Charcoal alignment report for genome GCF_001078575.1_genomic.fna.gz

filtering dirty alignments to query size >= 500 and identity >= 95%

dirty bases: 75.0kb of alignments to query genome, across all targets.

filtering clean alignments to query size >= 500 and identity >= 95%

clean bases: 2997.1kb of alignments to query genome, across all targets.

filtering dirty alignments to query size >= 500 and identity >= 95%

filtering dirty alignments to min query coverage 50%

dirty bases: 35.0kb of alignments to query genome, across all targets.

removing 53kb total in contigs >= 50% dirty, based on alignments at 95% identity over 0.5kb or more

Alignment views

showing 349 clean alignments total.

showing 3 dirty alignments total.

Contig alignment report

dirty bases: 35.0kb of alignments to query genome, across all targets.

contig name NZ_LFZM01000042.1, total size 53kb, of which 35kb (66%) aligns to other genomes with a taxonomic mismatch.

• 35kb aligns to genome GCF_001439845.1, contig NZ_JYLO01000009.1 at 99.1% identity

  • alignment from query NZ_LFZM01000042.1[0:34999] to database NZ_JYLO01000009.1[87071:121013]
  • disagreement at rank 'order'; query lineage o__Burkholderiales, database lineage o__Pseudomonadales

• 15kb aligns to genome GCA_002313655.1, contig DCCB01000020.1 at 97.9% identity

  • alignment from query NZ_LFZM01000042.1[15000:29999] to database DCCB01000020.1[46148:32500]
  • disagreement at rank 'order'; query lineage o__Burkholderiales, database lineage o__Pseudomonadales

• 30kb aligns to genome GCF_900089755.1, contig NZ_FLOC01000018.1 at 98.2% identity

  • alignment from query NZ_LFZM01000042.1[0:29999] to database NZ_FLOC01000018.1[32789:4648]
  • disagreement at rank 'order'; query lineage o__Burkholderiales, database lineage o__Pseudomonadales