To use the NextGENe Long PE Assembly Mapping tool
1. On the NextGENe main menu, click Tools > Long PE Assembly Mapping.
The Long PE Assembly Mapping dialog box opens.
2. Next to the Scaffold Contigs Input field, click Browse to browse to and select the ScaffoldContigs.fasta file.
3. Next to the Scaffold Contigs Mapping field, click Browse to browse to and select the FinalContig_ScaffoldContig_Mapping.txt file that you have edited.
4. In the Output field, you can leave the default value for the location of the output files as is (the default value is the directory path for the ScaffoldContigs.fasta file), or you can click Set to select a different location.
5. Click OK.
A message opens when the process is completed. An output file named AssemsbledSequences.fasta is generated.