Genome Detective

NGS Details (SRR3458562_Metagenome_example): Makelovirus prm1

Assembly

Coverage Length

206 (1 contig(s))

Depth Of Coverage

6.2

Number Of Reads

Reads Per Million

0.77 rpm (after QC)

Ambiguities

Assembly Method

de novo + reference guided assembly

Consensus Caller

Bcf Tools

Coverage Map

Map

Variant Tables

Consensus Variants

Download consensus variants (vcf)

Minority Variants

Download minority variants (vcf)

SNP Variants Table

Download SNP mutations table (csv)

Annotated Variants Table

Download annotated variants table (csv)

Assignment

Type

Makelovirus prm1 (Taxonomy ID: 2956181)

Reference Genome

NC_055761.1

NT Identity (%)

80.5825

AA Identity (%)

94.1176

Number Of Stop Codons

Number Of CDS

190

Alignment

Alignment Score

252.0 (NT) + 471.0 (AA) = 723.0

Concordance (%)

80.5122

Alignment Method

Local, heuristic, nucleotide (BLASTN)

NT Alignment

Download alignment (FASTA)

Region Bam File

Download BAM zip file

CDS Alignment

Download CDS alignment (FASTA)

Consensus Sequence

Download consensus sequence (FASTA) (Including IUPAC ambiguity codes)

Consensus Contigs

Download consensus contigs (FASTA)

Genome Region

Select a protein in the search box or a mutation in the table below to see the alignment details. Duplicated protein names are extended with "- CDS name".

Search protein name:

Alignment Detailed Statistics


	Begin	End	Coverage	Score	Concordance	Matches	Identities	I/D/M/F^*	Stop Codons
NT	79903	80108	0.1%	252	61.2%	206 (100%)	166 (80.6%)	0/0
Mutations:	79916C>T 79919T>A 79922A>T 79931T>A 79937A>T 79938T>A 79940T>C 79946C>T 79950C>T 79953G>A 79958T>C 79961T>A 79962T>A 79973T>A 79974T>A 79975C>G 79976G>T 79979C>T 79985C>T 79988T>C 79994C>T 79997C>A 80000C>A 80018C>T 80025C>A 80030C>A 80039A>T 80054G>T 80063C>A 80066C>T 80069T>C 80073C>T 80075T>A 80078T>C 80081G>A 80087T>G 80090C>A 80096T>C 80099T>C 80105G>A

^*: Inserts / Deletes / Misaligned / Frameshifts

Analysis details

This analysis was performed with panviral2.43