windowmasker
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windowmasker [2010/02/03 07:30] – 172.26.0.166 | windowmasker [2010/05/22 14:19] – external edit 127.0.0.1 | ||
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==== WindowMasker: | ==== WindowMasker: | ||
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WindowMasker is a denovo repeat finder from the NCBI, published in 2006, A denovo repeat finder is a program designed to find repeats in DNA sequence without using the RepeatMasker. RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences. The output of the program is a detailed annotation of the repeats that are present in the query sequence as well as a modified version of the query sequence in which all the annotated repeats have been masked (default: replaced by Ns). On average, almost 50% of a human genomic DNA sequence currently will be masked by the program. Sequence comparisons in RepeatMasker are performed by the program cross_match, | WindowMasker is a denovo repeat finder from the NCBI, published in 2006, A denovo repeat finder is a program designed to find repeats in DNA sequence without using the RepeatMasker. RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences. The output of the program is a detailed annotation of the repeats that are present in the query sequence as well as a modified version of the query sequence in which all the annotated repeats have been masked (default: replaced by Ns). On average, almost 50% of a human genomic DNA sequence currently will be masked by the program. Sequence comparisons in RepeatMasker are performed by the program cross_match, | ||
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- | ====MOTIVATION==== Matches to repetitive sequences are usually undesirable in the output of DNA database searches. Repetitive sequences need not be matched to a query, if they can be masked in the database. RepeatMasker/ | + | |
+ | ==== MOTIVATION ==== | ||
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+ | Matches to repetitive sequences are usually undesirable in the output of DNA database searches. Repetitive sequences need not be matched to a query, if they can be masked in the database. RepeatMasker/ |