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This threshold is considerably higher than the standard required for genomic sequencing but provides reasonable sequence coverage for gene with nonuniform transcript coverage, In addition, the alignment parameters for Bowtie resulted high confidence alignments and minimize alignments containing insertions or deletion.
For contigs with reasonable sequence coverage (length > 200 bp) and depth (> 10 reads on average per nucleotide) we detected one SNP for every 192 bp on average.
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This strategy reasonable at high sequence coverage depth and enable identification of the maximum number of exons.
Sequence coverage from ECD of multiply protonated proteins was shown to decrease with increasing number of residues,[ 2i] and it is reasonable to assume that sequence coverage from EDD of multiply deprotonated proteins is similarly affected by protein size.
According to these results, it is reasonable to postulate that unbiased sequence coverage could be obtained for all 23 chipmunk species across the western Tamias clade using the array designed from a single species transcriptome.
In our study the sequence coverage ranged between 7 and 17X for different populations and hence the choice of these packages appeared reasonable.
The sequence coverage was 69%.
The data quality was observed following to these parameters; depth of coverage (DoC), allele coverage ratios (ACRs) and sequence coverage ratios (SCRs).
Almost full sequence coverage was provided on selective exclusion monitoring.
Percentage of sequence coverage was indicated for each protein assignment.
The sequence coverage was ∼30% (data not shown).
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CEO of Professional Science Editing for Scientists @ prosciediting.com