Sentence examples for alignment of scaffold from inspiring English sources
Alignment of scaffold 2842 from Tcm with Tcc CLBR showed that it aligned close to the end of chromosome 37 and was flanked by VIPER elements and an ATPase gene.
Alignment of scaffold 4 to C. heterostrophus indicated that a region of 156 kb including PtrToxA was absent in the corn pathogen but the homologous flanking regions were present in both species (Manning et al. 2013).
Bottom panel shows alignments of scaffold containing the Trichoderma 14 module peptaibol genes.
A chimeric contig incorporated into a scaffold breaks the alignment of the scaffold against the reference into two parts of which only the longer one is considered in our validation method when computing genome and scaffold coverage.
Alignment of this scaffold in Tr. atroviride (scaffold 29) to those of Tr. virens and Tr.
When the longest alignment is more than twice of the second one in length, we consider it as the best alignment of this scaffold and link the wild goat's scaffold with the aligned loci in the domestic goat's chromosome.
When a reference sequence is available, genome assemblies can be assessed by how much of the reference is covered by alignments of scaffolds to the reference.
Two of these key metrics are based on alignments of scaffolds to optical maps and these metrics sometimes revealed very different pictures of assembly quality.
The first is the set of assembled scaffold lengths, (Si); next, a set of reference sequence lengths (Ri); then the lengths of the alignments of scaffolds to the reference (Ai); and finally the lengths of the 'coverage islands' (Ci), which consist of ranges of continuous coverage (on a reference sequence) by one or more alignment(s) from the assembly.
A total of 2468 scaffolds containing approximately 346 Mbp were ordered by this alignment of tef scaffolds to sorghum chromosomes.
To assess precisely how coding sequences (CDS) were represented in de novo assemblies, we calculated the percent of aligned bases in the CDS from dnadiff after a NUCmer alignment of the scaffolds against the CDS sequences.
