SIM4 - a program to align cDNA and genomic DNA
SIM4 addresses the problem of efficiently aligning a transcribed and spliced DNA sequence (mRNA, EST) with a genomic sequence containing that gene, allowing for introns in the genomic sequence (taking into account consensus splice signals) and a relatively small number of sequencing errors.
Please site: Florea L, Hartzell G, Zhang Z, Rubin GM, Miller W. A computer program for aligning a cDNA sequence with a genomic DNA sequence. Genome Res. 1998 8:967-74
SIM4 program is available at Webb Miller's Globin Gene Server: http://globin.cse.psu.edu/
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