Sentence examples for alignment information was from inspiring English sources
Three-hundred bits of aggregate alignment information was empirically chosen as a filtering cutoff for the standard approach since the number of taxa containing only contigs with very weak (50 100) bit-scores increased substantially below that threshold.
The marsupial alignment information was used to look for potential gene duplications and we report evidence for copy number expansion of the alpha amylase gene, and of an aldehyde reductase gene.
Using in-house perl scripts, the alignment information was further parsed to generate forward and reverse mapping information at each site, resulting in a configuration of eight numbers for each line (A, a, C, c, G, g, T, t), corresponding to the number of reads mapped at each genomic position in the reference sequence.
It has been determined that this alignment information is informative to our laboratory experiments at multiple scales (e.g., whole protein, single protein domain and single amino acid) [3] [5], [13] [16].
300 bits is the default threshold as contigs containing less aggregate alignment information were commonly observed to be false positives.
Upon filtering, the remaining taxa IDs with higher amounts of alignment information are much more fragmented on average.
Alignment information is listed under each molecule.
Supplementary table S1 and supplementary alignment information are available at Genome Biology and Evolution online (http://www.gbe.oxfordjournals.org/).org/
The detailed alignment information is presented in Additional file 2: Table S1, including total numbers of reads, mapped reads, and unique mapped reads.
We have shown that split-read alignment information is very effective for predicting SV and other mutations in haploid microbial genomes, in agreement with other studies [ 11, 12].
