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Not only are the fungi the most frequently sequenced kingdom within the eukaryotes, in addition the sequenced fungi have been selected to form clusters of related species, thus maximising their combined value for comparative genomics and evolutionary biology [ 7].
For the M and NS segments, we only consider the coding regions of the M1 and NS1 genes, as they are the longest and the most frequently sequenced sections of the M and NS segments.
Notably, three out four pathogens most frequently sequenced were foodborne pathogens (Additional file 1: Figure S4b).
The most frequently sequenced miRNAs (total read counts >3000) are listed in Table 2.
However, 5'end of miR159 was the most frequently sequenced site for MIR159 precursors.
The miRBase annotations of silkworm miRNAs may thus be improved based on the most frequently sequenced miRNA isoforms.
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Dasypyrum-like sequences were the most frequently retrieved sequence types overall and were amplified in all four individuals (Table 2).
Overextended alignments include non-homologous sequences; they occur most frequently between sequences that are more closely related (>33% identity).
Assuming that the most frequently found sequence was the real sequence, we calculated the error rate as 0.002 per bp.
Therefore, when sequence polymorphisms were observed, we regarded the most frequently appearing sequence as representative of the SFB genome sequence.
intermedium F/K sequences (Table 2, Figure 2), the most frequently amplified sequence type was that of Dasypyrum with 63 sequences out of 107, followed by Thinopyrum (30/107), Aegilops (8/107) and Pseudoroegneria (6/107).
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