Molecular Diagnostic Primers

For finding out the diagnostic primers of the sequences we used NCBl's tool named Primer-Blast at default conditions, it is a combination of two software primer3 and blast, which enables the user to design and check specific primers.

To analyze the diagnostic primers of APV9 from 1230 genome sequence isolates obtained from the NCBI database, 23 clusters were formed using CD-Hit Suite based on identity percentage greater or equal to 90%. Each genome sequence from the cluster data was run on Primer-Blast software to get primers for each sequence, this was repeated for 23 sequences and then common primers from the data generated were taken out (shown in the picture below)

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