Version 2.22.2
Genome Detective Platform

NGS Details (SRR3458562_Metagenome_example): Peduovirus R18C

Assembly

1843 (9 contig(s))
17.3
348
22.45 rpm (after QC)
2
de novo + reference guided assembly
Bcf Tools

Coverage Map

Variant Tables

Assignment

Peduovirus R18C (Taxonomy ID: 2843959)
91.6759
91.3118
4
44

Alignment

2990.0 (NT) + 3550.0 (AA) = 6540.0
88.0334
Local, heuristic, nucleotide (BLASTN)

Alignment Detailed Statistics

BeginEndCoverageScoreConcordanceMatchesIdentitiesI/D/M/F*Stop Codons
NT2987278095.8%299083.3%1814 (98.4%)1663 (90.2%)0/29
Mutations:
2987A>G 2992C>T 6866T>G 6867C>T 6870_6898delGTGCAGTTTCCTGACCTGTCACTGCCTGC 6899A>G 11218G>A 11548G>K 11600C>S 11607A>T 11625T>C 16518G>A 16535T>C 16542T>C 16546G>A 16548C>A 16554G>A 16557T>A 16563A>G 16569T>C 16570T>C 16578T>C 16587T>C 16596C>T 16599T>C 16611C>A 16614A>G 16617T>C 16620C>A 16623A>T 16630G>A 16633A>G 16638A>G 16641C>T 16643G>T 16644A>G 16648A>G 16653C>T 16659G>A 16662T>A 16668A>G 16671A>G 16678A>G 16683T>A 16685A>G 16686A>T 16688G>A 16689T>G 16692A>T 16695A>G 16701C>T 16707T>A 16713A>G 16716G>A 16722C>T 16725C>G 16728T>A 16731C>A 16734C>T 16736A>C 16742G>A 16746T>C 16758C>A 16761G>A 16764T>C 16774G>A 16780T>A 16781C>A 16783G>A 16787G>A 16791T>A 16798T>G 16800T>A 16802A>G 16803A>C 16804C>A 16806G>A 16809G>T 16810G>A 16811G>A 16812C>A 16817C>A 16818T>C 16821A>T 16827G>A 16828C>A 16829G>C 16830G>A 16836G>A 16840T>G 16841C>T 16842T>G 16848T>C 16854T>G 16855T>A 16857T>A 16860C>T 16863G>A 16866G>A 16867G>A 16869T>A 16872C>T 16875C>T 16876T>C 16881T>A 16884A>G 16887G>A 16890T>C 16894A>T 16899A>G 16902G>A 16905A>T 16908T>A 16911G>A 16914G>A 16917G>T 16921A>G 16922A>G 16923G>T 16926T>A 16932A>G 16935C>T 16940G>A 16941G>A 16944G>T 16948T>G 16950C>A 16953G>A 16957A>G 16958G>C 16959C>T 16966A>G 16968T>A 16970G>A 16972A>G 16978A>G 16979A>T 16980C>A 16985A>C 16992T>C 16995C>T 16999G>A 17000C>A 17001A>C 17004G>A 21453A>G 27222C>G 27591T>C 27601A>C 27759G>A 27761T>C 27777G>A
CDS
14213.7%28496.9%42 (100%)41 (97.6%)0/0/0/00
379056.4%14854.4%44 (83.0%)44 (83.0%)0/9/1/10
Protein mutations:
V54_P62del (6870_6898delGTGCAGTTTCCTGACCTGTCACTGCCTGC)
Codon mutations:
GTT52GTG (6866T>G) CTG53TTG (6867C>T) GTG54_CCT62del (6870_6898delGTGCAGTTTCCTGACCTGTCACTGCCTGC) GCA63--G (6870_6898delGTGCAGTTTCCTGACCTGTCACTGCCTGC 6899A>G)
9311620.7%15395.0%24 (100%)24 (100%)0/0/0/01
115719.1%32979.5%58 (100%)54 (93.1%)0/0/2/00
3920974.0%96281.5%171 (100%)130 (76.0%)0/0/0/00
Protein mutations:
V50A (16535T>C) V54I (16546G>A 16548C>A) S62P (16570T>C) D82N (16630G>A) I83V (16633A>G) G86V (16643G>T 16644A>G) N88D (16648A>G) K98E (16678A>G) N99K (16683T>A) K100S (16685A>G 16686A>T) G101E (16688G>A 16689T>G) H114Q (16728T>A) N117T (16736A>C) S119N (16742G>A) D124E (16758C>A) V130I (16774G>A) S132N (16780T>A 16781C>A) V133I (16783G>A) S134N (16787G>A) S138A (16798T>G 16800T>A) K139S (16802A>G 16803A>C) Q140K (16804C>A 16806G>A) G142K (16810G>A 16811G>A 16812C>A) T144N (16817C>A 16818T>C) E145D (16821A>T) R148T (16828C>A 16829G>C 16830G>A) S152V (16840T>G 16841C>T 16842T>G) S157T (16855T>A 16857T>A) V161I (16867G>A 16869T>A) M170L (16894A>T) M177I (16917G>T) K179G (16921A>G 16922A>G 16923G>T) R185K (16940G>A 16941G>A) S188A (16948T>G 16950C>A) S191A (16957A>G 16958G>C 16959C>T) I194V (16966A>G 16968T>A) R195K (16970G>A) T196A (16972A>G) N198V (16978A>G 16979A>T 16980C>A) N200T (16985A>C) A205N (16999G>A 17000C>A 17001A>C)
Codon mutations:
AGG44AGA (16518G>A) GTT50GCT (16535T>C) CCT52CCC (16542T>C) GTC54ATA (16546G>A 16548C>A) GTG56GTA (16554G>A) ACT57ACA (16557T>A) GAA59GAG (16563A>G) AAT61AAC (16569T>C) TCT62CCT (16570T>C) GCT64GCC (16578T>C) TAT67TAC (16587T>C) ATC70ATT (16596C>T) AAT71AAC (16599T>C) ACC75ACA (16611C>A) GGA76GGG (16614A>G) AAT77AAC (16617T>C) GCC78GCA (16620C>A) CCA79CCT (16623A>T) GAT82AAT (16630G>A) ATT83GTT (16633A>G) GAA84GAG (16638A>G) GTC85GTT (16641C>T) GGA86GTG (16643G>T 16644A>G) AAT88GAT (16648A>G) CCC89CCT (16653C>T) CTG91CTA (16659G>A) GTT92GTA (16662T>A) GCA94GCG (16668A>G) GAA95GAG (16671A>G) AAA98GAA (16678A>G) AAT99AAA (16683T>A) AAA100AGT (16685A>G 16686A>T) GGT101GAG (16688G>A 16689T>G) ATA102ATT (16692A>T) CCA103CCG (16695A>G) AGC105AGT (16701C>T) GTT107GTA (16707T>A) GTA109GTG (16713A>G) TTG110TTA (16716G>A) AAC112AAT (16722C>T) GGC113GGG (16725C>G) CAT114CAA (16728T>A) TCC115TCA (16731C>A) CTC116CTT (16734C>T) AAC117ACC (16736A>C) AGT119AAT (16742G>A) CTT120CTC (16746T>C) GAC124GAA (16758C>A) CAG125CAA (16761G>A) ATT126ATC (16764T>C) GTT130ATT (16774G>A) TCT132AAT (16780T>A 16781C>A) GTT133ATT (16783G>A) AGT134AAT (16787G>A) ATT135ATA (16791T>A) TCT138GCA (16798T>G 16800T>A) AAA139AGC (16802A>G 16803A>C) CAG140AAA (16804C>A 16806G>A) CCG141CCT (16809G>T) GGC142AAA (16810G>A 16811G>A 16812C>A) ACT144AAC (16817C>A 16818T>C) GAA145GAT (16821A>T) GAG147GAA (16827G>A) CGG148ACA (16828C>A 16829G>C 16830G>A) GAG150GAA (16836G>A) TCT152GTG (16840T>G 16841C>T 16842T>G) GAT154GAC (16848T>C) GCT156GCG (16854T>G) TCT157ACA (16855T>A 16857T>A) TTC158TTT (16860C>T) GAG159GAA (16863G>A) GGG160GGA (16866G>A) GTT161ATA (16867G>A 16869T>A) AGC162AGT (16872C>T) TAC163TAT (16875C>T) TTA164CTA (16876T>C) GGT165GGA (16881T>A) GCA166GCG (16884A>G) AGG167AGA (16887G>A) AGT168AGC (16890T>C) ATG170TTG (16894A>T) ACA171ACG (16899A>G) CAG172CAA (16902G>A) ATA173ATT (16905A>T) GCT174GCA (16908T>A) GAG175GAA (16911G>A) CAG176CAA (16914G>A) ATG177ATT (16917G>T) AAG179GGT (16921A>G 16922A>G 16923G>T) ATT180ATA (16926T>A) GAA182GAG (16932A>G) GAC183GAT (16935C>T) AGG185AAA (16940G>A 16941G>A) CCG186CCT (16944G>T) TCC188GCA (16948T>G 16950C>A) CAG189CAA (16953G>A) AGC191GCT (16957A>G 16958G>C 16959C>T) ATT194GTA (16966A>G 16968T>A) AGA195AAA (16970G>A) ACA196GCA (16972A>G) AAC198GTA (16978A>G 16979A>T 16980C>A) AAT200ACT (16985A>C) AGT202AGC (16992T>C) GAC203GAT (16995C>T) GCA205AAC (16999G>A 17000C>A 17001A>C) GAG206GAA (17004G>A)
6146595.6%31693.5%46 (100%)45 (97.8%)0/0/0/00
981003.0%847.1%3 (100%)2 (66.7%)0/0/0/01
Protein mutations:
S99R (27222C>G)
Codon mutations:
AGC99AGG (27222C>G)
175100%538100%75 (100%)75 (100%)0/0/0/01
192100%60099.0%92 (100%)91 (98.9%)0/0/0/01
Protein mutations:
L48S (27591T>C)
Codon mutations:
TTA48TCA (27591T>C) CTA51CTC (27601A>C)
1324.2%21297.2%32 (100%)30 (93.8%)0/0/0/00
Protein mutations:
A16T (27759G>A 27761T>C) A22T (27777G>A)
Codon mutations:
GCT16ACC (27759G>A 27761T>C) GCG22ACG (27777G>A)
Proteins
14213.7%28496.9%42 (100%)41 (97.6%)0/0/0/00
Protein mutations:none
Codon mutations:none
379056.4%14854.4%44 (83.0%)44 (83.0%)0/9/1/10
Protein mutations:
V54_P62del (6870_6898delGTGCAGTTTCCTGACCTGTCACTGCCTGC)
Codon mutations:
GTT52GTG (6866T>G) CTG53TTG (6867C>T) GTG54_CCT62del (6870_6898delGTGCAGTTTCCTGACCTGTCACTGCCTGC) GCA63--G (6870_6898delGTGCAGTTTCCTGACCTGTCACTGCCTGC 6899A>G)
9311620.7%15395.0%24 (100%)24 (100%)0/0/0/01
Protein mutations:none
Codon mutations:none
115719.1%32979.5%58 (100%)54 (93.1%)0/0/2/00
Protein mutations:none
Codon mutations:
GAT13A.. (11218G>A) GAT123KAT (11548G>K) TCG140TSG (11600C>S) GGA142GGT (11607A>T) GGT148GGC (11625T>C)
3920974.0%96281.5%171 (100%)130 (76.0%)0/0/0/00
Protein mutations:
V50A (16535T>C) V54I (16546G>A 16548C>A) S62P (16570T>C) D82N (16630G>A) I83V (16633A>G) G86V (16643G>T 16644A>G) N88D (16648A>G) K98E (16678A>G) N99K (16683T>A) K100S (16685A>G 16686A>T) G101E (16688G>A 16689T>G) H114Q (16728T>A) N117T (16736A>C) S119N (16742G>A) D124E (16758C>A) V130I (16774G>A) S132N (16780T>A 16781C>A) V133I (16783G>A) S134N (16787G>A) S138A (16798T>G 16800T>A) K139S (16802A>G 16803A>C) Q140K (16804C>A 16806G>A) G142K (16810G>A 16811G>A 16812C>A) T144N (16817C>A 16818T>C) E145D (16821A>T) R148T (16828C>A 16829G>C 16830G>A) S152V (16840T>G 16841C>T 16842T>G) S157T (16855T>A 16857T>A) V161I (16867G>A 16869T>A) M170L (16894A>T) M177I (16917G>T) K179G (16921A>G 16922A>G 16923G>T) R185K (16940G>A 16941G>A) S188A (16948T>G 16950C>A) S191A (16957A>G 16958G>C 16959C>T) I194V (16966A>G 16968T>A) R195K (16970G>A) T196A (16972A>G) N198V (16978A>G 16979A>T 16980C>A) N200T (16985A>C) A205N (16999G>A 17000C>A 17001A>C)
Codon mutations:
AGG44AGA (16518G>A) GTT50GCT (16535T>C) CCT52CCC (16542T>C) GTC54ATA (16546G>A 16548C>A) GTG56GTA (16554G>A) ACT57ACA (16557T>A) GAA59GAG (16563A>G) AAT61AAC (16569T>C) TCT62CCT (16570T>C) GCT64GCC (16578T>C) TAT67TAC (16587T>C) ATC70ATT (16596C>T) AAT71AAC (16599T>C) ACC75ACA (16611C>A) GGA76GGG (16614A>G) AAT77AAC (16617T>C) GCC78GCA (16620C>A) CCA79CCT (16623A>T) GAT82AAT (16630G>A) ATT83GTT (16633A>G) GAA84GAG (16638A>G) GTC85GTT (16641C>T) GGA86GTG (16643G>T 16644A>G) AAT88GAT (16648A>G) CCC89CCT (16653C>T) CTG91CTA (16659G>A) GTT92GTA (16662T>A) GCA94GCG (16668A>G) GAA95GAG (16671A>G) AAA98GAA (16678A>G) AAT99AAA (16683T>A) AAA100AGT (16685A>G 16686A>T) GGT101GAG (16688G>A 16689T>G) ATA102ATT (16692A>T) CCA103CCG (16695A>G) AGC105AGT (16701C>T) GTT107GTA (16707T>A) GTA109GTG (16713A>G) TTG110TTA (16716G>A) AAC112AAT (16722C>T) GGC113GGG (16725C>G) CAT114CAA (16728T>A) TCC115TCA (16731C>A) CTC116CTT (16734C>T) AAC117ACC (16736A>C) AGT119AAT (16742G>A) CTT120CTC (16746T>C) GAC124GAA (16758C>A) CAG125CAA (16761G>A) ATT126ATC (16764T>C) GTT130ATT (16774G>A) TCT132AAT (16780T>A 16781C>A) GTT133ATT (16783G>A) AGT134AAT (16787G>A) ATT135ATA (16791T>A) TCT138GCA (16798T>G 16800T>A) AAA139AGC (16802A>G 16803A>C) CAG140AAA (16804C>A 16806G>A) CCG141CCT (16809G>T) GGC142AAA (16810G>A 16811G>A 16812C>A) ACT144AAC (16817C>A 16818T>C) GAA145GAT (16821A>T) GAG147GAA (16827G>A) CGG148ACA (16828C>A 16829G>C 16830G>A) GAG150GAA (16836G>A) TCT152GTG (16840T>G 16841C>T 16842T>G) GAT154GAC (16848T>C) GCT156GCG (16854T>G) TCT157ACA (16855T>A 16857T>A) TTC158TTT (16860C>T) GAG159GAA (16863G>A) GGG160GGA (16866G>A) GTT161ATA (16867G>A 16869T>A) AGC162AGT (16872C>T) TAC163TAT (16875C>T) TTA164CTA (16876T>C) GGT165GGA (16881T>A) GCA166GCG (16884A>G) AGG167AGA (16887G>A) AGT168AGC (16890T>C) ATG170TTG (16894A>T) ACA171ACG (16899A>G) CAG172CAA (16902G>A) ATA173ATT (16905A>T) GCT174GCA (16908T>A) GAG175GAA (16911G>A) CAG176CAA (16914G>A) ATG177ATT (16917G>T) AAG179GGT (16921A>G 16922A>G 16923G>T) ATT180ATA (16926T>A) GAA182GAG (16932A>G) GAC183GAT (16935C>T) AGG185AAA (16940G>A 16941G>A) CCG186CCT (16944G>T) TCC188GCA (16948T>G 16950C>A) CAG189CAA (16953G>A) AGC191GCT (16957A>G 16958G>C 16959C>T) ATT194GTA (16966A>G 16968T>A) AGA195AAA (16970G>A) ACA196GCA (16972A>G) AAC198GTA (16978A>G 16979A>T 16980C>A) AAT200ACT (16985A>C) AGT202AGC (16992T>C) GAC203GAT (16995C>T) GCA205AAC (16999G>A 17000C>A 17001A>C) GAG206GAA (17004G>A)
6146595.6%31693.5%46 (100%)45 (97.8%)0/0/0/00
Protein mutations:none
Codon mutations:
GAA639GAG (21453A>G)
981003.0%847.1%3 (100%)2 (66.7%)0/0/0/01
Protein mutations:
S99R (27222C>G)
Codon mutations:
AGC99AGG (27222C>G)
175100%538100%75 (100%)75 (100%)0/0/0/01
Protein mutations:none
Codon mutations:none
192100%60099.0%92 (100%)91 (98.9%)0/0/0/01
Protein mutations:
L48S (27591T>C)
Codon mutations:
TTA48TCA (27591T>C) CTA51CTC (27601A>C)
1324.2%21297.2%32 (100%)30 (93.8%)0/0/0/00
Protein mutations:
A16T (27759G>A 27761T>C) A22T (27777G>A)
Codon mutations:
GCT16ACC (27759G>A 27761T>C) GCG22ACG (27777G>A)
*: Inserts / Deletes / Misaligned / Frameshifts

Analysis details

This analysis was performed with panviral2.43