First, sequences were sorted by decreasing abundance since the most abundant sequence is likely to be a correct sequence, while less common sequences may include artefacts due to sequencing errors or PCR artefacts.
Moreover, the recent technological advances in next generation sequencing (NGS) combining bioinformatics have generated highly abundant sequence information.
Due to the abundant sequence information available from genome projects, an increasing number of structurally unknown proteins, homologous to examples of known 3D structure, will be discovered as new targets for drug design.
Therefore, it was concluded that the most abundant sequence cluster represented putative clones of L. ochracea.
For miR-21, the reference sequence was the most abundant sequence.
The most abundant sequence of each OTU was chosen as seed sequence.
During this process the most abundant sequence was first taken as a seed and a less abundant sequence was grouped with it if both sequences were similar at k differences or less.
Additionally, we found that the most abundant sequence of miRNA-143 is not the reference sequence reported.
In 77 cases, this most abundant sequence did not correspond exactly to the current porcine miRBase 16.0 reference sequence (Table S10).
Our sequencing results reveal the presence of one isomiR (21 nt, deletion of two nt at 3' ends, 65,719 counts) as the most abundant sequence.
Excluding miR-2, for which a single mature miRNA was predicted, the other miRNAs corresponded to the most abundant sequence tags aligning with the viral genome (Table 2).
