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Bacterial genome annotation script using BLASTN v2
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This protocol uses a python based script and command-line BLASTn to annotate in a final table single-read sequencing results from genome amplifications, within other output files. Its main use in our lab (https://biocomputationlab.com) is to identify the location and gene locus of transposon inserts in microbial bacterial genomes of Pseudomonas putida KT2440. However, this script can be used for other bacterial genomes for which its genome sequence and annotation are available. Script was developed and tested in python 3.9.5 with blastn version 2.9.0, sickle version 1.33 and fastqc version 0.11.9 This is a description of the LAP entry LAPu-InsertsGenAnnotation-1.0.0 located in the LAP repository
Title: Bacterial genome annotation script using BLASTN v2
Description:
This protocol uses a python based script and command-line BLASTn to annotate in a final table single-read sequencing results from genome amplifications, within other output files.
Its main use in our lab (https://biocomputationlab.
com) is to identify the location and gene locus of transposon inserts in microbial bacterial genomes of Pseudomonas putida KT2440.
However, this script can be used for other bacterial genomes for which its genome sequence and annotation are available.
Script was developed and tested in python 3.
9.
5 with blastn version 2.
9.
0, sickle version 1.
33 and fastqc version 0.
11.
9 This is a description of the LAP entry LAPu-InsertsGenAnnotation-1.
0 located in the LAP repository.
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