. Version 0.020425c, online at http://phrap.org
Base-calling of automated sequencer traces using phred
Green, "Base-calling of automated sequencer traces using phred
Raw read summary Sample Total Reads Sequence Total %GC Average base (Paired-End) Length Data quality (bp) (Mb) (Phred
score) GUT 381,074 151 114.32 50.76 35.95 Table 2.
Another example was with the PHRED
program: the six separate PHRED
units operated in relative isolation until it was recognized that the program's impact would be greater if collaboration and communication with stakeholders across sites increased.
The World Bank's Board of Executive Directors today approved a US$44 million guarantee under the Philippines Renewable Energy Project (PhRED
) to help reduce risks of commercial lending to electric cooperatives.
Generated reads with phred
scale score superior to 30 was mapped with BWA v0.7.5a program (Burrows-Wheeler Alignment Tool) using the reference genome M.
After the removal of ambiguous nucleotides, duplicates and low-quality sequences (Phred
quality scores less than 20), a total of 63,367,046 cleaned reads (78%) were obtained.
The quality of the sequences was analyzed using Phred
. Then, the contig was obtained using the CAP3 program "Sequence Assembly Program" <http:// pbil.univ-lyon1.fr/cap3.php> (HUANG et al., 1999).
Results were filtered by using a minimum Phred
(http://www.1000genomes.org/node/101) quality score (scaled probability of SNP presence) of 300 and allele count of 2.
Consensus sequences (GenBank accession numbers JQ780668 to JQ780688) were edited in Phred
Reads were quality controlled and trimmed for low-quality data (phred