RepeatModeler and SSR finder derived mapped loci to chromosomes 1 to 12 of Capsicum baccatum and Capsicum chinense

Published: 26 April 2024| Version 1 | DOI: 10.17632/dj294yyr9b.1
Contributors:
Mauro Grabiele,

Description

This dataset contains annotated repetitive loci files of the cultivated hot chili peppers Capsicum baccatum and Capsicum chinense. Genome assemblies GCA_002271885.2_ASM227188v2 and GCA_002271895.2_ASM227189v2 were characterized via the RepeatModeler and SSR finder tools. The resultant annotated repetitive loci files are valuable and now available to the interested community for downstream analysis.

Files

Steps to reproduce

Analyzed genomes are available at: https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/002/271/885/GCA_002271885.2_ASM227188v2/ https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/002/271/895/GCA_002271895.2_ASM227189v2/ Methods: RepeatModeler 2.0.1 (Search Engine = rmblast 2.2.27; Dependencies: TRF 4.09, RECON, RepeatScout 1.0.5, RepeatMasker 4.1.0) by default mode. SSR finder 1.0 (Dinucleotides: ssr_2_tb : 5; Trinucleotides: ssr_3_tb : 4; Tetranucleotides: ssr_4_tb : 3; Pentanucleotides: ssr_5_tb : 3; Hexanucleotides: ssr_6_tb : 3).

Institutions

Consejo Nacional de Investigaciones Cientificas y Tecnicas, Universidad Nacional de Misiones Facultad de Ciencias Exactas Quimicas y Naturales

Categories

Crop Genetics, Computational Biology, DNA Repeated Sequence

Licence