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Since the median of a distribution is not an accurate representation of the entire distribution, the result it returns is not sensitive enough to tell the difference between different alignments.
The TCOFFEE program uses a library of alignments in the construction of the final MSA, and its output MSA is colored according to confidence scores that reflect the agreement between different alignments in the library regarding each aligned residue.
The following angles between different alignments axes were computed to investigate the difference in axis alignment: (1) angle between PCA and TEA; (2) flexion/extension angle between MA-1 and DAA; (3) varus/valgus angle between MA-1 and DAA; (4) varus/valgus angle between MA-1 and MA-2; and (5) flexion/extension angle between MA-1 and MA-2.
A profile alignment is an algorithmic approach to identifying structural elements that are highly conserved between different alignments [ 34- 36].
Overall, the discrepancy between different alignments confirmed that the choice of alignment algorithm has a strong impact on estimates of positive selection [ 46].
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The study aimed to evaluate (1) the angular difference between different alignment axes; and (2) the effect of anterior cortex point and alignment axes on implant placement and amount of bone resected on seven implant systems.
From there, we evaluated (1) the angular difference between different alignment axes; and (2) the effect of anterior cortex point and alignment axes on implant placement and amount of bone resected on seven implant systems.
Although we have not examined for ultramicro inversions within the genome alignment generated by local alignments other than blastz, differences in the ultramicro inversions between different alignment algorithms may be helpful in verifying the behavior of the alignment algorithms involving ultramicro inversions either erroneously aligned or excluded from the local alignments.
Both S2KS and S3KS are used as the alignment phase whenever the S3KS arrival is sufficiently clear, and the agreements between different alignment phases (S2KS or S3KS) and between different methods (peak-picking or cross correlating) are used for evaluating the error of each d t 3−2 measurement.
The preformed PHF6 and IB12
In addition, we comment on relationships between different alignment quality measures (" Relationships between different alignment quality measures").
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