* entries are required

1.  *Please copy & paste in the primer(s) data in proper format:

or upload data file

2. Please give the target genomic DNA sequence data file (one sequence in FASTA format.):

*

3. * 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.

• Sequence description:
• Chromosome: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 X Y

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

4. Adjustable parameters.

Additional parameters for BLAST to set:

• E value   (the lower the value, the more stringent the cutoff. NCBI default 10.  If analyzing short fragments like oligos, use 10 or higher.)

For annotation,

•  First filter

@ Minimum size of match for valid hits  bp (If your primer is shorter, please decrease this number accordingly)

@ Minimum percentage of identities for valid hits 95% 96% 97% 98% 99% 100%

@ The maximum length difference between query primer and matching fragment is bp

•  Second filter

@ Only the best matches will be used for annotation All hits above filter will be used for annotation

5. Choice of outputs:

    Show BLAST annotation evidence of match identity percentage in Genbank annotation and features table

    Annotation Genbank format data or Genbank format features (gbheader)

             viewable in Vector NTI  or Artemis

    Feature table ready for database in tab-delimited format 

    Features failed to be annotated

    Duplicated features (possibly false positive due to homologs)

    Original BLAST output

    Annotation evidence (compact parsed BLAST data)

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

    Original gbheader

6. Please specify the email address to which the outputs will be delivered:

 Email address *

choice of output in gzip compressed format: yes, zip it no, original data please

Your email box accepts message size limit of  1 MB 2 MB 4 MB 6 MB per message

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