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Example sentences for: calculated

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Pairwise distances to be used in RIO analyses were calculated using the "full" alignments (as opposed to the smaller curated "seed" alignments) from Pfam 6.6 (August 2001, 3071 families, [ 8 ] ). Sequences from species not present in the master species tree were removed from the alignments.
The three datasets collected for each protocol were averaged and correlation coefficients calculated between the resulting composite datasets.
On the other hand, the very high Van der Waals repulsions calculated Table 1(bottom) for alpha4-beta4 and alpha7-alpha7 are a clear indication of a steric clash (Figure 5D): the ligand fits next to Ala 135 of beta2, but cannot accommodate Leu 135 of beta4.
To identify the best alignments of the Kir and KirBac families to the transmembrane segments of these families, similarities of the sequence profiles were calculated as described in the Methods for different alignments of KirBac's for both the M1 and M2 segments.
The number of dead cells for the extended growth curve experiment was calculated by counting trypan blue incorporated cells using a hemocytometer.