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Old Sanger Centre Naming Scheme

Filename
sanger_names_old.p4t

Description
This component extracts information from sequence names by assuming that they adhere to the old-style Sanger Centre naming scheme. 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><conditions><repetition>

In the above, strand and primer are each one character long and are defined according to the following tables. Conditions can be 0, 1 or 2 characters indicating none, one or two sequencing conditions. Repetitions is optional and is used purely for creating unique names when resequencing a template with the same strand, primer and conditions as a previous sequencing reaction.

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

Primer
Description
1
Universal primer (end of insert).
2, 3, etc
Custom primer.

Conditions
Description
t
Dye terminator chemistry.
l
Long gel

Repetition
Description
a, b, c, ...
Any letter except l and t

For example "U16F10.p1t" is a forward dye-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_34.html