310G>A 4311C>A 4312A>C) AAC288AAT (4315C>T) TTT290TTW (4321T>W) TAC292TAY (4327C>Y) CAT293KAC (4328C>K 4330T>C) TAT298TAC (4345T>C) CCG301CCA (4354G>A) TTG310CCA (4379T>C 4380T>C 4381G>A) GGA311GGC (4384A>C) GCC315AGC (4394G>A 4395C>G) ACT316ACA (4399T>A) CAA317CAG (4402A>G) CCT374CAT (4572C>A) GCA378GCT (4585A>T) AGG392AGA (4627G>A) GAA393GAG (4630A>G) GTG406GTA (4669G>A) GCG408GCC (4675G>C) GAT409GAC (4678T>C)

^*: Inserts / Deletes / Misaligned / Frameshifts

Analysis details

This analysis was performed with panviral2.43