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A reported alignment is considered a hit if the overlap between the reported sequence and the embedded sequence corresponds to at least half of the shorter of the two.
Reads with a reported alignment length <100 and >102 nucleotides were removed from the input file.
All reads with a reported alignment length of less than 87 and greater than 115 nucleotides were removed from the input file.
Similar(56)
We measure the specificity of the predicted blocks by computing the proportion of genes from all reported alignments or clusters that are also located in simulated blocks.
Thus, we consider the best of all reported alignments as the final alignment of the read and discard the others.
Wrong alignments may be caused by overlooking alignments with a similar score to the best reported alignment.
> -wrap-foot> For both aligners, most wrong alignments are caused by overlooking alignments with a similar score to the best reported alignment.
Alignment to the human genome resulted in an average library size of 20.4 million tags with at least one reported alignment (87.1%).
To this end, we lowered the alignment score threshold such that even single gene pairs were reported (alignment length <img src="http://journals.plos.org/plosone/article/asset?id=info?doi/10.1371/journal.pone.0008861.e029.PNG" class= inline-graphic"/> ).
What is the quality of the reported alignment?
Reported alignment precision for tibial components exceeds ±3° in approximately 50% of TKR [ 10] and exceeds ±10° in approximately 30% of TKR [ 15].
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com