Select Non-Redundant Set

You can use structure QR or sequence QR to select a non-redundant set (See Fig. 9).⁶

Figure 9: Select Non-Redundant Set Window

Select from:

Lets you choose whether to look through all sequences, or just the ones you have marked.

Using Structure QR

:

QH Cutoff:

Scale from 0 to 1.(see 10.2)

Using Sequence QR

:

PID:

Is the Maximum Percent Identity required to return a sequence from the search

Percent of Set:

Percentage of the set that can be returned such that the least reduntent are choosen first(note: PID and Percent of Set are mutually exculsive and only one can varry in a given search).

Gap Scale Factor:

Scale from 0-10 where 0 gives no importance to gaps and 10 weights gaps as being very important for selecting the non-redundant set. DEFAULT = 1

Seed with selected sequences

If you have selected certain sequences, you can seed the algorithm with these sequences to select a non-redundant set based on them.