Genome Detective

Analysis Results

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Analysis of SRR22472796_SarsCoV2_amplicon_example

Technology

Paired-end short reads

Input Files

SRR22472796_SarsCoV2_amplicon_example_1.fastq.gz (13.39 MB), SRR22472796_SarsCoV2_amplicon_example_2.fastq.gz (15.12 MB)

Protocol

Default Virus Analysis (metagenome)

Submitted On

2022-12-02 13:08:33 UTC

Release Version

panviral2.43

Statistics

Original Read Length

35 - 151

Trimmed Read Length

50 - 136

	# Reads	% of Reads
Input file	392426	100.0%
After QC	330128	84.1%
After filtering	325826	83.0%
Mapped back to contigs	324739	82.8%

Quality Control (QC) reports

Before Preprocessing

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After Preprocessing

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Taxonomy chart Taxonomy tree

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Scaling

Group by Taxonomic Rank

Assignments

Assignment

# Reads

Depth of Coverage

NT Identity

AA Identity

Genome Coverage

Genome Coverage image

Severe acute respiratory syndrome-related coronavirus (subtype: SARS-CoV-2, Omicron (BA.2 21L))

324739

1232.4

99.7%

99.6%

99.9%

Discoveries

No strains found that meet the discovery requirements.

Download analysis files

Assignment and Discovery Table (CSV)

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Assignment and Discovery Table (XLS)

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Consensus Sequences (FASTA)

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Assignment Consensus Sequences (FASTA)

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Discovery Consensus Sequences (FASTA)

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Consensus Contigs (FASTA)

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Assignment Consensus Contigs (FASTA)

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Discovery Consensus Contigs (FASTA)

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Unused Reads (ZIP)

unused reads file not available for download

Unused Contigs (FASTA)

unused contigs file not available for download

BAM Files (ZIP)

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