MultiPipMaker: a comparative alignment server for multiple DNA sequences.
The MultiPipMaker World Wide Web server (http://www.bx.psu.edu) provides a tool for aligning multiple DNA sequences and visualizing regions of conservation among them. This unit describes its use and gives an explanation of the resulting output files and supporting tools. Features provided by the server include alignment of up to 20 very long genomic sequences, output choices of a true, nucleotide-level multiple alignment and/or stacked, pairwise percent identity plots, and support for user-specified annotations of genomic features and arbitrary regions, with clickable links to additional information. Input sequences other than the reference can be fragmented, unordered, and unoriented.
Elnitski
Laura
L
The Pennsylvania State University, University Park, Pennsylvania.
Burhans
Richard
R
The Pennsylvania State University, University Park, Pennsylvania.
Riemer
Cathy
C
The Pennsylvania State University, University Park, Pennsylvania.
Hardison
Ross
R
The Pennsylvania State University, University Park, Pennsylvania.
Miller
Webb
W
The Pennsylvania State University, University Park, Pennsylvania.
D001483:Base Sequence; D019295:Computational Biology / Q000379:methods*; D016678:Genome / Q000235:genetics; D017408:Guidelines as Topic; D020407:Internet; D016415:Sequence Alignment / Q000379:methods*; D012984:Software