It is possible emulate this function but it is inadvisable as some gap4 routines make use of the derived consensus. You can turn this function on by changing the 'C' value in the top left hand corner of your trace display. Search by ' discrepancies ' will find positions where 2 or more bases are above a particular quality level, but are in disagreement. Search ' from file ' is now fully implemented and is now very useful. Used in combination with gapNav it becomes a very powerful function for navigating to possible problem regions.
Functionality remains the same.
It is possible to search for both padded and unpadded ' positions ' in your database. You must select the type of position you wish to search for. You will need to make sure that when quoting a position within a tag you quote the unpadded position. When you search for a piece of sequence, gap4 now also checks your contig for the reverse complement. The trace display has been updated.