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New Sanger Centre Naming Scheme

Filename
sanger_names_new.p4t

Description
This component extracts information from sequence names by assuming that they adhere to the new-style (~1997) Sanger Centre naming scheme. This is explained clearly on the Sanger Centre's web pages at

http://www.sanger.ac.uk/Software/Sequencing/ASD/naming2new.shtml.

The information extracted consists of the template name, primer type and chemistry information. The format of a reading name is as follows.

<template_name>.<strand><primer><chemistry>

The strand, primer and chemistry fields are each one character long and are mandatory. They are defined by the following tables.

Strand
Description
p
Forward, double stranded template.
q
Reverse, double stranded template.
r
Reverse, single stranded template.
s
Forward, single stranded template.

Primer
Description
1
Universal primer (end of insert).
2
Custom primer.

Conditions
Description
t
standard (ABI) terminator
d
dRhodamine terminator
p
standard (ABI) primer
e
energy transfer primer
b
big dye primer
c
big dye terminator
l
licor

For example "U16F10.p1t" is a forward standard (ABI) terminator sequence from the double stranded template named U16F10 using the universal primer.

Configuration section
[naming_scheme]

Configuration elements
PR_com, TN_com, CH_com.

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This page is maintained by James Bonfield. Last generated on 2 Febuary 1999.
URL: http://www.mrc-lmb.cam.ac.uk/pubseq/manual/pregap4_35.html