Version 2.16.3
Genome Detective Platform

NGS Details (SRR3458562_Metagenome_example): Gemsvirus gv5004652

Assembly

2530 (9 contig(s))
49.8
1269
81.88 rpm (after QC)
1
de novo + reference guided assembly
Bcf Tools

Coverage Map

Variant Tables

Assignment

Gemsvirus gv5004652 (Taxonomy ID: 2955946)
85.1005
78.7781
1
45

Alignment

3499.0 (NT) + 3319.0 (AA) = 6818.0
74.4079
Local, heuristic, nucleotide (BLASTN)

Alignment Detailed Statistics

BeginEndCoverageScoreConcordanceMatchesIdentitiesI/D/M/F*Stop Codons
NT14667330367.7%349970.4%2513 (98.4%)2159 (84.5%)24/17
Mutations:14673C>A, 14676T>G, 14679C>T, 14682A>G, 14685A>T, 14688T>C, 14691T>G, 14692G>T, 14702C>T, 14705T>G, 14709C>T, 14721T>C, 14735A>T, 14747G>A, 14748G>A, 14752C>Y, 14753A>G, 14754G>A, 14755C>G, 14756T>C, 14759C>A, 14769C>T, 14772C>T, 14774G>C, 25881G>A, 28184A>G, 28199T>A, 28253A>T, 28256T>A, 28293C>A, 28294A>G, 28304T>A, 28306G>T, 28308G>T, 28314G>A, 28323C>A, 28330G>C, 28334G>A, 28337A>T, 28355G>A, 28362T>C, 28538A>G, 28539A>T, 28540T>G, 28547G>A, 28548C>G, 28553G>A, 28555C>G, 28556G>A, 28558T>C, 28561A>T, 28567G>T, 28568T>C, 28570C>T, 28571C>G, 28573G>T, 28574C>G, 28575A>G, 28576T>C, 28577C>A, 28580C>G, 28582G>T, 28583A>G, 28584G>C, 28585A>T, 28586G>T, 28587T>G, 28588A>C, 28594C>A, 28598C>T, 28599T>A, 28600G>C, 28601T>C, 28602A>G, 28604G>A, 28607A>G, 28613G>T, 28619A>C, 28620G>A, 28628G>A, 28634G>T, 28636C>A, 28640G>T, 28643T>A, 28645C>A, 28647G>C, 28648A>T, 28649A>G, 28652C>G, 28653G>T, 28654C>T, 28656G>A, 28658G>T, 28659C>T, 28660T>C, 28661C>G, 28663T>A, 28663_28664insTGCGTG, 28667G>A, 28673C>T, 28679A>C, 28680C>T, 28681G>T, 28682G>A, 28685A>T, 28689G>T, 28690C>T, 28692A>G, 28693G>C, 28697T>A, 28698T>G, 28699T>A, 28700C>A, 28702C>T, 28703G>A, 28706G>A, 28709A>T, 28718C>A, 28721A>T, 28724A>T, 28727A>G, 28731G>A, 28732A>C, 28736C>G, 28738G>T, 28745G>T, 28747T>C, 28749G>T, 28750G>C, 28751G>T, 28752G>T, 28753_28754insCGGATCCAT, 28754A>T, 28757A>T, 28758A>G, 28760G>A, 28761C>T, 28763G>T, 28765G>C, 28768T>G, 28769C>A, 28772C>G, 28773A>T, 28776T>A, 28777T>G, 28781G>T, 28782C>A, 28783A>C, 28784G>C, 28785C>A, 28788A>T, 28789C>T, 28790T>G, 28793G>A, 28796T>A, 28797T>A, 28798C>G, 28799G>A, 28802A>T, 28803G>T, 28804A>C, 28807_28808insATGGGA, 28811A>T, 28812A>G, 28813C>T, 28816T>G, 28819C>G, 28820T>A, 28821G>T, 28822C>G, 28824C>G, 28829A>T, 28831A>C, 28832G>A, 28834T>A, 28835T>C, 28836G>A, 28837C>T, 28838G>A, 28841G>T, 28842T>A, 28843A>C, 28844G>A, 28847A>G, 28848A>G, 28850G>A, 28852T>C, 28856A>T, 28865G>T, 28867G>T, 28868A>C, 28877C>G, 28881A>T, 28882G>T, 28883C>A, 28895C>T, 28901A>C, 28903C>A, 28904C>G, 28906C>T, 28907T>C, 28909C>G, 28910C>G, 28911A>C, 28912T>A, 28919G>A, 28922G>T, 28923C>T, 28925A>G, 28926G>C, 28928G>C, 28931A>G, 28933C>T, 28937A>G, 28947T>C, 28948G>T, 28949A>T, 28953T>C, 28954C>T, 28956T>A, 28958A>T, 28960T>G, 28964G>T, 28967G>A, 28970T>C, 28973T>G, 28974T>C, 28975C>T, 28979G>C, 28980G>T, 28981T>C, 28982G>A, 28989T>C, 28990A>G, 28991_28993delTTT, 28994A>T, 28997A>T, 29003C>A, 29007C>T, 29008C>G, 29012C>A, 29017C>T, 29021T>A, 29022T>C, 29026A>C, 29027G>T, 29028G>A, 29030C>G, 29031A>C, 29032T>C, 29034T>G, 29036C>A, 29037C>G, 29038A>G, 29040C>A, 29042C>G, 29044G>T, 29045C>G, 29046T>G, 29047_29048insTGC, 29051G>C, 29052C>G, 29053C>A, 29054G>A, 29057G>A, 29060A>G, 29062C>A, 29063A>T, 29065A>C, 29066C>G, 29068C>T, 29069G>T, 29071T>C, 29074C>T, 29075C>T, 29076T>G, 29077G>C, 29081G>A, 29087T>A, 29088T>C, 29090G>A, 29094T>A, 29096C>G, 29098C>T, 29099T>G, 29101C>A, 29102T>G, 29105G>A, 29107T>C, 29108A>C, 29109C>G, 29111G>A, 29114A>G, 29115C>G, 29116A>C, 29117G>A, 29119G>T, 29120T>G, 29122C>T, 29123G>A, 29129C>A, 29135C>T, 29138G>T, 29141G>A, 29143T>A, 29144G>A, 29145A>G, 29147G>C, 29149A>C, 29157A>G, 29158C>G, 29159G>A, 29696G>A, 29705T>A, 29706T>G, 29730T>G, 29880G>A, 29907G>C, 29910A>G, 29913C>T, 29919A>T, 29920T>C, 29927T>C, 29931C>T, 29940G>A, 30885A>G, 30935A>G, 31078A>G, 31099T>G, 31143C>T, 31179A>T, 31194G>A, 31195A>T, 31200C>G, 31203G>A, 31206G>A, 31215T>G, 31221G>T, 31224G>A, 31237C>T, 31830C>T, 31832A>G, 31834C>T, 31837C>T, 31841T>G, 31844delC, 31846T>C, 31860T>C, 31865T>A, 31885G>A, 31888T>C, 31934T>G, 31938delT, 31962C>A, 32043C>T, 32048C>A, 32082C>T, 32087G>A, 32088_32099delACGGTCGCGGAA, 32981C>T, 33006T>C, 33025T>C
CDS
13425.6%18072.0%34 (100%)26 (76.5%)0/0/1/00
Protein mutations:V4F (14759C>A), S5A (14754G>A 14755C>G 14756T>C), L8F (14747G>A), L12I (14735A>T), D23N (14702C>T), T26N (14691T>G 14692G>T), D28E (14685A>T)
Codon mutations:GTT4TTT (14759C>A), AGC5GCT (14754G>A 14755C>G 14756T>C), TGT6CRT (14752C>Y 14753A>G), TAC7TAT (14748G>A), CTC8TTC (14747G>A), TTA12ATA (14735A>T), TTA16TTG (14721T>C), GCG20GCA (14709C>T), AGG22CGG (14705T>G), GAT23AAT (14702C>T), ACA26AAC (14691T>G 14692G>T), GGA27GGG (14688T>C), GAT28GAA (14685A>T), AAT29AAC (14682A>G), CAG30CAA (14679C>T), ATA31ATC (14676T>G), CCG32CCT (14673C>A)
15215.7%35197.5%52 (100%)51 (98.1%)0/0/0/00
182.0%3683.7%8 (100%)7 (87.5%)0/0/0/00
15136552.8%72549.5%214 (96.0%)112 (50.2%)8/1/0/00
Protein mutations:V155P (29157A>G 29158C>G), S158A (29147G>C 29149A>C), I159T (29144G>A 29145A>G), S160C (29141G>A 29143T>A), A167T (29120T>G 29122C>T), H168N (29117G>A 29119G>T), C169A (29114A>G 29115C>G 29116A>C), G171A (29108A>C 29109C>G), N172D (29105G>A 29107T>C), V174F (29099T>G 29101C>A), E175N (29096C>G 29098C>T), Q176L (29094T>A), Q178R (29087T>A 29088T>C), Q182A (29075C>T 29076T>G 29077G>C), D183N (29074C>T), I184V (29069G>T 29071T>C), V185I (29066C>G 29068C>T), F186V (29063A>T 29065A>C), A187S (29060A>G 29062C>A), G190S (29051G>C 29052C>G 29053C>A), E191_E192insA (29047_29048insTGC), E192A (29045C>G 29046T>G), L193I (29042C>G 29044G>T), C194F (29040C>A), W195P (29036C>A 29037C>G 29038A>G), E196A (29034T>G), M197G (29030C>G 29031A>C 29032T>C), A198V (29027G>T 29028G>A), C199G (29026A>C), E200G (29021T>A 29022T>C), D202N (29017C>T), G205H (29007C>T 29008C>G), K210del (28991_28993delTTT), Y211R (28989T>C 28990A>G), T214E (28979G>C 28980G>T 28981T>C), E216S (28973T>G 28974T>C 28975C>T), T221P (28958A>T 28960T>G), Y222F (28956T>A), D223S (28953T>C 28954C>T), H225S (28947T>C 28948G>T), V230I (28931A>G 28933C>T), I231M (28928G>C), A232G (28925A>G 28926G>C), G233E (28922G>T 28923C>T), M237C (28910C>G 28911A>C 28912T>A), V238L (28907T>C 28909C>G), V239I (28904C>G 28906C>T), V240L (28901A>C 28903C>A), L247K (28881A>T 28882G>T), H252K (28865G>T 28867G>T), I257V (28850G>A 28852T>C), V258A (28847A>G 28848A>G), Y260V (28841G>T 28842T>A 28843A>C), A262M (28835T>C 28836G>A 28837C>T), T263S (28832G>A 28834T>A), S264A (28829A>T 28831A>C), G266A (28824C>G), A267H (28820T>A 28821G>T 28822C>G), D268H (28819C>G), M269L (28816T>G), V270T (28811A>T 28812A>G 28813C>T), A271_P272insSH (28807_28808insATGGGA), S273E (28802A>T 28803G>T 28804A>C), E275L (28796T>A 28797T>A 28798C>G), V278K (28788A>T 28789C>T), R279L (28784G>C 28785C>A), C280V (28781G>T 28782C>A 28783A>C), K282L (28776T>A 28777T>G), M283N (28772C>G 28773A>T), M285L (28768T>G), H286E (28763G>T 28765G>C), G287D (28760G>A 28761C>T), V288A (28757A>T 28758A>G), D289E (28754A>T), D289_T290insMDP (28753_28754insCGGATCCAT), T290K (28751G>T 28752G>T), P291E (28749G>T 28750G>C), I292V (28745G>T 28747T>C), L295I (28736C>G 28738G>T), S297V (28731G>A 28732A>C), V307I (28700C>A 28702C>T), K308S (28697T>A 28698T>G 28699T>A), L310A (28692A>G 28693G>C), A311K (28689G>T 28690C>T), R314K (28679A>C 28680C>T 28681G>T), D319_K320insHA (28663_28664insTGCGTG), K320Y (28661C>G 28663T>A), S321E (28658G>T 28659C>T 28660T>C), P322L (28656G>A), A323N (28652C>G 28653G>T 28654C>T), A326S (28643T>A 28645C>A), A329S (28634G>T 28636C>A), S334L (28619A>C 28620G>A), V340A (28601T>C 28602A>G), Q341V (28598C>T 28599T>A 28600G>C), A343S (28594C>A), Y345A (28586G>T 28587T>G 28588A>C), L347I (28580C>G 28582G>T), M349A (28574C>G 28575A>G 28576T>C), L350I (28571C>G 28573G>T), E351K (28568T>C 28570C>T), H352N (28567G>T), F354I (28561A>T), I355V (28556G>A 28558T>C), A356P (28553G>A 28555C>G), S358T (28547G>A 28548C>G), I361H (28538A>G 28539A>T 28540T>G)
Codon mutations:GGC154GGT (29159G>A), GTT155CCT (29157A>G 29158C>G), TCC158GCG (29147G>C 29149A>C), ATC159ACT (29144G>A 29145A>G), AGC160TGT (29141G>A 29143T>A), TCC161TCA (29138G>T), GCG162GCA (29135C>T), GCG164GCT (29129C>A), TCC166TCT (29123G>A), GCA167ACC (29120T>G 29122C>T), CAC168AAT (29117G>A 29119G>T), TGT169GCC (29114A>G 29115C>G 29116A>C), ATC170ATT (29111G>A), GGT171GCG (29108A>C 29109C>G), AAC172GAT (29105G>A 29107T>C), GCA173GCC (29102T>G), GTA174TTC (29099T>G 29101C>A), GAG175AAC (29096C>G 29098C>T), CAG176CTG (29094T>A), ATC177ATT (29090G>A), CAA178CGT (29087T>A 29088T>C), GGC180GGT (29081G>A), CAG182GCA (29075C>T 29076T>G 29077G>C), GAC183AAC (29074C>T), ATC184GTA (29069G>T 29071T>C), GTG185ATC (29066C>G 29068C>T), TTT186GTA (29063A>T 29065A>C), GCT187TCC (29060A>G 29062C>A), GGC188GGT (29057G>A), GGC189GGT (29054G>A), GGC190TCG (29051G>C 29052C>G 29053C>A), GAA191_GAG192insGCA (29047_29048insTGC), GAG192GCC (29045C>G 29046T>G), CTG193ATC (29042C>G 29044G>T), TGC194TTC (29040C>A), TGG195CCT (29036C>A 29037C>G 29038A>G), GAA196GCA (29034T>G), ATG197GGC (29030C>G 29031A>C 29032T>C), GCC198GTA (29027G>T 29028G>A), TGC199GGC (29026A>C), GAA200GGT (29021T>A 29022T>C), GAC202AAC (29017C>T), GCG203GCT (29012C>A), GGT205CAT (29007C>T 29008C>G), GCG206GCT (29003C>A), TCT208TCA (28997A>T), ACT209ACA (28994A>T), AAA210del (28991_28993delTTT), TAC211CGC (28989T>C 28990A>G), GAC213GAT (28982G>A), ACC214GAG (28979G>C 28980G>T 28981T>C), GAA216AGC (28973T>G 28974T>C 28975C>T), AAA217AAG (28970T>C), GCC218GCT (28967G>A), TCC219TCA (28964G>T), ACT221CCA (28958A>T 28960T>G), TAC222TTC (28956T>A), GAC223AGC (28953T>C 28954C>T), GCT224GCA (28949A>T), CAC225AGC (28947T>C 28948G>T), GGT228GGC (28937A>G), GTT230ATC (28931A>G 28933C>T), ATC231ATG (28928G>C), GCT232GGC (28925A>G 28926G>C), GGC233GAA (28922G>T 28923C>T), GGC234GGT (28919G>A), ATG237TGC (28910C>G 28911A>C 28912T>A), GTA238CTG (28907T>C 28909C>G), GTG239ATC (28904C>G 28906C>T), GTT240TTG (28901A>C 28903C>A), GAG242GAA (28895C>T), GCG246GCT (28883C>A), CTG247AAG (28881A>T 28882G>T), GCG248GCC (28877C>G), GCT251GCG (28868A>C), CAC252AAA (28865G>T 28867G>T), GCT255GCA (28856A>T), ATC257GTT (28850G>A 28852T>C), GTT258GCC (28847A>G 28848A>G), GGC259GGT (28844G>A), TAC260GTA (28841G>T 28842T>A 28843A>C), GGC261GGT (28838G>A), GCA262ATG (28835T>C 28836G>A 28837C>T), ACC263TCT (28832G>A 28834T>A), TCT264GCA (28829A>T 28831A>C), GGT266GCT (28824C>G), GCA267CAT (28820T>A 28821G>T 28822C>G), GAC268CAC (28819C>G), ATG269CTG (28816T>G), GTT270ACA (28811A>T 28812A>G 28813C>T), GCT271_CCG272insTCCCAT (28807_28808insATGGGA), TCT273GAA (28802A>T 28803G>T 28804A>C), GGC274GGT (28799G>A), GAA275CTT (28796T>A 28797T>A 28798C>G), GGC276GGT (28793G>A), GCA277GCC (28790T>G), GTA278AAA (28788A>T 28789C>T), CGC279CTG (28784G>C 28785C>A), TGC280GTA (28781G>T 28782C>A 28783A>C), AAG282CTG (28776T>A 28777T>G), ATG283AAC (28772C>G 28773A>T), GCG284GCT (28769C>A), ATG285CTG (28768T>G), CAC286GAA (28763G>T 28765G>C), GGC287GAT (28760G>A 28761C>T), GTT288GCA (28757A>T 28758A>G), GAT289GAA (28754A>T), GAT289_ACC290insATGGATCCG (28753_28754insCGGATCCAT), ACC290AAA (28751G>T 28752G>T), CCA291GAA (28749G>T 28750G>C), ATC292GTA (28745G>T 28747T>C), CTG295ATC (28736C>G 28738G>T), TCT297GTT (28731G>A 28732A>C), CAT298CAC (28727A>G), GGT299GGA (28724A>T), ACT300ACA (28721A>T), TCG301TCT (28718C>A), GTT304GTA (28709A>T), GGC305GGT (28706G>A), GAC306GAT (28703G>A), GTG307ATT (28700C>A 28702C>T), AAA308TCT (28697T>A 28698T>G 28699T>A), CTG310GCG (28692A>G 28693G>C), GCA311AAA (28689G>T 28690C>T), GCT312GCA (28685A>T), ATC313ATT (28682G>A), CGT314AAG (28679A>C 28680C>T 28681G>T), GTG316GTA (28673C>T), GGC318GGT (28667G>A), GAT319_AAG320insCACGCA (28663_28664insTGCGTG), AAG320TAC (28661C>G 28663T>A), AGC321GAA (28658G>T 28659C>T 28660T>C), CCG322CTG (28656G>A), GCG323AAC (28652C>G 28653G>T 28654C>T), ATT324ATC (28649A>G), TCT325AGT (28647G>C 28648A>T), GCA326TCT (28643T>A 28645C>A), ACC327ACA (28640G>T), GCC329TCA (28634G>T 28636C>A), ACC331ACT (28628G>A), TCT334TTG (28619A>C 28620G>A), GGC336GGA (28613G>T), GCT338GCC (28607A>G), GGC339GGT (28604G>A), GTA340GCG (28601T>C 28602A>G), CAG341GTA (28598C>T 28599T>A 28600G>C), GCT343TCT (28594C>A), TAC345GCA (28586G>T 28587T>G 28588A>C), TCT346AGC (28583A>G 28584G>C 28585A>T), CTG347ATC (28580C>G 28582G>T), CTG348CTT (28577C>A), ATG349GCC (28574C>G 28575A>G 28576T>C), CTG350ATC (28571C>G 28573G>T), GAA351AAG (28568T>C 28570C>T), CAC352AAC (28567G>T), TTT354ATT (28561A>T), ATC355GTT (28556G>A 28558T>C), GCC356CCT (28553G>A 28555C>G), AGC358ACT (28547G>A 28548C>G), ATT361CAC (28538A>G 28539A>T 28540T>G)
150840.8%145494.3%213 (100%)204 (95.8%)0/0/0/00
Protein mutations:Q67H (29919A>T), V70A (29927T>C), E406G (30935A>G), N454D (31078A>G), C461G (31099T>G), T493S (31195A>T), P507S (31237C>T)
Codon mutations:CTT4CTG (29730T>G), GGG54GGA (29880G>A), CTG63CTC (29907G>C), GGA64GGG (29910A>G), GGC65GGT (29913C>T), CAA67CAT (29919A>T), TTA68CTA (29920T>C), GTA70GCA (29927T>C), CGC71CGT (29931C>T), GAG74GAA (29940G>A), TCA389TCG (30885A>G), GAA406GGA (30935A>G), AAT454GAT (31078A>G), TGT461GGT (31099T>G), AGC475AGT (31143C>T), CGA487CGT (31179A>T), TCG492TCA (31194G>A), ACT493TCT (31195A>T), CTC494CTG (31200C>G), CCG495CCA (31203G>A), GTG496GTA (31206G>A), GTT499GTG (31215T>G), GGG501GGT (31221G>T), CAG502CAA (31224G>A), CCG507TCG (31237C>T)
132729.7%57396.3%93 (95.9%)90 (92.8%)0/4/0/01
Protein mutations:F280_R283del (32088_32099delACGGTCGCGGAA), A297S (32048C>A), M298I (32043C>T)
Codon mutations:TTC280_CGT283del (32088_32099delACGGTCGCGGAA), CTG284TTG (32087G>A), GCG285GCA (32082C>T), GCG297TCG (32048C>A), ATG298ATA (32043C>T), GCG325GCT (31962C>A)
Proteins
13425.6%18072.0%34 (100%)26 (76.5%)0/0/1/00
Protein mutations:V4F (14759C>A), S5A (14754G>A 14755C>G 14756T>C), L8F (14747G>A), L12I (14735A>T), D23N (14702C>T), T26N (14691T>G 14692G>T), D28E (14685A>T)
Codon mutations:GTT4TTT (14759C>A), AGC5GCT (14754G>A 14755C>G 14756T>C), TGT6CRT (14752C>Y 14753A>G), TAC7TAT (14748G>A), CTC8TTC (14747G>A), TTA12ATA (14735A>T), TTA16TTG (14721T>C), GCG20GCA (14709C>T), AGG22CGG (14705T>G), GAT23AAT (14702C>T), ACA26AAC (14691T>G 14692G>T), GGA27GGG (14688T>C), GAT28GAA (14685A>T), AAT29AAC (14682A>G), CAG30CAA (14679C>T), ATA31ATC (14676T>G), CCG32CCT (14673C>A)
15215.7%35197.5%52 (100%)51 (98.1%)0/0/0/00
Protein mutations:none
Codon mutations:none
182.0%3683.7%8 (100%)7 (87.5%)0/0/0/00
Protein mutations:none
Codon mutations:none
15136552.8%72549.5%214 (96.0%)112 (50.2%)8/1/0/00
Protein mutations:V155P (29157A>G 29158C>G), S158A (29147G>C 29149A>C), I159T (29144G>A 29145A>G), S160C (29141G>A 29143T>A), A167T (29120T>G 29122C>T), H168N (29117G>A 29119G>T), C169A (29114A>G 29115C>G 29116A>C), G171A (29108A>C 29109C>G), N172D (29105G>A 29107T>C), V174F (29099T>G 29101C>A), E175N (29096C>G 29098C>T), Q176L (29094T>A), Q178R (29087T>A 29088T>C), Q182A (29075C>T 29076T>G 29077G>C), D183N (29074C>T), I184V (29069G>T 29071T>C), V185I (29066C>G 29068C>T), F186V (29063A>T 29065A>C), A187S (29060A>G 29062C>A), G190S (29051G>C 29052C>G 29053C>A), E191_E192insA (29047_29048insTGC), E192A (29045C>G 29046T>G), L193I (29042C>G 29044G>T), C194F (29040C>A), W195P (29036C>A 29037C>G 29038A>G), E196A (29034T>G), M197G (29030C>G 29031A>C 29032T>C), A198V (29027G>T 29028G>A), C199G (29026A>C), E200G (29021T>A 29022T>C), D202N (29017C>T), G205H (29007C>T 29008C>G), K210del (28991_28993delTTT), Y211R (28989T>C 28990A>G), T214E (28979G>C 28980G>T 28981T>C), E216S (28973T>G 28974T>C 28975C>T), T221P (28958A>T 28960T>G), Y222F (28956T>A), D223S (28953T>C 28954C>T), H225S (28947T>C 28948G>T), V230I (28931A>G 28933C>T), I231M (28928G>C), A232G (28925A>G 28926G>C), G233E (28922G>T 28923C>T), M237C (28910C>G 28911A>C 28912T>A), V238L (28907T>C 28909C>G), V239I (28904C>G 28906C>T), V240L (28901A>C 28903C>A), L247K (28881A>T 28882G>T), H252K (28865G>T 28867G>T), I257V (28850G>A 28852T>C), V258A (28847A>G 28848A>G), Y260V (28841G>T 28842T>A 28843A>C), A262M (28835T>C 28836G>A 28837C>T), T263S (28832G>A 28834T>A), S264A (28829A>T 28831A>C), G266A (28824C>G), A267H (28820T>A 28821G>T 28822C>G), D268H (28819C>G), M269L (28816T>G), V270T (28811A>T 28812A>G 28813C>T), A271_P272insSH (28807_28808insATGGGA), S273E (28802A>T 28803G>T 28804A>C), E275L (28796T>A 28797T>A 28798C>G), V278K (28788A>T 28789C>T), R279L (28784G>C 28785C>A), C280V (28781G>T 28782C>A 28783A>C), K282L (28776T>A 28777T>G), M283N (28772C>G 28773A>T), M285L (28768T>G), H286E (28763G>T 28765G>C), G287D (28760G>A 28761C>T), V288A (28757A>T 28758A>G), D289E (28754A>T), D289_T290insMDP (28753_28754insCGGATCCAT), T290K (28751G>T 28752G>T), P291E (28749G>T 28750G>C), I292V (28745G>T 28747T>C), L295I (28736C>G 28738G>T), S297V (28731G>A 28732A>C), V307I (28700C>A 28702C>T), K308S (28697T>A 28698T>G 28699T>A), L310A (28692A>G 28693G>C), A311K (28689G>T 28690C>T), R314K (28679A>C 28680C>T 28681G>T), D319_K320insHA (28663_28664insTGCGTG), K320Y (28661C>G 28663T>A), S321E (28658G>T 28659C>T 28660T>C), P322L (28656G>A), A323N (28652C>G 28653G>T 28654C>T), A326S (28643T>A 28645C>A), A329S (28634G>T 28636C>A), S334L (28619A>C 28620G>A), V340A (28601T>C 28602A>G), Q341V (28598C>T 28599T>A 28600G>C), A343S (28594C>A), Y345A (28586G>T 28587T>G 28588A>C), L347I (28580C>G 28582G>T), M349A (28574C>G 28575A>G 28576T>C), L350I (28571C>G 28573G>T), E351K (28568T>C 28570C>T), H352N (28567G>T), F354I (28561A>T), I355V (28556G>A 28558T>C), A356P (28553G>A 28555C>G), S358T (28547G>A 28548C>G), I361H (28538A>G 28539A>T 28540T>G)
Codon mutations:GGC154GGT (29159G>A), GTT155CCT (29157A>G 29158C>G), TCC158GCG (29147G>C 29149A>C), ATC159ACT (29144G>A 29145A>G), AGC160TGT (29141G>A 29143T>A), TCC161TCA (29138G>T), GCG162GCA (29135C>T), GCG164GCT (29129C>A), TCC166TCT (29123G>A), GCA167ACC (29120T>G 29122C>T), CAC168AAT (29117G>A 29119G>T), TGT169GCC (29114A>G 29115C>G 29116A>C), ATC170ATT (29111G>A), GGT171GCG (29108A>C 29109C>G), AAC172GAT (29105G>A 29107T>C), GCA173GCC (29102T>G), GTA174TTC (29099T>G 29101C>A), GAG175AAC (29096C>G 29098C>T), CAG176CTG (29094T>A), ATC177ATT (29090G>A), CAA178CGT (29087T>A 29088T>C), GGC180GGT (29081G>A), CAG182GCA (29075C>T 29076T>G 29077G>C), GAC183AAC (29074C>T), ATC184GTA (29069G>T 29071T>C), GTG185ATC (29066C>G 29068C>T), TTT186GTA (29063A>T 29065A>C), GCT187TCC (29060A>G 29062C>A), GGC188GGT (29057G>A), GGC189GGT (29054G>A), GGC190TCG (29051G>C 29052C>G 29053C>A), GAA191_GAG192insGCA (29047_29048insTGC), GAG192GCC (29045C>G 29046T>G), CTG193ATC (29042C>G 29044G>T), TGC194TTC (29040C>A), TGG195CCT (29036C>A 29037C>G 29038A>G), GAA196GCA (29034T>G), ATG197GGC (29030C>G 29031A>C 29032T>C), GCC198GTA (29027G>T 29028G>A), TGC199GGC (29026A>C), GAA200GGT (29021T>A 29022T>C), GAC202AAC (29017C>T), GCG203GCT (29012C>A), GGT205CAT (29007C>T 29008C>G), GCG206GCT (29003C>A), TCT208TCA (28997A>T), ACT209ACA (28994A>T), AAA210del (28991_28993delTTT), TAC211CGC (28989T>C 28990A>G), GAC213GAT (28982G>A), ACC214GAG (28979G>C 28980G>T 28981T>C), GAA216AGC (28973T>G 28974T>C 28975C>T), AAA217AAG (28970T>C), GCC218GCT (28967G>A), TCC219TCA (28964G>T), ACT221CCA (28958A>T 28960T>G), TAC222TTC (28956T>A), GAC223AGC (28953T>C 28954C>T), GCT224GCA (28949A>T), CAC225AGC (28947T>C 28948G>T), GGT228GGC (28937A>G), GTT230ATC (28931A>G 28933C>T), ATC231ATG (28928G>C), GCT232GGC (28925A>G 28926G>C), GGC233GAA (28922G>T 28923C>T), GGC234GGT (28919G>A), ATG237TGC (28910C>G 28911A>C 28912T>A), GTA238CTG (28907T>C 28909C>G), GTG239ATC (28904C>G 28906C>T), GTT240TTG (28901A>C 28903C>A), GAG242GAA (28895C>T), GCG246GCT (28883C>A), CTG247AAG (28881A>T 28882G>T), GCG248GCC (28877C>G), GCT251GCG (28868A>C), CAC252AAA (28865G>T 28867G>T), GCT255GCA (28856A>T), ATC257GTT (28850G>A 28852T>C), GTT258GCC (28847A>G 28848A>G), GGC259GGT (28844G>A), TAC260GTA (28841G>T 28842T>A 28843A>C), GGC261GGT (28838G>A), GCA262ATG (28835T>C 28836G>A 28837C>T), ACC263TCT (28832G>A 28834T>A), TCT264GCA (28829A>T 28831A>C), GGT266GCT (28824C>G), GCA267CAT (28820T>A 28821G>T 28822C>G), GAC268CAC (28819C>G), ATG269CTG (28816T>G), GTT270ACA (28811A>T 28812A>G 28813C>T), GCT271_CCG272insTCCCAT (28807_28808insATGGGA), TCT273GAA (28802A>T 28803G>T 28804A>C), GGC274GGT (28799G>A), GAA275CTT (28796T>A 28797T>A 28798C>G), GGC276GGT (28793G>A), GCA277GCC (28790T>G), GTA278AAA (28788A>T 28789C>T), CGC279CTG (28784G>C 28785C>A), TGC280GTA (28781G>T 28782C>A 28783A>C), AAG282CTG (28776T>A 28777T>G), ATG283AAC (28772C>G 28773A>T), GCG284GCT (28769C>A), ATG285CTG (28768T>G), CAC286GAA (28763G>T 28765G>C), GGC287GAT (28760G>A 28761C>T), GTT288GCA (28757A>T 28758A>G), GAT289GAA (28754A>T), GAT289_ACC290insATGGATCCG (28753_28754insCGGATCCAT), ACC290AAA (28751G>T 28752G>T), CCA291GAA (28749G>T 28750G>C), ATC292GTA (28745G>T 28747T>C), CTG295ATC (28736C>G 28738G>T), TCT297GTT (28731G>A 28732A>C), CAT298CAC (28727A>G), GGT299GGA (28724A>T), ACT300ACA (28721A>T), TCG301TCT (28718C>A), GTT304GTA (28709A>T), GGC305GGT (28706G>A), GAC306GAT (28703G>A), GTG307ATT (28700C>A 28702C>T), AAA308TCT (28697T>A 28698T>G 28699T>A), CTG310GCG (28692A>G 28693G>C), GCA311AAA (28689G>T 28690C>T), GCT312GCA (28685A>T), ATC313ATT (28682G>A), CGT314AAG (28679A>C 28680C>T 28681G>T), GTG316GTA (28673C>T), GGC318GGT (28667G>A), GAT319_AAG320insCACGCA (28663_28664insTGCGTG), AAG320TAC (28661C>G 28663T>A), AGC321GAA (28658G>T 28659C>T 28660T>C), CCG322CTG (28656G>A), GCG323AAC (28652C>G 28653G>T 28654C>T), ATT324ATC (28649A>G), TCT325AGT (28647G>C 28648A>T), GCA326TCT (28643T>A 28645C>A), ACC327ACA (28640G>T), GCC329TCA (28634G>T 28636C>A), ACC331ACT (28628G>A), TCT334TTG (28619A>C 28620G>A), GGC336GGA (28613G>T), GCT338GCC (28607A>G), GGC339GGT (28604G>A), GTA340GCG (28601T>C 28602A>G), CAG341GTA (28598C>T 28599T>A 28600G>C), GCT343TCT (28594C>A), TAC345GCA (28586G>T 28587T>G 28588A>C), TCT346AGC (28583A>G 28584G>C 28585A>T), CTG347ATC (28580C>G 28582G>T), CTG348CTT (28577C>A), ATG349GCC (28574C>G 28575A>G 28576T>C), CTG350ATC (28571C>G 28573G>T), GAA351AAG (28568T>C 28570C>T), CAC352AAC (28567G>T), TTT354ATT (28561A>T), ATC355GTT (28556G>A 28558T>C), GCC356CCT (28553G>A 28555C>G), AGC358ACT (28547G>A 28548C>G), ATT361CAC (28538A>G 28539A>T 28540T>G)
150840.8%145494.3%213 (100%)204 (95.8%)0/0/0/00
Protein mutations:Q67H (29919A>T), V70A (29927T>C), E406G (30935A>G), N454D (31078A>G), C461G (31099T>G), T493S (31195A>T), P507S (31237C>T)
Codon mutations:CTT4CTG (29730T>G), GGG54GGA (29880G>A), CTG63CTC (29907G>C), GGA64GGG (29910A>G), GGC65GGT (29913C>T), CAA67CAT (29919A>T), TTA68CTA (29920T>C), GTA70GCA (29927T>C), CGC71CGT (29931C>T), GAG74GAA (29940G>A), TCA389TCG (30885A>G), GAA406GGA (30935A>G), AAT454GAT (31078A>G), TGT461GGT (31099T>G), AGC475AGT (31143C>T), CGA487CGT (31179A>T), TCG492TCA (31194G>A), ACT493TCT (31195A>T), CTC494CTG (31200C>G), CCG495CCA (31203G>A), GTG496GTA (31206G>A), GTT499GTG (31215T>G), GGG501GGT (31221G>T), CAG502CAA (31224G>A), CCG507TCG (31237C>T)
132729.7%57396.3%93 (95.9%)90 (92.8%)0/4/0/01
Protein mutations:F280_R283del (32088_32099delACGGTCGCGGAA), A297S (32048C>A), M298I (32043C>T)
Codon mutations:TTC280_CGT283del (32088_32099delACGGTCGCGGAA), CTG284TTG (32087G>A), GCG285GCA (32082C>T), GCG297TCG (32048C>A), ATG298ATA (32043C>T), GCG325GCT (31962C>A)
*: Inserts / Deletes / Misaligned / Frameshifts

Analysis details

This analysis was performed with panviral2.43