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The crude alignment was extensively manually improved according to the conserved secondary structural elements of the motor domain, which were obtained from a superposition of all crystal structures (Kollmar, unpublished data).
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Thus a crude multiple alignment across such sequences may overly produce insertion and/or deletions.
Coverage (in various forms handled in the current scoring functions) is a crude approximation of the (alignment) hypothesis complexity.
After hand correction of crude sequences in MEGA3, alignments were performed using the reference sequences from SIVmac239 as root (Ac# M33262).
The absurdities inherent in the right/wrong left dichotomy are exposed when observers use such crude stereotypes to explain international alignments or conflicts.
There was no association between preoperative varus alignment and preoperative KOOS pain, crude analysis 0.02 points (95% CI -0.6 - 0.7) change in pain with every degree of HKA angle, adjusted analysis 0.3 points (95% CI -1.3 - 0.6).
Further, most current alignment algorithms only use a crude classification of amino-acid conservation rather than a quantitative measurement such as those presented in an amino-acid substitution matrix.
There was no association between preoperative varus alignment and preoperative KOOS pain either crude or adjusted (Table 2).
There was neither any association between change in knee alignment and change in KOOS pain over time, crude analysis 0.3 point (95% CI -0.6 - 1.2), adjusted analysis 0.4 points (95% CI 0.6 - 1.4).
The strategy of bioinformatics to database analysis remains the same, variety of diverse crude sequences combined by cluster analysis in contigs should be subjected to alignment search tools and function classification by gene ontologies.
In particular, negligible alignment was observed for PAO amplicons obtained from a MMC performing excellent EBPR on crude glycerol (an atypical substrate).
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