JIRA: RW-2394 - Implemented fix. Mismatches should be counted in units of the alignment target.

AUTHOR: foleyjp
MERGE_REQUEST: 243 792343c03b84d59715a0b909023cd3c4fb66ed9d

git-svn-id: https://anonsvn.ncbi.nlm.nih.gov/repos/v1/trunk/c++@103665 78c7ea69-d796-4a43-9a09-de51944f1b03

Author: foleyjp

src/objtools/writers/gff3_writer.cpp

@@ -643,7 +643,7 @@ bool CGff3Writer::xAssignAlignmentSplicedGap(
         default:
             break;
         case CSpliced_exon_chunk::e_Mismatch:
-            record.AddMatch(chunk.GetMismatch());
+            record.AddMatch((chunk.GetMismatch()+tgtWidth-1)/tgtWidth);
             break;
         case CSpliced_exon_chunk::e_Diag:
             // Round to next multiple of tgtWidth to account for reverse frameshifts