Author: Han Suh Kang; Katelyn McNair; Daniel A. Cuevas; Barbara A. Bailey; Anca M. Segall; Robert A. Edwards
Title: Prophage genomics reveals patterns in phage genome organization and replication Document date: 2017_3_7
ID: 0abutzb3_19
Snippet: A total of 24,936 integrase (Int) gene sequences were extracted from the high-quality manually curated dataset and clustered using CD-HIT (24) at a 90% 24,936 similarity threshold (an approximate virus "species" demarcation (16, 18) to produce 8,536 protein clusters. A representative of each cluster was used in the phylogenetic assessment of the 24,936 genes. In addition, short motifs were identified in the Int genes by using k-mer profiles for k.....
Document: A total of 24,936 integrase (Int) gene sequences were extracted from the high-quality manually curated dataset and clustered using CD-HIT (24) at a 90% 24,936 similarity threshold (an approximate virus "species" demarcation (16, 18) to produce 8,536 protein clusters. A representative of each cluster was used in the phylogenetic assessment of the 24,936 genes. In addition, short motifs were identified in the Int genes by using k-mer profiles for k from 4 to 7 amino acids long.
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