SSRome Transcriptomic Pipeline

Analysis Name

Assembled RNA Sequence without annotation

Assembled RNA Sequence with annotation information

Mono ≥ Di ≥ Tri ≥ Tetra ≥ Penta ≥ Hexa ≥

Min Opt Max

Min Opt Max

Min Opt Max

Size

SSRome Transcriptomic Pipeline

SSRome Transcriptomic Pipeline

Note: To use SSRome Transcriptomic Pipeline you should upload all your data/files at first, then you can use SSRome Transcriptomic Pipeline to analyze your uploaded data, See Manual, SSRome Upload Files.

Project Information

Sequence Information

Assembled RNA Sequences without annotation (Fasta file format) See Example.

Assembled RNA Sequences with annotation information See Example.

Input Data

Note: Please provide the name of "Assembled RNA Sequence without annotation" file you uploaded through "SSRome Upload Files" page. Or write "None" in case of no file uploaded.

OR

Note: Please provide the name of "Assembled RNA Sequence with annotation information" file you uploaded through "SSRome Upload Files" page. Or write "None" in case of no file uploaded.

Parameters

**SSR Mining Parameters**

*SSR Mining Parameters*

**SSR primer design options**

*SSR primer design options*

Primer size

Primer Tm

Primer GC%

Product Size Ranges

** RNA Annotation Section **

* RNA Annotation Section *

Annotate RNA Sequences that successfully designed SSR primers.

Note: Select this option if you don't feed SSRome Transcriptomic Pipeline with annotation information.

Note: If you selected "Annotate RNA Sequences that successfully designed SSR primers" you should feed SSRome Transcriptomic Pipeline with Your sequence source to annotate your sequences. Or write "None"

Your organism scientific name

RNA Sequences already annotated.

Note: If you feed SSRome Transcriptomic Pipeline with annotation information, please select this option.

SSRome Transcriptomic Pipeline Results

Availability of SSRome Transcriptomic Pipeline Results

Store the results in SSRome database.

* Store your results in SSRome database and make it available free online.

Don't store my results in SSRome database.

* If you agree to store your results in SSRome database, please provide us the date you want make it available free online

Available free online date

Thank you for use SSRome Transcriptomic Pipeline

You will receive an email notification from SSRome Transcriptomic Pipeline when your analysis complete.

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SSR Mining Parameters
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SSR Mining Parameters

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SSR primer design options
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SSR primer design options

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* RNA Annotation Section *
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