Volume 21, Number 4—April 2015
Dispatch
Candidate New Rotavirus Species in Sheltered Dogs, Hungary
Table
Gene | KE135/2012 |
KE528/2012 |
|||
---|---|---|---|---|---|
Mapped read count | Average coverage (X) | Mapped read count | Average coverage (X) | ||
VP1 | 9632 | 478 | 1286 | 59 | |
VP2 | 7762 | 455 | 860 | 46 | |
VP3 | 6361 | 510 | 657 | 49 | |
VP4 | 5887 | 436 | 716 | 47 | |
VP6 | 4762 | 700 | 582 | 72 | |
VP7 | 2841 | 594 | 258 | 45 | |
NSP1 | 3677 | 450 | 561 | 62 | |
NSP2 | 2980 | 529 | 401 | 64 | |
NSP3 | 2528 | 523 | 176 | 32 | |
NSP4 | 2272 | 586 | 229 | 51 | |
NSP5 | 1098 | 387 | 249 | 72 |
*Total sequence reads to obtain genomic RNA sequence for KE135/2012 and KE 528/2012 were 1,591,803, and 144,747, respectively. The minimum overlap with the consensus sequences (i.e., the de novo assembled rotavirus I–specific consensus sequences) was 20 nt, the minimum identity was 80%. To improve the mapping results, the following gap penalties were applied for the dataset: mismatch cost = 2, insertion cost = 3, deletion cost = 3. After visual inspection of the sequence alignments and remapping onto the obtained gene sequence, a single consensus sequence was finalized for each genome segment.
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