Selected article for: "consensus sequence and quality score"
Author: Joyjinda, Yutthana; Rodpan, Apaporn; Chartpituck, Pongtorn; Suthum, Krairerk; Yaemsakul, Suphaluk; Cheun-Arom, Thaniwan; Bunprakob, Saowalak; Olival, Kevin J.; Stokes, Martha M.; Hemachudha, Thiravat; Wacharapluesadee, Supaporn
Title: First Complete Genome Sequence of Human Coronavirus HKU1 from a Nonill Bat Guano Miner in Thailand
  • Document date: 2019_2_7
    • ID: 10r5p0nu_3
    Snippet: A total of 59,704,490 sequencing reads from 2 Ï« 150-bp paired ends which, passing a quality score of 30, was used for data analysis. Host DNA (human genome from GATK resource bundle) removal was done using the SNAP (version 0.15.4) alignment tool (6) . Mapping assembly was performed using HKU1 (GenBank accession number AY884001) as the reference strain by using the Burrows-Wheeler Aligner (BWA) program (7) . A total of 6,475,827 reads mapped to .....
    Document: A total of 59,704,490 sequencing reads from 2 Ï« 150-bp paired ends which, passing a quality score of 30, was used for data analysis. Host DNA (human genome from GATK resource bundle) removal was done using the SNAP (version 0.15.4) alignment tool (6) . Mapping assembly was performed using HKU1 (GenBank accession number AY884001) as the reference strain by using the Burrows-Wheeler Aligner (BWA) program (7) . A total of 6,475,827 reads mapped to HCoV-HKU1 at a depth of 29,000Ï«, which covered the whole genome of 29,811 bp. The consensus sequence of HCoV-HKU1 with a GÏ©C content of 65% was generated using SAMtools mpileup (8) . This is the first complete genome of HCoV-HKU1 isolated from Thailand.

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