The reason for the low proportion of indistinguishable sequences in O. sativa was not clear.
Arabidopsis thaliana had almost whole mitochondrial genome integration on Chromosome 2 that caused inflation of the proportion of indistinguishable sequences.
The proportion of indistinguishable sequences varied from 0.2 (L. japonicus) to 38.1% (V. vinifera) that were similar to that of sequences similar between chloroplast and mitochondrial genomes.
This finding is in contrast to the indistinguishable sequences of B. pertussis, B. parapertussis, B. bronchiseptica, and the closely related B. homlseii, which can be a limitation of 16S rRNA gene sequencing for the genus Bordetella, particularly when only the first 500 bp are evaluated.
The LEDGF/p75 knockdown cells showed an indistinguishable consensus sequence (Figure 3C), providing evidence against the view that LEDGF/p75 is involved in specifying the target sequence preference.
Such similarity measure has been exploited to identify functioning genes among candidates otherwise indistinguishable from sequence annotations.
The C- IV) genes outside the α-operon are indistinguishable in sequenC- IVom the C-(IV) genes inside, including the loutsidea charactheistic seven residue indel.
However, the fixation dynamic of these GC-alleles is similar to the one that is caused by BGC [ 44] and therefore these scenarios are indistinguishable by sequence comparison [ 43].
As polymorphism in natural populations is dominated by low frequency variants [ 9], which are often indistinguishable from sequencing errors, using the new sequencing technologies to estimate polymorphism will remain a challenge in the near future.
Unfortunately, the high error rates both of cDNA synthesis (3 6 × 10^−5 per nucleotide) (primary sources 15 17) and of high-throughput sequencing technologies (possibly as high as 10^−2 10^−3 per nucleotide) (primary sources 18, 19) renders the transcription errors obtained by conventional RNAseq indistinguishable from sequencing artifacts.
These differences are indistinguishable from sequencing errors in the read-alignment step where alignment algorithms allow for mismatches and small insertions or deletions (indels).
