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Better example ouput
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tseemann committed Apr 6, 2015
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Expand Up @@ -7,8 +7,10 @@ By Torsten Seemann | [@torstenseemann](https://twitter.com/torstenseemann) | [bl
##Quick Start

```
% abricate Klebsiella.fasta
% abricate 6008.fasta
#FILE SEQUENCE START END GENE COVERAGE COVERAGE_MAP GAPS %COVERAGE %IDENTITY
Processing: 6008.fna
Found 12 ABR genes in 6008.fna
Klebsiella.fna NC_021232.1 872545 872964 fosA 1-420/420 =============== 0 100.00 100.00
Klebsiella.fna NC_021232.1 1381252 1382427 oqxA 1-1176/1176 =============== 0 100.00 99.32
Klebsiella.fna NC_021232.1 2584899 2585759 blaSHV1 1-861/861 =============== 0 100.00 99.88
Expand All @@ -31,7 +33,10 @@ If you don't use Brew, you will also need to make sure you have BLAST+ installed

##Input

Abricate takes FASTA contig files.
Abricate takes FASTA contig files. It can take multiple fasta files at once!

% abricate ref.fa strains*.fasta /ncbi/Ecoli/*.fna

It does not accept raw FASTQ reads; please see [SRTS2](https://github.com/katholt/srst2) for that.

##Output
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