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. 2011 May 24;12:198. doi: 10.1186/1471-2105-12-198

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Copyright ©2011 Zhang and Sun; licensee BioMed Central Ltd.

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

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Change of HMMER alignments' scores, lengths, and E-values (in log space) before and after error correction for nifH sequences. HMMER 3.0 alignments of sequences before and after error correction by HMM-FRAME. The changes of alignments are presented for 256 sequences in which HMM-FRAME detects errors. "Original" refers to HMMER 3.0 alignments on sequences before error correction. "Corrected" refers to HMMER 3.0 alignments on sequences after error correction by HMM-FRAME. As a comparison, we also plot the length of the original sequence reads (with the legend "sequence read"). They largely overlap with the length of corrected alignments, indicating that complete sequence reads can be aligned with the nifH profile HMM after error correction.