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A minority of the data output by the MinION™ aligned well to the known reference sequence using BLASR [ 13], ranging from 18 – 270 reads aligning with a mean alignment length of 353 bp - 651 bp.
For these 14,543 whole-gene alignments, the mean alignment length was 1,541 bp.
The mean alignment length was 176 bp with an average of 573 bp of coverage per gene.
We find that there is only a modest relationship between the mean alignment length of a category and evidence (P-value) of positive selection.
The difference in mean alignment length per contig can be seen on Figure 3 and Table 1, when excluding or including non redundant nucleotide sites.
The mean alignment length for individual genes was 762 bp, on average including 96% of the nucleotides of the new N. intermedia EST-sequence and 62% of the previously aligned sequences of the other three species.
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The average alignment length was 1,463 bp with a mean pairwise nucleotide distance, excluding indels, of 0.0175 ± 0.0101, and a median of 0.0158 (table 4).
The average alignment length was 552.8 nt.
The average alignment length was approximately 20.5 kb.
On the other hand, mean Blast alignment lengths using the 454 unigenes are approximately 2× shorter than for the Sanger unigene set (data not shown).
We required the minimal length coverage threshold to be 0.7, which means that the minimum alignment length should cover at least 70% of full length of the shortest member in a group of sequences.
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