Sample Name Syntax for Samples Run on the Applied Biosystems ABI Prism 3700 
and the Beckman Coulter CEQ 2000 automated sequencers.
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Identifiers are separated by an underscore ("_") and the definitions are 
described as below:

plateID :       The plate name; it consists of any number of alphanumeric 
                characters except "_" and special characters
WELLposition:   The well location, which is a letter followed by 2 digits. 
                This is usually the position specified by a 96-well formatted 
                plate, or a 384-well formatted offset plate. Optionally, a 
                384-well formatted plate location may also be  placed here.
ALTposition:    Three characters are positioned here; the true plate location 
                is noted if derived from a 384-well microtiter dish. If not 
                used,  usually replaced by a three character "xxx" filler. 
Z|Y:            "Z"  is used if the well contains a sample, "Y" is used if 
                the well contains a control sample; the single letter should 
                be placed immediately after the ALTposition designator.
optional:       This region is optional and can contain optional notations 
                of any type of characters or strings.
capillary:      The ABI Prism 3700 automatically fills this with the capillary 
                used for the sequencing run.

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Sequence name structure for sequences run on ABI Prism 3700.

format: <plateID>_<WELLposition>_<ALTposition><Z|Y><optional>_<capillary>.ab1

examples:

test sample:            1215_A01_B01Z_0.5uL0321A6_002.ab1
control sample:         1215_C05_E09Y_pGEM_USDA_034.ab1

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Sequence name structure for sequences run on Beckman Coulter CEQ 2000.

format: <plateID>_<WELLposition>_<ALTposition><Z|Y><optional>.scf

examples:

test sample:            0410_A01_A01Zrev_00031319EJ.scf
control sample:         0410_A02_xxxYrev_00031320EJ.scf

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  For more information see:
  Lazo, G.R., Tong, J., Miller, R., Hsia, C., Rausch, C., Kang, Y., 
  and Anderson, O.D. 2001. Software scripts for quality checking of 
  high-throughput nucleic acid sequencers. BioTechniques Vol 30, No. 6.
 
  This software is a "United States Government Work" under the terms 
  of the United States Copyright Act. It was written as part of official 
  duties performed by a United States Government employee(s) and thus 
  cannot be copyrighted. This software is freely available to the public 
  for use. The United States Department of Agriculture and the U.S. 
  Government have not placed any restriction on its use or reproduction. 
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