Core Lab Equipment: ABI 3130xl Genetic Analyzer
Description:
The ABI
3130xl Genetic Analyzers is basically an upgraded 3100 with a pump system instead of syringes which allows it to run Pop7 as well as Pop6. Polymer 7 can be run on the 50cm array and gives sequence reads up to about 900+bp instead of only 500-700bp that are possible with Pop6. This means it can collect longer sequences in the same amount of time using a similar amount of polymer per sample. The 80cm array on the other hand takes twice as long and uses twice the polymer for only 800-1000+ bases.
The ABI PRISM Data Collection Software V.2.0 collects data in .FSA file format. Then ABI DNA Sequencing Analysis v5.2 and KB BasecallerV.1.1.1 are used to generate sequence files in .ab1 format. On request we can also generate FASTA, Standard Chromatogram (.scf) or Phred (.phd.1) files. Data files can be picked up in person with a jump drive, CD, or Zip disk or they can be posted to the Core web page and are password protected; please see Carrie Topp, in the Core Lab, for a username and password. Files can be further analyzed by software available for use in the Core Lab.
- ABI PRISM DNA Sequencing Analysis Software v5.2
- ABI SeqScape v2.x
- Sequencher v4.6 (available on Server, see Core Lab Technician)
- ABI GeneMapper v3.7
- ABI Sequence Scanner v1.0
- UAF Bioinformatics site (access available in the Core Lab)
Location:
Core Lab, WRRB 207
Links:
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