Abstract
We address the problem of efficiently aligning a transcribed and spliced DNA sequence with a genomic sequence containing that gene, allowing for introns in the genomic sequence and a relatively small number of sequencing errors. A freely available computer program, described herein, solves the problem for a 100-kb genomic sequence in a few seconds on a workstation.
Publication types
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Research Support, U.S. Gov't, P.H.S.
MeSH terms
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Algorithms
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Animals
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Computational Biology
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DNA / genetics*
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DNA, Complementary / genetics*
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Drosophila melanogaster / genetics
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Expressed Sequence Tags
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Genome*
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Humans
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Mice
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RNA, Messenger / genetics
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Sequence Alignment / methods*
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Sequence Homology, Nucleic Acid
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Software*
Substances
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DNA, Complementary
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RNA, Messenger
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DNA