Locate Repeat Elements in gDNA sequence

 

 * entries are required

NOTE: RepeatMasker designed by Smit, A.F.A. is prohibited to be used here. So,  user has to do RepeatMasker in his/her own way, and upload the *.out file for annotation. 

If you are academic users, you can request RepeatMasker from geospiza for free. Or try the web one. If your gDNA sequence is > 50 Kb, it's better to see the additional notes below before doing the RepeatMasker.

 

1. Please give the gDNA sequence data file (only one gDNA sequence in FASTA format is allowed).

 *

2. * Please give the description of the un-annotated target genomic DNA sequence, or Genbank data file or Genbank header file (.gbheader produced by previous DNannotator run).

 

    You may check this box if this is your first time to run annotation for this sequence on DNannotator. Then, please fill in the following information but no Genbank file will be needed.  A Genbank header file will be created for you based on data from FASTA sequence and the information you provided here.

       Un-annotated Genbank file (should be the one generated by DNannotator in previous analysis for the same target sequence):  

3. Please supply the *.out data created by RepeatMasker

*

4. Choice of outputs:

    Annotation Genbank format data or Genbank format features

             viewable in Vector NTI  or Artemis

    Feature table ready for database in tab-delimited format 

    Original full-length Genbank format data (with sequence body)

    Original gbheader

 

5. Please specify the email address where the final annotated sequence can be delivered:

Email address *

choice of output in gzip compressed format:

Your email box accepts message size limit of  per message

If your input data file is from a Mac machine, please be sure to check this box

 

Notes for RepeatMasker: If the sequence is very long, RepeatMasker will have performance problem.  Therefore, it's recommended to split the sequence into fragments.  Here is the tool to split one big continuous sequence into fragments.  Then, the output sequence data would work better in RepeatMasker.  The output of RepeatMasker for this fragmented sequence is suitable for annotation here.