Sentence examples for minimum match length from inspiring English sources
Hybrid assemblies combining Sanger and 454 reads were generated using the Newbler Assembler version 1.1.03.19 with a 50 bp minimum match length and 90% identity threshold as previously described [18].
The quality of the alignments was filtered according to the following criteria: 1) the minimum match length was set to 29 nucleotides with no gap larger than 1 nucleotide 2) alignments had to start with the DpnII site as the first nucleotides.
A minimum match length of 30 bp was used for this analysis.
We increased the minimum match length (option "−l") to 24 from the default setting of 20 to reduce spurious hits.
In BlastX analysis, a cutoff value of 1 × 10-5 and a minimum match length of 300 bp were used as the similarity threshold.
Changing the minimum match length in the compression phase would likely address this issue, yet likely at the expense of a significant fraction of the runtime performance gains.
To make the overlap to be more specific, we set the parameter of minimum matching length as 50, -repeat_stringency as 0.95 and default_qual 30.
These BLAST searches were also performed using an expect value cutoff of 1 × 10-5 and a minimum sequence match length of 50 nt.
To allocate assembled scaffolds to chromosomes, the existing X. maculatus genome with 24 cytogenetically identified chromosomes [ 10] was used as the reference to order and orient scaffolds for X. couchianus and X. hellerii using Nucmer3.0 [ 24], with the parameters of minimum cluster match length of 400 bp and max gap size of 500 bp.
Mismatches, deletions, and insertions were not allowed during mapping and the minimum perfect match lengths for the 5' and 3' subsequences were set to 16 and 14 bp, respectively.
The criteria were: the span between the 5' and 3' tags had to be less than 300,000 bp, and the minimum perfect match lengths for the 5' tag and the 3' tag had to be at least 17 bp and 15 bp, respectively, instead of 16 bp and 14 bp used in default mapping.
