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However, for the halftone-based watermarking methods, there is no uniformly accepted alignment format so far.
Moreover, there are no uniformly accepted alignment format for the methods that belong to the second category.
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Lastly, the accepted alignments from the Tophat mappings are post-processed to partition the reads into four classes: host, graft, both or neither.
Single best alignments were derived from SMS reads by accepting alignments with the highest quality scores.
Therefore Stitch accepts alignments with less than 100%% PAT.
We accepted an alignment when at least 70% of the query sequence was included in the alignment and the exonerate similarity score (ESS) ≥70.
Construction was completed in 1918, and the state accepted the alignment into the state highway system on March 15.
Only high quality reads where accepted for alignment by Novoalign [ 31].
This disagreement highlights the need for a generally accepted, rigorous alignment score.
Finally we accepted the alignments if equal or less than the 9 best alignments (after the seed extension) existed.
2. For each probe, accept any alignment whose score is within 5% of the best alignment's score.
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