Team II Functional Annotation Group: Difference between revisions
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===CRISPR=== | ===CRISPR=== | ||
CRISPRs (Clustered Regularly Interspaced Short Palindromic Repeats) are found in approximately 40% of sequenced bacterial genomes which related to Bacterial immunity regulation, cell defense mechanism, DNA rearrangement, replication, and regulation. And Klebsiella has an unusually high proportion of self-targeting spacers<br> | |||
====Tool==== | |||
Version: Piler-CR 1.06 <br> | Version: Piler-CR 1.06 <br> | ||
PILER-CR is a program which specifically designed for the identification and analysis of CRISPR repeats. The program executes rapidly and has both high sensitivity and high specificity. | PILER-CR is a program which specifically designed for the identification and analysis of CRISPR repeats. The program executes rapidly and has both high sensitivity and high specificity. | ||
Revision as of 21:33, 6 April 2018
Introduction
Functional Annotation
Data
We are given 258 assembled genomes and predicted genes of Klebsiella spp.
Approach
Protein-Coding Regions
Signaling Peptides
Transmembrane Regions
Lipoproteins
Operons
Pathways
Non-coding RNA
rRNA, tRNA, and sRNA
Please refer to "Team II Gene Prediction Group - RNA Prediction" [1]
CRISPR
CRISPRs (Clustered Regularly Interspaced Short Palindromic Repeats) are found in approximately 40% of sequenced bacterial genomes which related to Bacterial immunity regulation, cell defense mechanism, DNA rearrangement, replication, and regulation. And Klebsiella has an unusually high proportion of self-targeting spacers
Tool
Version: Piler-CR 1.06
PILER-CR is a program which specifically designed for the identification and analysis of CRISPR repeats. The program executes rapidly and has both high sensitivity and high specificity.
Input: FASTA
Performance by using reference genome:
Run-time: ~5 seconds for a 5Mb genome
CRISPR found:2