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Exact(7)
However, the 11 nt deletion is unlikely to be a sequencing error as it is also observed in other sequenced lines (e.g., Drosophila Genetic Reference Panel [DGRP]-136 strain).
The Emu mitochondrial genome reference sequence NC_002784 showed a cytosine deletion at position 15,648 when compared with other emu sequences, this deletion was ignored for analyses as it is likely to be a sequencing error [35], the emu reference sequence was included in all subsequent analyses.
However, the third haplotype caused by a singleton SNP that was not observed in any of the remaining 31 accessions could be a sequencing error.
An allele present only in a single strain is likely either to be a sequencing error, or to represent a deleterious mutation of little evolutionary interest.
This is unlikely to be a sequencing error, as it was identified with high coverage (22 reads/bp at this position) in the transcriptome (Ewen-Campen et al., 2011) and confirmed using Sanger sequencing of independent clones generated from a different cDNA pool than that used to generate the transcriptome.
These features suggest that the sequence no longer represents a functional intein (comparisons with sequences in the trace archives suggest that most of these are genuine mutations, although one of the frameshifts within the intein is likely to be a sequencing error; data not shown).
Similar(53)
Indeed, this position turned out to be a sequence error in the database accession to be corrected into a genomic thymidine soon (Dr. M. Sugita, Nagoya, personal communication).
The appA lesion was likewise a homopolymer error and the ppdA lesion was a sequencing error.
For strain NCM4299, there were only two candidate polymorphisms with false positive scores equal to 0. The score then jumped to 5. One candidate with a good score was the real nemR (ydhM) lesion and the other was a sequencing error, as determined by checking the raw data.
MmmSC CDS should be considered as pseudogenes unless there was a sequencing error leading to an artefactual frameshift mutation.
Furthermore, our sequences show that the apparent frameshift mutation in exon 4 in the Build 1.1 assembly is a sequencing error.
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