Sentence examples for forward alignment from inspiring English sources
If an inverted alignment region largely or completely overlapping the corresponding forward alignment, and if the inversion was aligned with higher similarity than the corresponding forward alignment based on following the criteria stated below, we defined the inverted region as an ultramicro inversion.
We use two different score evaluation parameter sets for the forward alignment (where the two back-translated graphs that are aligned have the same translation sense) and the reverse complementary alignment (where one of the graphs is aligned with the reverse complementary of the other), because these are two independent cases with different score distributions.
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The corresponding forward alignment included the trio.
Similarity of the inverted alignment was >0.95, which was >1.25 times higher than that of the forward alignment.
(i) For the region based on Ptrio(n) < 0.05, the inverted alignment region was completely included within the forward alignment region, or >80% of the inverted region overlapped with the corresponding forward alignment region whereas the rest of the inverted region was aligned as gaps in the forward alignment.
Ambiguously aligned regions were excluded using GBlocks (Talavera and Castresana 2007) and double-checked with HoT (Landan and Graur 2007), retaining positions that were identically aligned in the reverse and forward alignments.
Assuming that the sequence differences are spread across the genome following a negative binominal distribution, we determined if these regions could be aligned inversely with greater similarity than the forward alignments (See Methods).
Forward to forward alignments are show in normal text, forward to reverse alignments are shown in italics.
Similarly F. ge and F. te will denote the ending position of the respective sequences; e.g. for forward alignments, F. ge= F. gs+ F. len−1 and F. te= F. ts+ F. len−1.
If a reporter has alignments in the reverse direction, but also has at least one high-quality forward alignments to a RefSeq RNA whose status is more definite than "model", then the reverse alignments are ignored and the reporter remains under consideration for being fully valid or RefSeq RNA valid.
