Version 2.16.3
Genome Detective Platform

NGS Details (SRR3458562_Metagenome_example): Traversvirus PA28

Assembly

1776 (5 contig(s))
10.1
167
10.78 rpm (after QC)
0
de novo + reference guided assembly
Bcf Tools

Coverage Map

Variant Tables

Assignment

Traversvirus PA28 (Taxonomy ID: 1981163)
97.4662
97.5472
4
90

Alignment

3372.0 (NT) + 3588.0 (AA) = 6960.0
96.4791
Local, heuristic, nucleotide (BLASTN)

Alignment Detailed Statistics

BeginEndCoverageScoreConcordanceMatchesIdentitiesI/D/M/F*Stop Codons
NT11325437182.9%337294.9%1776 (100%)1731 (97.5%)0/0
Mutations:11383C>A, 11428A>C, 11429C>A, 11436A>C, 11438G>A, 11439T>A, 20456T>A, 20495G>T, 20576G>A, 20586A>G, 20622C>T, 20634G>T, 20772A>G, 20784A>T, 20808A>T, 20815C>T, 20823G>A, 20826A>G, 20898A>G, 20919T>C, 20966C>T, 21053C>A, 21078C>T, 21106G>T, 25067C>T, 25462A>C, 25470G>A, 25505A>C, 43243C>T, 43278T>A, 43283G>T, 43284T>C, 43296G>A, 43308A>G, 43319T>A, 43377C>T, 43385T>C, 43395A>G, 43398A>G, 43413G>C, 43422T>C, 43426C>T, 43598G>A, 43688A>G, 43694A>G
CDS
11912.1%13895.8%19 (100%)18 (94.7%)0/0/0/00
177077.1%39299.0%54 (100%)54 (100%)0/0/0/01
120283.8%129198.0%202 (100%)197 (97.5%)0/0/0/00
Protein mutations:S2N (20576G>A), I5M (20586A>G), A132V (20966C>T), P161Q (21053C>A), A179S (21106G>T)
Codon mutations:AGT2AAT (20576G>A), ATA5ATG (20586A>G), ATC17ATT (20622C>T), GTG21GTT (20634G>T), GAA67GAG (20772A>G), GGA71GGT (20784A>T), GTA79GTT (20808A>T), CTG82TTG (20815C>T), CCG84CCA (20823G>A), GAA85GAG (20826A>G), CCA109CCG (20898A>G), GCT116GCC (20919T>C), GCC132GTC (20966C>T), CCA161CAA (21053C>A), CGC169CGT (21078C>T), GCC179TCC (21106G>T)
14429751.9%101695.8%154 (100%)151 (98.1%)0/0/0/01
Protein mutations:F146V (25505A>C), I160S (25462A>C), D292N (25067C>T)
Codon mutations:TTC146GTC (25505A>C), GCC157GCT (25470G>A), ATC160AGC (25462A>C), GAT292AAT (25067C>T)
516118.0%85100%11 (100%)11 (100%)0/0/0/01
19252.2%33290.2%48 (100%)44 (91.7%)0/0/0/01
Protein mutations:M1K (43319T>A), I23T (43385T>C), H37Y (43426C>T)
Codon mutations:ATG1AAG (43319T>A), GCC20GCT (43377C>T), ATT23ACT (43385T>C), ACA26ACG (43395A>G), CCA27CCG (43398A>G), GTG32GTC (43413G>C), CGT35CGC (43422T>C), CAT37TAT (43426C>T)
14214.2%334100%42 (100%)42 (100%)0/0/0/00
Proteins
11912.1%13895.8%19 (100%)18 (94.7%)0/0/0/00
Protein mutations:none
Codon mutations:none
177077.1%39299.0%54 (100%)54 (100%)0/0/0/01
Protein mutations:none
Codon mutations:GCT29GCA (20456T>A), CTG42CTT (20495G>T), GAG69GAA (20576G>A)
120283.8%129198.0%202 (100%)197 (97.5%)0/0/0/00
Protein mutations:S2N (20576G>A), I5M (20586A>G), A132V (20966C>T), P161Q (21053C>A), A179S (21106G>T)
Codon mutations:AGT2AAT (20576G>A), ATA5ATG (20586A>G), ATC17ATT (20622C>T), GTG21GTT (20634G>T), GAA67GAG (20772A>G), GGA71GGT (20784A>T), GTA79GTT (20808A>T), CTG82TTG (20815C>T), CCG84CCA (20823G>A), GAA85GAG (20826A>G), CCA109CCG (20898A>G), GCT116GCC (20919T>C), GCC132GTC (20966C>T), CCA161CAA (21053C>A), CGC169CGT (21078C>T), GCC179TCC (21106G>T)
14429751.9%101695.8%154 (100%)151 (98.1%)0/0/0/01
Protein mutations:F146V (25505A>C), I160S (25462A>C), D292N (25067C>T)
Codon mutations:TTC146GTC (25505A>C), GCC157GCT (25470G>A), ATC160AGC (25462A>C), GAT292AAT (25067C>T)
516118.0%85100%11 (100%)11 (100%)0/0/0/01
Protein mutations:none
Codon mutations:none
19252.2%33290.2%48 (100%)44 (91.7%)0/0/0/01
Protein mutations:M1K (43319T>A), I23T (43385T>C), H37Y (43426C>T)
Codon mutations:ATG1AAG (43319T>A), GCC20GCT (43377C>T), ATT23ACT (43385T>C), ACA26ACG (43395A>G), CCA27CCG (43398A>G), GTG32GTC (43413G>C), CGT35CGC (43422T>C), CAT37TAT (43426C>T)
14214.2%334100%42 (100%)42 (100%)0/0/0/00
Protein mutations:none
Codon mutations:CCG2CCA (43598G>A), CAA32CAG (43688A>G), CGA34CGG (43694A>G)
*: Inserts / Deletes / Misaligned / Frameshifts

Analysis details

This analysis was performed with panviral2.43