charcoal summary report for output.gtdb-contam-dna

Summary statistics

charcoal examined 18 total genomes in output.gtdb-contam-dna.

0 could not be analyzed for contamination; see Problem Report, below.

3 had no observed contamination at any taxonomic level down to genus.

Of the remaining 15 genomes,

• 3 had their first observed contamination at superkingdom;
• 11 had their first observed contamination at phylum;
• 0 had their first observed contamination at class;
• 1 had their first observed contamination at order;
• 0 had their first observed contamination at family;
• 0 had their first observed contamination at genus.

Individual contamination reports

(Sorted by summed contamination at order level.)

• GCF_001672295.1_genomic.fna.gz taxonomic report - alignment report
• GCF_002154655.1_genomic.fna.gz taxonomic report - alignment report
• GCF_001408335.1_genomic.fna.gz taxonomic report - alignment report
• GCA_003222275.1_genomic.fna.gz taxonomic report - alignment report
• GCA_003222535.1_genomic.fna.gz taxonomic report - alignment report
• GCF_001683825.1_genomic.fna.gz taxonomic report - alignment report
• GCA_003220225.1_genomic.fna.gz taxonomic report - alignment report
• GCA_003221985.1_genomic.fna.gz taxonomic report - alignment report
• GCF_001184205.1_genomic.fna.gz taxonomic report - alignment report
• GCF_000492175.1_genomic.fna.gz taxonomic report - alignment report
• GCF_900016235.2_genomic.fna.gz taxonomic report - alignment report
• GCF_001749745.1_genomic.fna.gz taxonomic report - alignment report
• GCA_001421185.1_genomic.fna.gz taxonomic report - alignment report
• GCF_000763125.1_genomic.fna.gz taxonomic report - alignment report
• GCF_001078575.1_genomic.fna.gz taxonomic report - alignment report

Problem Report

0 genomes could not be analyzed for contamination.

Analyzed genomes for which no removable contamination was detected

3 genomes had no removable contamination at any taxonomic level down to genus.

(Some of this could be due to cryptic contamination or chimeric contigs. @CTB document.)

• GCF_000181835.1_genomic.fna.gz taxonomic report - alignment report
• GCF_001874625.1_genomic.fna.gz taxonomic report - alignment report
• GCF_002901805.1_genomic.fna.gz taxonomic report - alignment report