Morad_Mokhtar

SSRome Genomic Pipeline

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

Project Information

Sequence Information

Note: If you select "Separate sequence in fasta format" option you could also select "Separate annotation file" option to provide annotation information of your sequence.

Input Data

Note: Please provide the name of Genbank File you uploaded through "SSRome Upload Files" page. Or write "None" in case of no file uploaded.

OR

Note: Please provide the name of Fasta File you uploaded through "SSRome Upload Files" page. Or write "None" in case of no file uploaded.

And

Note: Please provide the name of Annotation File you uploaded through "SSRome Upload Files" page. Or write "None" in case of no file uploaded.

Parameters

*SSR Mining Parameters*

*SSR Classification Options*

Note: If you didn't feed SSRome Genomic Pipeline with your annotation information, please don't select this option.

Note: This option to determine the SSR repeats found in genic regions and not found in non-genic regions.

Note: This option to determine the SSR repeats found in non-genic regions and not found in genic regions.

Note: This option to determine the SSR repeats found in both genic and non-genic regions.

*SSR primer design options*

Note: If you didn't feed SSRome Genomic Pipeline with your annotation information, please don't select this option.

Note: If you didn't feed SSRome Genomic Pipeline with your annotation information, please don't select this option.

Note: select this option if you didn't feed SSRome Genomic Pipeline with annotation information.

Primer size

Min Opt Max

Primer Tm

Min Opt Max

Primer GC%

Min Opt Max

Product Size Range

Size

SSRome Comparative Analysis

Note1: select this option if you want to compare your results (identified SSR repeats) with SSRome Database to determine the unique repeats to your organism.

Note2: If you selected this option you should provide SSRome Comparative Analysis Pipeline with your organism scientific name.Or write "None" if you don't select this option.

SSRome Genomic Pipeline Results

Availability of SSRome Genomic Pipeline Results

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

* 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 Genomic Pipeline

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