Download PDF by Annette M. Griffin, Hugh G. Griffin: Computer Analysis of Sequence Data Part II (Methods in

By Annette M. Griffin, Hugh G. Griffin

ISBN-10: 0896032760

ISBN-13: 9780896032767

Institute of foodstuff examine, Norwich, U.K. equipment in Molecular Biology sequence, quantity 25. moment quantity finishing a realistic reduction for nucleic acid series researchers who use desktops to obtain, shop, or study their facts. Plastic comb binding. 15 participants, five U.S.

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Additional info for Computer Analysis of Sequence Data Part II (Methods in Molecular Biology)

Example text

1. , “@ 123” positions the cursor at base 123 of the sequence in which the cursor lies. , “+1234” will advance the cursor 1234 bases. If possible, the cursor is positioned within the same sequence. 2. Sequencing Projects SEARCH BY READING 53 NAME This positions the cursor at the left end of the gel reading specified in the value text window. If the value is prefixed with a slash, it is assumed to be a gel reading name. 3. SEARCH BY TAG TYPE This positions the cursor at the start of the next tag that has the same type as specified by the type value menu.

Screening for “Vectors” This function is contained in both SAP and XDAP and operates on single readings or processes batches accessed through files of file names. The algorithm looks for exact matches of length “minimum match length” and displays the overlapping sequences. 1. ” 2. ” This is the input file of file names. 3. ” This is a file of file names for those readings that do not contain the vector sequence. After the run, it will contain the names of all the files in the batch that do not match the vector sequence.

F. Two alternative programs for managing sequencing projects are described. They contain the same assembly and vector screening routines, but they differ in their editing methods. One program SAP (see refs. [1,2]) can be operated from simple terminals and emulators, but the other XDAP (3), requires an X terminal or emulator. XDAP contains a superior editor plus the facility to annotate sequences and display the colored traces for data derived from fluorescent sequencing machines. Those using autoradiographs will find that SAP is adequate, but XDAP is essential for users of fluorescent sequencing machines.

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Computer Analysis of Sequence Data Part II (Methods in Molecular Biology) by Annette M. Griffin, Hugh G. Griffin

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