Version 2.22.2
Genome Detective Platform

NGS Details (SRR3458562_Metagenome_example): Lederbergvirus Sf6

Assembly

3739 (8 contig(s))
24.9
905
58.39 rpm (after QC)
0
de novo + reference guided assembly
Bcf Tools

Coverage Map

Variant Tables

Assignment

Lederbergvirus Sf6 (Taxonomy ID: 10761)
94.8559
95.5537
6
66

Alignment

6600.0 (NT) + 7528.0 (AA) = 14128.0
92.9996
Local, heuristic, nucleotide (BLASTN)

Alignment Detailed Statistics

BeginEndCoverageScoreConcordanceMatchesIdentitiesI/D/M/F*Stop Codons
NT1442360169.6%660089.6%3713 (99.3%)3522 (94.2%)0/26
Mutations:
1487G>A 1505A>G 1559T>C 1580A>C 1595T>C 1634G>A 1676C>T 1685G>A 1694A>T 7015T>C 7041A>G 7063T>C 7081C>A 7090G>A 7099T>C 7102T>C 7136A>C 7138G>A 7150A>T 7183C>T 7228C>T 7252C>T 7258C>T 7306C>A 7348T>C 7357T>A 7363C>T 7375T>C 7378C>A 7381G>A 7384T>G 7485C>T 7543G>A 7546T>C 7549C>T 7561G>A 7564T>C 7573G>C 7600G>A 7615G>A 7618T>C 7627C>T 7633T>G 7672C>T 7675C>T 7714G>T 7717A>G 7718T>G 7720T>C 7721C>G 7726G>A 7735T>G 7742T>C 7756C>T 7762T>G 7771T>C 7777G>A 7803G>C 9341C>A 9371T>C 9398G>A 9401C>T 9422T>C 9425T>G 9598T>C 9612G>A 13778T>G 13855A>G 13877T>C 13886A>C 13895C>T 13904T>G 13907G>A 13913T>C 13914G>A 13916T>C 13919C>T 13922T>C 13928C>T 13931A>T 13934T>C 13940G>A 13943C>T 13949G>A 13951A>G 13961A>G 13964T>C 13972A>T 13985A>T 13994A>G 13997T>C 14009T>C 14010T>G 14011C>T 14012G>A 14027T>C 14045C>T 14048C>T 18278A>T 18308A>G 18371C>T 18488G>A 32881A>T 32882A>T 32892A>T 32903A>T 32907A>C 32929A>G 32935C>T 32947G>T 32959G>A 32983A>G 33013G>T 33025C>A 33040G>A 33043A>G 33047A>G 33048C>T 33050A>G 33052C>T 33057T>C 33088T>C 33118G>A 33124G>A 33136T>C 33143T>C 33156A>G 33193C>T 33201T>C 33202delG 33218C>A 33253C>T 33265G>A 33359G>A 33400C>T 33403G>C 33406C>T 33418C>T 33420T>G 33421T>C 33427G>A 33429A>G 33430G>A 33433A>C 33445A>G 33448T>C 33457A>G 33463T>C 33487A>G 33490G>A 33548C>T 33562C>A 33575C>T 33577T>C 33586_33603delGGCCGAACCGTGGCTGAT 33609G>T 33610T>A 33618G>T 33628G>A 33646G>A 33652delT 33653G>T 33654G>T 33676G>A 33678A>C 33691G>T 33699C>T 33702C>T 33704A>C 33715G>A 33720T>C 33723C>T 33727A>C 33728G>A 33745T>C 33749C>T 33768C>T 33792G>A 33846G>C 33851C>T 33855G>T 33861A>G 33870C>T 33873G>T 33876A>T 33879G>C 33882G>A 33991T>G 34117G>A 34118T>A 34119G>A 34126_34131delCAAACC 34132A>C 35977G>A 35994G>T
CDS
34243720.4%62198.4%96 (100%)95 (99.0%)0/0/0/00
5733158.1%187198.2%275 (100%)268 (97.5%)0/0/0/00
Protein mutations:
N69S (7041A>G) A217V (7485C>T) M293I (7714G>T) S295A (7718T>G 7720T>C) L296V (7721C>G) G323A (7803G>C)
Codon mutations:
CGT60CGC (7015T>C) AAT69AGT (7041A>G) GGT76GGC (7063T>C) GGC82GGA (7081C>A) GAG85GAA (7090G>A) GAT88GAC (7099T>C) GTT89GTC (7102T>C) AGG101CGA (7136A>C 7138G>A) GCA105GCT (7150A>T) CGC116CGT (7183C>T) AGC131AGT (7228C>T) GGC139GGT (7252C>T) GTC141GTT (7258C>T) GGC157GGA (7306C>A) CAT171CAC (7348T>C) CGT174CGA (7357T>A) AGC176AGT (7363C>T) CGT180CGC (7375T>C) GCC181GCA (7378C>A) GAG182GAA (7381G>A) TCT183TCG (7384T>G) GCT217GTT (7485C>T) GGG236GGA (7543G>A) ACT237ACC (7546T>C) TAC238TAT (7549C>T) CCG242CCA (7561G>A) TTT243TTC (7564T>C) TCG246TCC (7573G>C) ACG255ACA (7600G>A) GTG260GTA (7615G>A) TAT261TAC (7618T>C) GGC264GGT (7627C>T) GGT266GGG (7633T>G) ATC279ATT (7672C>T) CTC280CTT (7675C>T) ATG293ATT (7714G>T) GAA294GAG (7717A>G) TCT295GCC (7718T>G 7720T>C) CTG296GTG (7721C>G) CGG297CGA (7726G>A) GCT300GCG (7735T>G) TTG303CTG (7742T>C) CAC307CAT (7756C>T) CCT309CCG (7762T>G) GTT312GTC (7771T>C) GTG314GTA (7777G>A) GGT323GCT (7803G>C)
7315252.6%56298.9%80 (100%)80 (100%)0/0/0/01
14417.3%21780.7%40 (100%)37 (92.5%)0/0/0/00
Protein mutations:
C18Y (9612G>A)
Codon mutations:
GGT13GGC (9598T>C) TGC18TAC (9612G>A)
1211516.7%71296.6%104 (100%)99 (95.2%)0/0/0/00
Protein mutations:
Q46R (13855A>G) V66I (13914G>A 13916T>C) Q78R (13951A>G) E85V (13972A>T) S98V (14010T>G 14011C>T 14012G>A)
Codon mutations:
GCT20GCG (13778T>G) CAG46CGG (13855A>G) AAT53AAC (13877T>C) GGA56GGC (13886A>C) GTC59GTT (13895C>T) TCT62TCG (13904T>G) CAG63CAA (13907G>A) ATT65ATC (13913T>C) GTT66ATC (13914G>A 13916T>C) ATC67ATT (13919C>T) AAT68AAC (13922T>C) GCC70GCT (13928C>T) GGA71GGT (13931A>T) TAT72TAC (13934T>C) GTG74GTA (13940G>A) TAC75TAT (13943C>T) GGG77GGA (13949G>A) CAG78CGG (13951A>G) AAA81AAG (13961A>G) TTT82TTC (13964T>C) GAG85GTG (13972A>T) TCA89TCT (13985A>T) GTA92GTG (13994A>G) TAT93TAC (13997T>C) GGT97GGC (14009T>C) TCG98GTA (14010T>G 14011C>T 14012G>A) TTT103TTC (14027T>C) TAC109TAT (14045C>T) GAC110GAT (14048C>T)
12144.7%12891.4%21 (100%)20 (95.2%)0/0/0/00
167100%478100%67 (100%)67 (100%)0/0/0/01
1041041.0%114.3%1 (100%)1 (100%)0/0/0/01
33382.9%-102-212.5%6 (100%)3 (50.0%)0/0/1/10
Protein mutations:
K35Q (34132A>C)
Codon mutations:
ACC34AC- (34126_34131delCAAACC) AAG35CAG (34132A>C)
1307100%178279.4%301 (98.0%)272 (88.6%)0/6/2/21
Protein mutations:
R6C (33792G>A) E14K (33768C>T) G20E (33749C>T) P27L (33727A>C 33728G>A) V29I (33723C>T) T30A (33720T>C) F35C (33704A>C) G36R (33702C>T) V37I (33699C>T) Y44D (33676G>A 33678A>C) L64I (33618G>T) H67N (33609G>T) I69_A74del (33586_33603delGGCCGAACCGTGGCTGAT) S78N (33575C>T) M82I (33562C>A) G87D (33548C>T) Y127H (33427G>A 33429A>G) T150M (33359G>A) G197V (33218C>A) S203G (33201T>C) Q222R (33143T>C) M251V (33057T>C) V253A (33050A>G) V254T (33047A>G 33048C>T) E261D (33025C>A) S301A (32907A>C) V302E (32903A>T) C306S (32892A>T)
Codon mutations:
CGC6TGC (33792G>A) GAA14AAA (33768C>T) GGG20GAG (33749C>T) AAA21AAG (33745T>C) CCT27CTG (33727A>C 33728G>A) GTC29ATC (33723C>T) ACA30GCA (33720T>C) CTC31CTT (33715G>A) TTC35TGC (33704A>C) GGG36AGG (33702C>T) GTT37ATT (33699C>T) CGC39CGA (33691G>T) TAC44GAT (33676G>A 33678A>C) CCA52AA- (33652delT 33653G>T 33654G>T) GGC54GGT (33646G>A) CGC60CGT (33628G>A) CTT64ATT (33618G>T) CTA66CTT (33610T>A) CAT67AAT (33609G>T) ATC69_GCC74del (33586_33603delGGCCGAACCGTGGCTGAT) AGA77AGG (33577T>C) AGC78AAC (33575C>T) ATG82ATT (33562C>A) GGC87GAC (33548C>T) AGC106AGT (33490G>A) TGT107TGC (33487A>G) AAA115AAG (33463T>C) GGT117GGC (33457A>G) GAA120GAG (33448T>C) CAT121CAC (33445A>G) CCT125CCG (33433A>C) AAC126AAT (33430G>A) TAC127CAT (33427G>A 33429A>G) GAA129GAG (33421T>C) AGG130CGA (33418C>T 33420T>G) GTG134GTA (33406C>T) ACC135ACG (33403G>C) GAG136GAA (33400C>T) ACG150ATG (33359G>A) CTC181CTT (33265G>A) GCG185GCA (33253C>T) GGC197GTC (33218C>A) CAC202CA- (33202delG) AGC203GGC (33201T>C) CAG205CAA (33193C>T) TTG218CTG (33156A>G) CAG222CGG (33143T>C) AGA224AGG (33136T>C) AGC228AGT (33124G>A) CGC230CGT (33118G>A) GAA240GAG (33088T>C) ATG251GTG (33057T>C) CCG252CCA (33052C>T) GTG253GCG (33050A>G) GTG254ACG (33047A>G 33048C>T) GGT255GGC (33043A>G) TAC256TAT (33040G>A) GAG261GAT (33025C>A) GCC265GCA (33013G>T) AGT275AGC (32983A>G) AAC283AAT (32959G>A) CCC287CCA (32947G>T) TCG291TCA (32935C>T) AAT293AAC (32929A>G) TCG301GCG (32907A>C) GTG302GAG (32903A>T) TGT306AGT (32892A>T)
1101100%60098.5%101 (100%)99 (98.0%)0/0/0/01
Protein mutations:
K22T (33991T>G) E69K (33851C>T)
Codon mutations:
AAA22ACA (33991T>G) TCC58TCT (33882G>A) CCC59CCG (33879G>C) ATT60ATA (33876A>T) ACC61ACA (33873G>T) CCG62CCA (33870C>T) ATT65ATC (33861A>G) ATC67ATA (33855G>T) GAG69AAG (33851C>T) CTC70CTG (33846G>C) ACC88ACT (33792G>A) CTG96CTA (33768C>T)
7417357.8%65898.2%100 (100%)98 (98.0%)0/0/0/01
Protein mutations:
S165N (35977G>A) A171S (35994G>T)
Codon mutations:
AGC165AAC (35977G>A) GCC171TCC (35994G>T)
Proteins
34243720.4%62198.4%96 (100%)95 (99.0%)0/0/0/00
Protein mutations:none
Codon mutations:
GTG356GTA (1487G>A) GCA362GCG (1505A>G) GTT380GTC (1559T>C) CCA387CCC (1580A>C) AGT392AGC (1595T>C) AAG405AAA (1634G>A) AAC419AAT (1676C>T) AAG422AAA (1685G>A) CTA425CTT (1694A>T)
5733158.1%187198.2%275 (100%)268 (97.5%)0/0/0/00
Protein mutations:
N69S (7041A>G) A217V (7485C>T) M293I (7714G>T) S295A (7718T>G 7720T>C) L296V (7721C>G) G323A (7803G>C)
Codon mutations:
CGT60CGC (7015T>C) AAT69AGT (7041A>G) GGT76GGC (7063T>C) GGC82GGA (7081C>A) GAG85GAA (7090G>A) GAT88GAC (7099T>C) GTT89GTC (7102T>C) AGG101CGA (7136A>C 7138G>A) GCA105GCT (7150A>T) CGC116CGT (7183C>T) AGC131AGT (7228C>T) GGC139GGT (7252C>T) GTC141GTT (7258C>T) GGC157GGA (7306C>A) CAT171CAC (7348T>C) CGT174CGA (7357T>A) AGC176AGT (7363C>T) CGT180CGC (7375T>C) GCC181GCA (7378C>A) GAG182GAA (7381G>A) TCT183TCG (7384T>G) GCT217GTT (7485C>T) GGG236GGA (7543G>A) ACT237ACC (7546T>C) TAC238TAT (7549C>T) CCG242CCA (7561G>A) TTT243TTC (7564T>C) TCG246TCC (7573G>C) ACG255ACA (7600G>A) GTG260GTA (7615G>A) TAT261TAC (7618T>C) GGC264GGT (7627C>T) GGT266GGG (7633T>G) ATC279ATT (7672C>T) CTC280CTT (7675C>T) ATG293ATT (7714G>T) GAA294GAG (7717A>G) TCT295GCC (7718T>G 7720T>C) CTG296GTG (7721C>G) CGG297CGA (7726G>A) GCT300GCG (7735T>G) TTG303CTG (7742T>C) CAC307CAT (7756C>T) CCT309CCG (7762T>G) GTT312GTC (7771T>C) GTG314GTA (7777G>A) GGT323GCT (7803G>C)
7315252.6%56298.9%80 (100%)80 (100%)0/0/0/01
Protein mutations:none
Codon mutations:
ATC80ATA (9341C>A) ACT90ACC (9371T>C) TCG99TCA (9398G>A) TTC100TTT (9401C>T) CAT107CAC (9422T>C) GGT108GGG (9425T>G)
14417.3%21780.7%40 (100%)37 (92.5%)0/0/0/00
Protein mutations:
C18Y (9612G>A)
Codon mutations:
GGT13GGC (9598T>C) TGC18TAC (9612G>A)
1211516.7%71296.6%104 (100%)99 (95.2%)0/0/0/00
Protein mutations:
Q46R (13855A>G) V66I (13914G>A 13916T>C) Q78R (13951A>G) E85V (13972A>T) S98V (14010T>G 14011C>T 14012G>A)
Codon mutations:
GCT20GCG (13778T>G) CAG46CGG (13855A>G) AAT53AAC (13877T>C) GGA56GGC (13886A>C) GTC59GTT (13895C>T) TCT62TCG (13904T>G) CAG63CAA (13907G>A) ATT65ATC (13913T>C) GTT66ATC (13914G>A 13916T>C) ATC67ATT (13919C>T) AAT68AAC (13922T>C) GCC70GCT (13928C>T) GGA71GGT (13931A>T) TAT72TAC (13934T>C) GTG74GTA (13940G>A) TAC75TAT (13943C>T) GGG77GGA (13949G>A) CAG78CGG (13951A>G) AAA81AAG (13961A>G) TTT82TTC (13964T>C) GAG85GTG (13972A>T) TCA89TCT (13985A>T) GTA92GTG (13994A>G) TAT93TAC (13997T>C) GGT97GGC (14009T>C) TCG98GTA (14010T>G 14011C>T 14012G>A) TTT103TTC (14027T>C) TAC109TAT (14045C>T) GAC110GAT (14048C>T)
12144.7%12891.4%21 (100%)20 (95.2%)0/0/0/00
Protein mutations:none
Codon mutations:none
167100%478100%67 (100%)67 (100%)0/0/0/01
Protein mutations:none
Codon mutations:
CAG6CAA (18371C>T) ATT27ATC (18308A>G) CCT37CCA (18278A>T)
1041041.0%114.3%1 (100%)1 (100%)0/0/0/01
Protein mutations:none
Codon mutations:none
33382.9%-102-212.5%6 (100%)3 (50.0%)0/0/1/10
Protein mutations:
K35Q (34132A>C)
Codon mutations:
ACC34AC- (34126_34131delCAAACC) AAG35CAG (34132A>C)
1307100%178279.4%301 (98.0%)272 (88.6%)0/6/2/21
Protein mutations:
R6C (33792G>A) E14K (33768C>T) G20E (33749C>T) P27L (33727A>C 33728G>A) V29I (33723C>T) T30A (33720T>C) F35C (33704A>C) G36R (33702C>T) V37I (33699C>T) Y44D (33676G>A 33678A>C) L64I (33618G>T) H67N (33609G>T) I69_A74del (33586_33603delGGCCGAACCGTGGCTGAT) S78N (33575C>T) M82I (33562C>A) G87D (33548C>T) Y127H (33427G>A 33429A>G) T150M (33359G>A) G197V (33218C>A) S203G (33201T>C) Q222R (33143T>C) M251V (33057T>C) V253A (33050A>G) V254T (33047A>G 33048C>T) E261D (33025C>A) S301A (32907A>C) V302E (32903A>T) C306S (32892A>T)
Codon mutations:
CGC6TGC (33792G>A) GAA14AAA (33768C>T) GGG20GAG (33749C>T) AAA21AAG (33745T>C) CCT27CTG (33727A>C 33728G>A) GTC29ATC (33723C>T) ACA30GCA (33720T>C) CTC31CTT (33715G>A) TTC35TGC (33704A>C) GGG36AGG (33702C>T) GTT37ATT (33699C>T) CGC39CGA (33691G>T) TAC44GAT (33676G>A 33678A>C) CCA52AA- (33652delT 33653G>T 33654G>T) GGC54GGT (33646G>A) CGC60CGT (33628G>A) CTT64ATT (33618G>T) CTA66CTT (33610T>A) CAT67AAT (33609G>T) ATC69_GCC74del (33586_33603delGGCCGAACCGTGGCTGAT) AGA77AGG (33577T>C) AGC78AAC (33575C>T) ATG82ATT (33562C>A) GGC87GAC (33548C>T) AGC106AGT (33490G>A) TGT107TGC (33487A>G) AAA115AAG (33463T>C) GGT117GGC (33457A>G) GAA120GAG (33448T>C) CAT121CAC (33445A>G) CCT125CCG (33433A>C) AAC126AAT (33430G>A) TAC127CAT (33427G>A 33429A>G) GAA129GAG (33421T>C) AGG130CGA (33418C>T 33420T>G) GTG134GTA (33406C>T) ACC135ACG (33403G>C) GAG136GAA (33400C>T) ACG150ATG (33359G>A) CTC181CTT (33265G>A) GCG185GCA (33253C>T) GGC197GTC (33218C>A) CAC202CA- (33202delG) AGC203GGC (33201T>C) CAG205CAA (33193C>T) TTG218CTG (33156A>G) CAG222CGG (33143T>C) AGA224AGG (33136T>C) AGC228AGT (33124G>A) CGC230CGT (33118G>A) GAA240GAG (33088T>C) ATG251GTG (33057T>C) CCG252CCA (33052C>T) GTG253GCG (33050A>G) GTG254ACG (33047A>G 33048C>T) GGT255GGC (33043A>G) TAC256TAT (33040G>A) GAG261GAT (33025C>A) GCC265GCA (33013G>T) AGT275AGC (32983A>G) AAC283AAT (32959G>A) CCC287CCA (32947G>T) TCG291TCA (32935C>T) AAT293AAC (32929A>G) TCG301GCG (32907A>C) GTG302GAG (32903A>T) TGT306AGT (32892A>T)
1101100%60098.5%101 (100%)99 (98.0%)0/0/0/01
Protein mutations:
K22T (33991T>G) E69K (33851C>T)
Codon mutations:
AAA22ACA (33991T>G) TCC58TCT (33882G>A) CCC59CCG (33879G>C) ATT60ATA (33876A>T) ACC61ACA (33873G>T) CCG62CCA (33870C>T) ATT65ATC (33861A>G) ATC67ATA (33855G>T) GAG69AAG (33851C>T) CTC70CTG (33846G>C) ACC88ACT (33792G>A) CTG96CTA (33768C>T)
7417357.8%65898.2%100 (100%)98 (98.0%)0/0/0/01
Protein mutations:
S165N (35977G>A) A171S (35994G>T)
Codon mutations:
AGC165AAC (35977G>A) GCC171TCC (35994G>T)
*: Inserts / Deletes / Misaligned / Frameshifts

Analysis details

This analysis was performed with panviral2.43