Average Nucleotide Identity (ANI)

FastANI tool: to compare draft and reference genomes

High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries.

Jain, C., Rodriguez-R, L.M., Phillippy, A.M. et al., Nature Communication (2018).

https://github.com/ParBLiSS/FastANI

Install

→ Install FastANI

Help

fastANI -h

-r <value>, --ref <value>

reference genome (fasta/fastq)[.gz]

-q <value>, --query <value>

query genome (fasta/fastq)[.gz]

°°°

Example

fastANI -q draft_genome.fasta -r reference_genome.fasta -o fastani.out

cat fastani.out

draft_genome.fasta reference_genome.fasta 96.41 330 352

Mapping result

Nucleotide Identity (ANI) = 96.41

330 of total 352 sequence fragments were aligned as orthologous matches

https://github.com/ParBLiSS/FastANI