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. 2008 Dec 23;37(3):939–944. doi: 10.1093/nar/gkn1019

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© 2008 The Author(s)

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 1. — Pseudocount evaluations for JASPAR matrix ‘MA0001’ with a sample size of 30. (A) Sequence Logo for MA0001. (B) Normalized values of the matrix based comparison methods: ED = Euclidean Distance; COS = Cosine distance; TVD = Total Variation Distance. Each line represents the average of 100 sampling replicates. Error bars show standard deviations of replicates. The comparison values are normalized to the range 0–1. (C) Normalized values of the sequence-based comparison methods: SRC = Spearman's Rank Correlation.