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Bioinformatics FAQ
There are a large number of bioinformatics programs available to CBRG account holders via this web site. These
examples (Frequently Asked Questions) are used to illustrate the use of these tools
in answering typical queries posed by researchers.
The major web-based tools from the CBRG are listed, here.
What fragments sizes are produced using this enzyme?
Program name: restrict
Notes: Set "List individual enzymes with their fragments" to "Yes" to generate a series of fragment
lists - one for each restriction enzyme (see Figure 1)
Figure 1. Fragment lengths produced by individual enzymes
AlwNI:
# [CAGNNNCTG]
# 282 447
#
# ApoI:
# [RAATTY]
# 25 63 77 101 139 324
#
# AsuI:
# [GGNCC]
# 166 563
etc......
Set "Show fragment lengths" to "Yes" to show the fragments produced
by all specified enzymes. This is best used with just a small number of enzymes - you can supply a list of individual, comma-separated
enzymes in the "required section" (eg sphI,balI - see Figure 2).
Figure 2. Fragment lengths produced using enzymes SphI and BalI
Start End Enzyme_name Restriction_site 5prime 3prime 5primerev 3primerev
362 367 BalI TGGCCA 364 364 . .
678 683 SphI GCATGC 682 678 . .
#---------------------------------------
# Fragment lengths:
# 364
# 318
# 47
#---------------------------------------
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