Sentence examples for minimum alignment identity from inspiring English sources

To accommodate possible biases of this read mapping approach, additional DNA and RNA-seq read mappings were performed with CLC Genomics Workbench v 6.5 (mapping parameters: minimum 90% of read aligned and minimum alignment identity 95%), and resulting polymorphisms compared.

For the definition of a valid genome mapping, we used the following criteria: minimum alignment identity and the minimum coverage of the EST sequence of at least 80%.

When either minimum alignment identity or coverage is increased, more gene families are formed and fluidity increases (see Additional file 1, Figure S5).

SNPs located in repeat regions can be partially recalled by using less stringent filtering parameters (e.g. minimum alignment identity or matched read length) or longer reads.

The alignment behavior of short peptides was examined in detail by Sander and Schneider [ 34] and Rost [ 35] who showed that segments of proteins having alignment lengths between 10 and 80 aa are structural homologs provided the corresponding minimum alignment identities are 40 80 %.

First, unpaired reads of individual BAC clones were assembled using algorithm optimised for large complex genomes and following (default) settings: Minimum read length – 20 bp; Seed step – 12; Seed length – 16; Seed count – 1; Minimum overlap length – 40; Minimum overlap identity – 90%; Alignment identity score – 2; and Alignment difference score – minus 3.

The EST alignments were filtered based on requirements for minimum alignment length and sequence identity in order to differentiate cases in which the amino acid sequences were supported by a strong alignment from the cases in which the alignment indicated a paralog rather than a direct validation of the sequence by genomic data.

The pepper genome matches were filtered at 98% identity, minimum alignment length of 200 nucleotides (nt), and a maximum of 50 unaligned nt at either end of the unigene.

The Newbler assembly method was found to be optimal (see supplementary section S1, Supplementary Material online) using the parameters: Seed step = 12, seed length = 16, seed count = 1, minimum overlap length = 40, minimum overlap identity = 90%, alignment identity score = 2, and alignment difference score = −3.

P is iteratively extended from the current last node to the node connected with the highest edge weight, provided that it has a specified minimum alignment length l A,min and minimum percentage alignment identity f A,min.

riboPicker uses query sequence coverage, alignment identity and minimum alignment length thresholds to determine if an input sequence is an rRNA-like sequence or not.