Storyteller -
TALE
targets finder
Back to the
Xanthomonas
utilities website
Author:
Luis M. Rodriguez-R
.
Based on
Boch
et al
, 2009
.
Download
Mandatory parameters
Job name
Any name for you to identify the task
Hyper-variable AAs:
Or complete sequence
Example: NN-HD-NI-HG-HD-NG-N*-HD-HD-NI-NG-NG-NI-HD-NG-NN-NG-NI-NI-NI-NI-N*-NS-N*
TALE sequence:
Or HVAAs list
The full aminoacids sequence of the TALE or the repetitive region
Target genome:
Rice (Nipponbare annotation release 6.1), 1kUp
Arabidopsis thaliana (annotation release TAIR_10), 1kUp
Rice (Nipponbare annotation release 6.1), full assembly
Arabidopsis thaliana (annotation release TAIR_10), full assembly
Only for rice and
Arabidopsis
by now
Advanced parameters
Rounds:
The number of training sequences
Noise:
Maximum noise included in the distribution (a number between -1 and 1)
Noise shape:
None
Constant
Linear
Parabolic
Homogeneous
Noise shape along the query pattern
Distribution of the zero position:
[
A:
,
C:
,
G:
,
T:
]
Integers representing the relative abundance of each nucleotide at the zero position
Max e-value:
Maximum e-value for hmmsearch (per sequence)
Min score:
Minimum score for hmmsearch (per match)
Gap probability:
The probability of deleting a given nucleotide in the target sequence
