Merge pull request #257 from karel-brinda/karel-brinda-patch-1

Update README.md

README.md

@@ -322,12 +322,17 @@ quite light and usually start running as soon as they are scheduled.
 ### 5e) Known limitations
 
 * **Swapping if the number of queries too high.** If the number of queries is
-  too   high, the auxiliary Python scripts start to use too much memory, which
+  too high (e.g., 10M Illumina reads),
+  the auxiliary Python scripts start to use too much memory, which
   may result in swapping. Try to keep the number of queries moderate and
   ideally their names short.
 * **No support for ambiguous characters in queries.** As the tools used
   internally by MOF-Search support only the nucleotide alphabet, all non-ACGT
   characters in queries are first converted to A.
+* **Too many reported hits.** When queries have too many equally good hits in
+  the database, even if the threshold on the maximum number of hits is chosen
+  low – for instance 10 – the program will take top 10 + ties, which can be a
+  huge number (especially for short sequences).
 
 
 ## 6. License