[BiO BB] Sequence alignment to whole genome sequence

[Stefanie Lager]

Software for EST/cDNA to genome alignment might work.

Wu TD, Watanabe CK. 
 GMAP: a genomic mapping and alignment program for mRNA and EST sequences.
Bioinformatics. 2005 May 1;21(9):1859-75. Epub 2005 Feb 22. 

Slater GS, Birney E. 
 Automated generation of heuristics for biological sequence comparison.
BMC Bioinformatics. 2005 Feb 15;6(1):31. 

> Hi,
> 
> what is/are the most appropriate tools/software to align
> hundreds of  700 bp sequences to a whole genome
> sequence (around 8Mb) of a closely related species/strain?
> 
> TIA for your input,
> Edith
> 
> 
> ******************************************
> Dr Edith Schlagenhauf
> Bioinformatics
> Institute of Plant Biology
> University of Zurich
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> SWITZERLAND
> 
> e-mail: ediths AT botinst DOT unizh DOT ch
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