Version 2.16.1
Genome Detective Platform

NGS Details (SRR3458562_Metagenome_example): Bat rotavirus (segment 7)

Assembly

275 (1 contig(s))
1027.4
3526
227.51 rpm (after QC)
0
de novo + reference guided assembly
Bcf Tools

Coverage Map

Variant Tables

Assignment

Bat rotavirus (Taxonomy ID: 1340801)
82.7839
84.7826
1
1

Alignment

segment 7
347.0 (NT) + 401.0 (AA) = 748.0
75.7782
Global, seeded, nucleotide + amino acids (AGA)

Alignment Detailed Statistics

BeginEndCoverageScoreConcordanceMatchesIdentitiesI/D/M/F*Stop Codons
NT26754129.2%34764.9%273 (99.3%)226 (82.2%)0/2
Mutations:276T>A, 279A>T, 280G>A, 281T>C, 284C>A, 285C>T, 288G>A, 289T>C, 291G>A, 297G>A, 310T>C, 312G>T, 330A>T, 339A>T, 351T>G, 357T>A, 360A>T, 370_371delTT, 378C>G, 381A>G, 384G>A, 386T>C, 387G>T, 390T>A, 393A>T, 396G>A, 399G>A, 411A>T, 414G>A, 419G>C, 423G>A, 424T>C, 431A>G, 435A>T, 438A>G, 450C>T, 454A>G, 456T>C, 462T>G, 471T>G, 492G>A, 493A>G, 495C>T, 504C>T, 514A>T, 525G>A, 532G>T, 533A>G
CDS
9018129.3%40165.5%92 (100%)78 (84.8%)0/0/1/11
Protein mutations:H92Q (276T>A), V94T (280G>A 281T>C), A95D (284C>A 285C>T), I117M (351T>G), V129A (386T>C 387G>T), S140T (419G>C), K144R (431A>G), E145D (435A>T), I152V (454A>G 456T>C), I165V (493A>G 495C>T), T172S (514A>T), E178* (532G>T 533A>G)
Codon mutations:CAT92CAA (276T>A), ACA93ACT (279A>T), GTA94ACA (280G>A 281T>C), GCC95GAT (284C>A 285C>T), AGG96AGA (288G>A), TTG97CTA (289T>C 291G>A), GAG99GAA (297G>A), TTG104CTT (310T>C 312G>T), TCA110TCT (330A>T), ATA113ATT (339A>T), ATT117ATG (351T>G), GTT119GTA (357T>A), CTA120CTT (360A>T), TTT124--T (370_371delTT), GTC126GTG (378C>G), AAA127AAG (381A>G), AGG128AGA (384G>A), GTG129GCT (386T>C 387G>T), CCT130CCA (390T>A), GGA131GGT (393A>T), AAG132AAA (396G>A), TCG133TCA (399G>A), ATA137ATT (411A>T), AAG138AAA (414G>A), AGT140ACT (419G>C), AGG141AGA (423G>A), TTA142CTA (424T>C), AAA144AGA (431A>G), GAA145GAT (435A>T), AAA146AAG (438A>G), GGC150GGT (450C>T), ATT152GTC (454A>G 456T>C), GTT154GTG (462T>G), TCT157TCG (471T>G), GAG164GAA (492G>A), ATC165GTT (493A>G 495C>T), ATC168ATT (504C>T), ACT172TCT (514A>T), GAG175GAA (525G>A), GAA178TGA (532G>T 533A>G)
Proteins
9018129.3%40165.5%92 (100%)78 (84.8%)0/0/1/11
Protein mutations:H92Q (276T>A), V94T (280G>A 281T>C), A95D (284C>A 285C>T), I117M (351T>G), V129A (386T>C 387G>T), S140T (419G>C), K144R (431A>G), E145D (435A>T), I152V (454A>G 456T>C), I165V (493A>G 495C>T), T172S (514A>T), E178* (532G>T 533A>G)
Codon mutations:CAT92CAA (276T>A), ACA93ACT (279A>T), GTA94ACA (280G>A 281T>C), GCC95GAT (284C>A 285C>T), AGG96AGA (288G>A), TTG97CTA (289T>C 291G>A), GAG99GAA (297G>A), TTG104CTT (310T>C 312G>T), TCA110TCT (330A>T), ATA113ATT (339A>T), ATT117ATG (351T>G), GTT119GTA (357T>A), CTA120CTT (360A>T), TTT124--T (370_371delTT), GTC126GTG (378C>G), AAA127AAG (381A>G), AGG128AGA (384G>A), GTG129GCT (386T>C 387G>T), CCT130CCA (390T>A), GGA131GGT (393A>T), AAG132AAA (396G>A), TCG133TCA (399G>A), ATA137ATT (411A>T), AAG138AAA (414G>A), AGT140ACT (419G>C), AGG141AGA (423G>A), TTA142CTA (424T>C), AAA144AGA (431A>G), GAA145GAT (435A>T), AAA146AAG (438A>G), GGC150GGT (450C>T), ATT152GTC (454A>G 456T>C), GTT154GTG (462T>G), TCT157TCG (471T>G), GAG164GAA (492G>A), ATC165GTT (493A>G 495C>T), ATC168ATT (504C>T), ACT172TCT (514A>T), GAG175GAA (525G>A), GAA178TGA (532G>T 533A>G)
*: Inserts / Deletes / Misaligned / Frameshifts

Analysis details

This analysis was performed with panviral2.43