BULLET: a computer simulation of shotgun DNA sequencing.
BULLET is a computer program that simulates shotgun sequencing of DNA. The program has been used to simulate the sequencing of DNA fragments from 2 to 30 kb. To obtain 80% single or double-stranded sequence, a doubling of the DNA fragment size necessitates twice the number of sequencing reactions. However, a similar linear relationship does not apply to the determination of 100% single or double-stranded sequence. Data from BULLET were used to derive simple linear formulae that estimate the number of sequencing reactions necessary to partially sequence a fragment of DNA irrespective of size. When 80% of the double-stranded sequence has been determined, approximately 98% of single-stranded sequence will be known. This is a reasonable point to change to a more directed strategy of DNA sequencing.
Smith
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Department of Pathology and Laboratory Medicine, Emory University, Atlanta, GA 30322, USA.
Bernstein
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KE
D000465:Algorithms; D003198:Computer Simulation; D017422:Sequence Analysis, DNA / Q000379:methods*; D012984:Software