Sentence examples for consensus length that from inspiring English sources

The combined length of cpDNA (psbA- trnH and trnL- trnF) varied from 1,408 to 1,438 bp and aligned with a 1,452 bp consensus length that contained 14 polymorphic sites and 16 indels (Additional file 2: Table S2).

To overcome the 12 bp limitation of Weeder, de-novo motifs that contained a pattern matching to at least a half-site of the known PPRE consensus were extended to a reasonable length that would contain the full PPRE consensus and were refined in an EM-like optimization using random genomic sequences as background [28].

To increase accuracy, we limited our analysis to trimmed consensus sequences >330 bp in length that were estimated from at least five element copies, each of which we required to be >300 bp in length and ≥80% identical to the estimated consensus.

These are consensus motif sequences, generally 6- to 14-nt in length, that are conserved in the human/mouse/rat alignment.

The aligned nrDNA (ITS4-ITS5) matrangednged from 1,079 to 1,087 bp with a consensus length of 1,100 bp that contained 32 polymorphic sites and 11 indels (Additional file 3: Table S3).

Using Blgr_refTEs_FL genome annotation, we extracted all the full-length fragments (alignment length between 95 and 105 % of the TE consensus length) corresponding to the seven TE consensus sequences that were homologous to full-length Avrk1 from Bgh isolate CC148 [ 4] at the expected location of an ORF1 of a LINE retrotransposon, together with 3000 bp flanking sequence on each side.

We considered only Blast hits that corresponded to at least 70% of the consensus length.

We set the expected length to be equal to the consensus length of the CM, a proxy for the expected length of that CM.

Varying motif lengths were attempted to identify the correct consensus length.

We tuned this parameter to get model lengths reasonably close to the consensus length.

For this work, we designed overlapping resequencing libraries Ll by sliding a window of length l over a consensus sequence that covers each base in a gene several times.