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Old 03-17-2010, 11:15 PM   #2
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Location: shanghai

Join Date: Sep 2009
Posts: 4
Default the format of map which is produced by Maq

read name, chromosome, position, strand, insert size from the outer coorniates of a pair, paired flag, mapping quality, single-end mapping quality, alternative mapping quality, number of mismatches of the best hit, sum of qualities of mismatched bases of the best hit, number of 0-mismatch hits of the first 24bp, number of 1-mismatch hits of the first 24bp on the reference, length of the read, read sequence and its quality
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