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. 2006 Mar 6;34(5):1317–1325. doi: 10.1093/nar/gkj518

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© The Author 2006. Published by Oxford University Press. All rights reserved

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Prediction of experimentally measured transactivation activity by the Align-GVGD scoring method. (A) The specificity (ratio of correctly predicted deleterious mutants versus the total number of observed non-functional mutants) and sensitivity (ratio of correctly predicted neutral mutants versus the total number of observed functional mutants) of the predictions are shown for four different MSA. As more divergent sequences are added to the MSA, the predictions improve and show a substantial increase in specificity with only a comparatively slight decrease in sensitivity. (B) PV for predicted deleterious and predicted neutral mutants at the four sequence levels are depicted. While the PV for predicted neutral mutants is relatively unchanged, the PV for predicted deleterious mutants increases when more divergent sequences are added to the MSA.