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Gap penalties also modify alignment length and identity; increased gap penalties produce shorter higher identity alignments, whereas lower gap penalties produce longer lower identity alignments (Fig. 3).
However, the present study appears to be the first to report on an orthosis that can modify alignment in healthy elderly participants without spinal deformity or chronic LBP.
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The multialignment of overlapping reads to each reference read is used to detect likely sequencing errors and modify alignments accordingly.
Thus, we tried a modified alignment score SL that penalizes sparsely distributed matches compared to locally enriched 'match blocks'.
The modified alignment was then used to generate a phylogenetic tree using Maximum Likelihood (Guindon et al., 2010).
AMTP sequences generated for this study (Additional file 4) were included in a modified alignment from [ 10] and phylogenetic analysis was performed as in [ 10].
Therefore, we investigated whether standard and the suggested modified alignment parameters will provide similar divergence estimates between the ancient and modern horse.
For this purpose, we analyzed test samples by aligning their microarray profiles against the annotated and normalized GeneSapiens microarray reference database and applied a slightly modified alignment of gene expression profiles (AGEP) method - weighted AGEP (wAGEP) - which we recently developed and described for classification of cell differentiation patterns [ 22].
All modified alignments were concatenated into a single data set for phylogeny estimation.
The presence of that additional light changed the speed at which light waves of different wavelength zip along to modify the alignment of the waves.
The construction of Interstate 15 (I-15) in the Parowan area caused the state legislature to twice modify the alignment of SR-143.
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