Version 2.22.2
Genome Detective Platform

NGS Details (SRR3458562_Metagenome_example): Rotavirus A (segment 10)

Assembly

751 (1 contig(s))
3287.7
22821
1472.51 rpm (after QC)
0
de novo + reference guided assembly
Bcf Tools

Coverage Map

Variant Tables

Assignment

Rotavirus A (Taxonomy ID: 28875)
91.7443
92.6136
1
1

Alignment

segment 10
1254.0 (NT) + 1029.0 (AA) = 2283.0
87.7739
Global, seeded, nucleotide + amino acids (AGA)

Alignment Detailed Statistics

BeginEndCoverageScoreConcordanceMatchesIdentitiesI/D/M/F*Stop Codons
NT1751100%125483.5%751 (100%)689 (91.7%)0/0
Mutations:
65T>C 97A>G 98T>C 110A>G 143T>C 159T>C 173T>C 174G>A 177C>T 179A>G 182T>C 191C>T 218A>G 224A>C 227A>G 242G>A 248A>G 260A>G 263A>G 269T>C 273A>G 281A>G 302G>A 308A>T 311T>C 344A>G 356A>G 365C>T 383C>T 386A>G 407A>G 410A>G 413A>G 416G>A 419G>A 422T>A 432T>C 440A>G 445C>T 447G>A 449G>A 451A>G 453A>G 455G>A 456A>G 457C>T 460G>A 476A>G 479A>G 482G>A 485C>T 488T>C 494A>G 502G>A 523G>A 547G>A 594C>T 604G>A 615T>C 625A>C 664C>T 681C>T
CDS
1176100%102993.6%176 (100%)163 (92.6%)0/0/0/01
Protein mutations:
N19S (97A>G 98T>C) A45T (174G>A) T78A (273A>G) Y131H (432T>C) T135M (445C>T) V136I (447G>A 449G>A) Q137R (451A>G) T138A (453A>G 455G>A) T139V (456A>G 457C>T) G140D (460G>A) R154K (502G>A) S161N (523G>A) R169K (547G>A)
Codon mutations:
AAT8AAC (65T>C) AAT19AGC (97A>G 98T>C) ACA23ACG (110A>G) CCT34CCC (143T>C) TTA40CTA (159T>C) TTT44TTC (173T>C) GCG45ACG (174G>A) CTA46TTG (177C>T 179A>G) CAT47CAC (182T>C) TCC50TCT (191C>T) AAA59AAG (218A>G) TCA61TCC (224A>C) AAA62AAG (227A>G) GTG67GTA (242G>A) AAA69AAG (248A>G) GTA73GTG (260A>G) ACA74ACG (263A>G) TTT76TTC (269T>C) ACG78GCG (273A>G) TTA80TTG (281A>G) GAG87GAA (302G>A) ATA89ATT (308A>T) ACT90ACC (311T>C) AGA101AGG (344A>G) GAA105GAG (356A>G) CGC108CGT (365C>T) GAC114GAT (383C>T) AAA115AAG (386A>G) GAA122GAG (407A>G) CAA123CAG (410A>G) GTA124GTG (413A>G) GAG125GAA (416G>A) TTG126TTA (419G>A) CTT127CTA (422T>A) TAC131CAC (432T>C) AAA133AAG (440A>G) ACG135ATG (445C>T) GTG136ATA (447G>A 449G>A) CAA137CGA (451A>G) ACG138GCA (453A>G 455G>A) ACA139GTA (456A>G 457C>T) GGC140GAC (460G>A) ACA145ACG (476A>G) AAA146AAG (479A>G) GAG147GAA (482G>A) ATC148ATT (485C>T) AAT149AAC (488T>C) AAA151AAG (494A>G) AGA154AAA (502G>A) AGT161AAT (523G>A) AGA169AAA (547G>A)
Proteins
1176100%102993.6%176 (100%)163 (92.6%)0/0/0/01
Protein mutations:
N19S (97A>G 98T>C) A45T (174G>A) T78A (273A>G) Y131H (432T>C) T135M (445C>T) V136I (447G>A 449G>A) Q137R (451A>G) T138A (453A>G 455G>A) T139V (456A>G 457C>T) G140D (460G>A) R154K (502G>A) S161N (523G>A) R169K (547G>A)
Codon mutations:
AAT8AAC (65T>C) AAT19AGC (97A>G 98T>C) ACA23ACG (110A>G) CCT34CCC (143T>C) TTA40CTA (159T>C) TTT44TTC (173T>C) GCG45ACG (174G>A) CTA46TTG (177C>T 179A>G) CAT47CAC (182T>C) TCC50TCT (191C>T) AAA59AAG (218A>G) TCA61TCC (224A>C) AAA62AAG (227A>G) GTG67GTA (242G>A) AAA69AAG (248A>G) GTA73GTG (260A>G) ACA74ACG (263A>G) TTT76TTC (269T>C) ACG78GCG (273A>G) TTA80TTG (281A>G) GAG87GAA (302G>A) ATA89ATT (308A>T) ACT90ACC (311T>C) AGA101AGG (344A>G) GAA105GAG (356A>G) CGC108CGT (365C>T) GAC114GAT (383C>T) AAA115AAG (386A>G) GAA122GAG (407A>G) CAA123CAG (410A>G) GTA124GTG (413A>G) GAG125GAA (416G>A) TTG126TTA (419G>A) CTT127CTA (422T>A) TAC131CAC (432T>C) AAA133AAG (440A>G) ACG135ATG (445C>T) GTG136ATA (447G>A 449G>A) CAA137CGA (451A>G) ACG138GCA (453A>G 455G>A) ACA139GTA (456A>G 457C>T) GGC140GAC (460G>A) ACA145ACG (476A>G) AAA146AAG (479A>G) GAG147GAA (482G>A) ATC148ATT (485C>T) AAT149AAC (488T>C) AAA151AAG (494A>G) AGA154AAA (502G>A) AGT161AAT (523G>A) AGA169AAA (547G>A)
*: Inserts / Deletes / Misaligned / Frameshifts

Analysis details

This analysis was performed with panviral2.43