Sentence examples for sequences contaminated with from inspiring English sources
Among them, 431 (2.3%) sequences were eliminated after masking vector sequences and sequences contaminated with bacterial and organelle genomes using CROSS_ MATCH and BLASTN searches [ 28, 29].
The high-quality sequence data were then filtered for sequences contaminated with Escherichia coli or with plant organelle genomes based on matches to the wheat mitochondria and chloroplast sequences.
Sequences contaminated with pBluescript vector or E. coli gene sequences were removed as were sequences with fewer than 100 good bases (i.e., quality value < 25) and sequences with more than 5% ambiguous bases (i.e.e 'N').e
Specifically, the first 100 points of the sequence denoted "Noise Only" in Fig. 1 consists of a median filter root sequence, contaminated with both low-level Gaussian noise and impulsive noise spikes.
Finally, to avoid contamination with fungal sequences existing in ITS2 sequences, a Hidden Markov Model (HMM) [ 31] based on well-curated fungal sequences was used to search for downloaded ITS2 sequences to remove the sequences possibly contaminated with fungi.
Contig sequences were blasted against the adaptor sequences used for both the library preparation and the sequencing to insure that none of the contig sequences were contaminated with adaptors.
We also cleared adaptor sequences, contaminated sequences and sequences containing poly(A) tails to obtain clean reads (18 ~35 nt) observed with at least three times and unique tags.
As pointed out previously, intergenic sequences might indicate that the sequence is contaminated with genomic DNA [17].
There is no evidence that the O. taurus sequences are significantly contaminated with sequences from other taxa.
Is it necessary and cost-effective to perform special handling of human sequencing reads contaminated with mouse data?
While our analysis does not exclude the possibility that the CPC98 mtDNA genome sequence has been contaminated with a modern haplogroup P sequence, this scenario seems unlikely given the extremely low frequency of this haplogroup in modern samples [6], [8], [14], [16], [17].
