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Loci in both wild emmer and T. aestivum for which empirical estimates of θ π exceeded the upper bound were excluded from estimation of sequence diversity.
Model-based estimation of sequence divergence and diversity from sequence samples is a ubiquitous technique in HIV literature [36].
Read length, sequencing error, and the amount of sequence obtained all play a role in the estimation of sequence diversity and error, and methods to account for all of these are constantly evolving.
b) Inaccurate estimation of sequence specificity of RNase digestion.
Fasta formatted data used for estimation of sequence divergence between genomic housekeeping genes and Hel-2 elements among Lepidoptera.
For estimation of sequence divergence from element consensus sequences, sequences were aligned using POA (Lee et al. 2002).
Similar(47)
Owing to its simultaneous estimation of sequence-based frequencies for both codons and codon positions, an analytical length-correction factor, such as the one implemented for the MILC-based expression level predictor, is impracticable for RCBS.
These Sanger sequences were used as a reference in the estimation of sequencing error rates.
MACS1.4 provides the option of including a control file that allows estimation of sequencing bias across the genome, which is then used in calculating the likelihood of a ChIP-peak at each genomic region sampled [ 19].
Furthermore, numerical characterisation techniques based on graphical representations have enabled quantitative estimations of sequence similarities and dissimilarities [see review 14].
Because of the analytical challenges associated with highly divergent sequences, we inferred phylogenies for OBPs and CSPs within the eusocial Hymenoptera using Bayesian co-estimation of sequence alignment and phylogeny, as well as traditional multiple sequence alignment with maximum likelihood tree inference.
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