Enter your e-mail address in the first box; you will receive a link to your results by e-mail.

For this example, the base sequence is from mouse, and sequence #2 is from human. Browse to find the mouse and human genomic sequences which you have saved as files on your computer.

* indicates required fields

* Your email address:

* The base sequence:

  OR  

The GENBANK identifier:

* Sequence #2:

  OR  

The GENBANK identifier:
 
 

mVISTA options

Browse to find the annotation file.

Use the pull-down menu to set repeat masking to mouse/rat/rodent.

Enter the names of the base and second organisms.

We do not use rVISTA here for reasons discussed in the review and at the end of this tutorial.

Annotation of the base sequence:

Repeat masking for the base organism:

The name of the base organism:

The name of organism #2:

Select the alignments for which you want to reverse-complement second sequence (try this if you get no homology):

Find potential transcription factor binding sites using rVISTA (20Kb max)
 
 

mVISTA parameters

Accept the default parameters and options (you can alter them later, as you choose), then hit submit.

Window length to calculate a percent identity (default - 100 bp):

Conservation level (default - 75%):

Minimum conservation level to show on the plot (default - 50%):

Advanced options

The Y-axis of the plot should represent:

  percent identity   percent difference (cVISTA mode)

Maximum difference level to show on the plot in the cVISTA mode (default - automatically calculated):

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