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The mean coverage for the leptin gene was ~ 80× [26].
The mean coverage for transcribed genome sequences and gene models was 21 and 27, respectively.
The mean coverage for bases within target regions was 70-fold and 92 % had at least 10-fold coverage.
The mean coverage for each transcript was then calculated by averaging the coverage for each nucleotide within the transcript.
When the contigs/scaffolds of known position are used, the mean coverage for strains H5 and W11 is 75× and 60×, respectively.
SAMtools MPILEUP was used to obtain coverage for each position of a putative transcript and the mean coverage for each node calculated using a custom Perl script.
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The mean coverage of the Illumina HiSeq2000 reads for the 47 D. pseudoobscura strains on the third chromosome varied from a low of 31× to a high of 57×.
The coverage from the "muscle" group was higher than for exomes derived from both blood and fibroblast DNA, for which the mean coverage of mtDNA showed a range from 3-fold to 207-fold (blood exome mean = 22-fold, n = 25; fibroblast exome mean = 24-fold, n = 13).
The mean coverage achieved for each sample was 1196 for Panel A and 1309 for Panel B. All detected variants showed a mean coverage of 592 and a mean Qscore of 39 (99.87 % accuracy).
The mean coverage values for all transcripts were plotted to determine the changes in expression levels through the pathways.
The mean coverage was 92× for tumor tissue and 65× for normal tissue.
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