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GrainGenes Assembly Report: D_Genome_Assembly_1.1

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Contigset
D_Genome_Assembly_1.1
Author
Luo MC
Species
Aegilops tauschii
Date
Feb. 2005
Description
Wheat D Genome Assembly 1.1 Feb. 2005. Fingerprints were obtained with SNaPshot Fingerprinting procedure. Fragments with sizes of 150-500 bp were used. On average, each CB unit represents ca. 1.9 kb in length. Five libraries, 277,091 Clones, 1691 Markers, 7447 Contigs
Software
FPC
Parameters
Tolerance of 0.4 bp
Procedure
The contig merge was further performed based on the Assembly 1. Assembly 1 started at 1e-15, followed by step-wised DQing down to 1e-41. The clones resolved by DQing process were put back into singletons. The singleton(s) to contig end merging were performed at 1e-20. The contig end-to-end merging (requiring minimum 2 clones overlap at each end) at 1e-25 and at 1e-15 was performed at last. For Assembly_1.1 the contig end-to-end merging (requiring only one clone overlap at each end) was performed starting at 1e-25 and stepping down to the level of 1e-15.
Contigs
7447
Clones
277091
Markers
1691
Remarks
BACs with short inserts were excluded. Potential cross-contaminated and chloroplast-contaminated clones were excluded.
Web Page
http://wheat.pw.usda.gov/PhysicalMapping