miR5300 sequences were excluded from the analysis because of their substantially longer precursor sequences (∼265 bp) and their partial switch of the 5′- and 3′-precursor arm.
Our new sequences, or sequences that were substantially longer than database sequences, have been submitted to the EMBL database with the accession numbers FR729668- FR729726.
Counting such base pairs as false positives would be bias against sequences substantially longer than the consensus.
Even though the length is substantially longer than other high-throughput sequencing techniques, such as SOLiD and Illumina sequencing [ 29], the difference compared to Sanger-based sequencing is notable.
However, in one case the map length based on the genome sequence was substantially longer than that using the MapDisto order.
Note however, that these sequences are substantially longer than the assembled Z. viviparus transcripts.
However, until the sequencing cost reduces significantly with substantially longer reads the de novo assembly of all genotypes representing a species is unfeasible and this approach is usually restricted to the detection of inter-species variation.
Average read length in our study was 232 bp, close to the lengths obtained in other recent studies that used the GS-FLX platform for sequencing [ 17, 18, 21], but substantially longer than early studies that used the GS-20 platform where read lengths were 100 to 110 bp [ 16, 19, 21].
The development of newer technologies, including nanopore sequencing [ 140], could bring about substantially lowered cost, increased convenience, and a potentially simplified bioinformatics pipeline with longer sequence reads.
BAC sequencing in Ambystoma demonstrated that salamander introns are substantially longer than human, chicken, and frog introns.
