Number of pairs analyzed                	2500
Prefix failed in read 1                 	0
Prefix failed in read 2                 	0
Prefix failed in both                   	0
Passed prefix total                     	2500
Failed prefix total                     	0
Merged total                            	1995
Complete overlap forced total           	0
Merge failed total                      	505
Merge discarded due to P                	447
Merge discarded due to Ns               	58
Merge discarded due to Q30              	0
Pairs discarded due to min expected overlap	0
Num mismatches found in merged reads    	1274
Mismatches recovered from read 1        	1205
Mismatches recovered from read 2        	69
Mismatches replaced with N              	0


Mismatches breakdown:

0	1528
1	213
2	73
3	47
4	31
5	36
6	28
7	19
8	13
9	5
10	2


Command line                            	/Users/meren/Desktop/MBL/illumina-utils/scripts/iu-merge-pairs hiseq_partial_overlap_config.ini
Work directory                          	/Users/meren/Desktop/MBL/illumina-utils/examples/merging
"p" value                               	0.300000
Min overlap size                        	15
Min Q-score for mismatches              	15
Ns ignored?                             	False
Q30 enforced?                           	False
Run with stringent flag on?             	False
Requested only the overlapping part to be retained?	False
