Sentence examples for bases in the reference from inspiring English sources

These changes give an error rate of only 1 in 50,000 bases in the reference sequence.

First, we enumerated all exact sequence repeats of ≥36 bases in the reference genome using MUMmer (version 3.23) [ 35].

For each alignment, the identity level was computed as the fraction of bases in the reference sequence that are paired with identical bases in the target sequence.

Enforcing the inclusion of at least one sequence of at least 1400 bases in the reference set improved results at identity thresholds lower than 0.9 visibly (Fig. S5).

The overlapping factor is calculated by the software from the two different bases in the reference and sample traces on either side of the mutation.

After quality trimming and alignment of the short reads, the percentage of bases in the reference genome covered by at least 1 and a maximum of 25 reads varied from 47.48% to 86.13% for the animals analyzed (Table 1).

We then mapped these reads to the reference genome using Pash 3.0 [22] and created a comprehensive methylation map, where each cytosine base in the reference genome is annotated with the number of times methylation is observed at that position.

In addition, any putative SNPs in low-coverage sites where the majority base differed from the reference genome but the majority consisted of only 1 or 2 bases were rejected due to lack of sufficient data, and replaced with the base in the reference genome.

To be precise about terminology, we term any base that differs from the consensus base (typically the base in the reference genome) a single nucleotide difference (SND).

In general, if a base in the reference sequence has a high enough coverage with a consistent difference from its reference, this base likely represents a polymorphism.

Each base in the reference genomes was further classified as coding or non-coding based on Ensembl genome annotation [ 31] (drosophila melanogaster_core_37_4e, and homo sapiens core_45_36g).