Version 2.16.1
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