dryad.tar.bz2

This tarball consists of three main types of files. 1. library*.sorted.bam => These are the files that resulted from using Bowtie to map the trimmed reads in the seq/ dir to the the RGSC3.4 assembly. Also included are associated index (*.bai) files 2. assembleMito.fa => This is the assembly of the sequenced rat's mitochondrial genome resulting from de novo assembly of the reads using ABySS. 3. seq/ contains the reads trimmed for contamination, adapter, and low-quality as discussed in the publication. library5* is derived from the molar. library6* is derived from the toe. *_1_* reads are forward reads; *_2_* reads are reverse reads. Any reads that lost their mate-pair during the trimming process are not included here although they were used for mapping. These reads are available from S. Singhal upon request. Note: scripts used for analysis and other data are available from S. Singhal upon request