--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/largest_matched_pairs_input1.gff	Wed Dec 23 09:25:42 2015 -0500
@@ -0,0 +1,64 @@
+chr1	cwpair	.	59	60	2881.0	.	.	cw_distance=2
+chr1	cwpair	.	123	124	4204.0	.	.	cw_distance=52
+chr1	cwpair	.	156	157	2177.0	.	.	cw_distance=59
+chr1	cwpair	.	245	246	5421.0	.	.	cw_distance=-40
+chr1	cwpair	.	250	251	2739.0	.	.	cw_distance=78
+chr1	cwpair	.	256	257	2424.0	.	.	cw_distance=30
+chr1	cwpair	.	345	346	1185.0	.	.	cw_distance=-25
+chr1	cwpair	.	350	351	885.0	.	.	cw_distance=66
+chr1	cwpair	.	417	418	362.0	.	.	cw_distance=78
+chr1	cwpair	.	463	464	802.0	.	.	cw_distance=30
+chr1	cwpair	.	668	669	319.0	.	.	cw_distance=-48
+chr1	cwpair	.	6218	6219	2125.0	.	.	cw_distance=91
+chr1	cwpair	.	6454	6455	1249.0	.	.	cw_distance=63
+chr1	cwpair	.	6714	6715	433.0	.	.	cw_distance=-4
+chr1	cwpair	.	19213	19214	778.0	.	.	cw_distance=-25
+chr1	cwpair	.	22580	22581	863.0	.	.	cw_distance=-2
+chr1	cwpair	.	25305	25306	1183.0	.	.	cw_distance=99
+chr1	cwpair	.	31670	31671	490.0	.	.	cw_distance=66
+chr1	cwpair	.	32483	32484	478.0	.	.	cw_distance=48
+chr1	cwpair	.	39076	39077	1350.0	.	.	cw_distance=-29
+chr1	cwpair	.	39237	39238	362.0	.	.	cw_distance=61
+chr1	cwpair	.	45670	45671	493.0	.	.	cw_distance=-35
+chr1	cwpair	.	55548	55549	956.0	.	.	cw_distance=86
+chr1	cwpair	.	59228	59229	565.0	.	.	cw_distance=56
+chr1	cwpair	.	65160	65161	618.0	.	.	cw_distance=-4
+chr1	cwpair	.	70792	70793	2146.0	.	.	cw_distance=12
+chr1	cwpair	.	72786	72787	1063.0	.	.	cw_distance=-10
+chr1	cwpair	.	87011	87012	2370.0	.	.	cw_distance=95
+chr1	cwpair	.	87015	87016	834.0	.	.	cw_distance=-28
+chr1	cwpair	.	87109	87110	2259.0	.	.	cw_distance=3
+chr1	cwpair	.	87174	87175	3475.0	.	.	cw_distance=-13
+chr1	cwpair	.	87182	87183	5699.0	.	.	cw_distance=51
+chr1	cwpair	.	92421	92422	1388.0	.	.	cw_distance=0
+chr1	cwpair	.	92601	92602	2836.0	.	.	cw_distance=96
+chr1	cwpair	.	92657	92658	447.0	.	.	cw_distance=33
+chr1	cwpair	.	95955	95956	689.0	.	.	cw_distance=51
+chr1	cwpair	.	96919	96920	12.0	.	.	cw_distance=3
+chr1	cwpair	.	98551	98552	122.0	.	.	cw_distance=27
+chr1	cwpair	.	101399	101400	2361.0	.	.	cw_distance=-44
+chr1	cwpair	.	106047	106048	572.0	.	.	cw_distance=7
+chr1	cwpair	.	108611	108612	573.0	.	.	cw_distance=-45
+chr1	cwpair	.	113782	113783	716.0	.	.	cw_distance=-20
+chr1	cwpair	.	116649	116650	773.0	.	.	cw_distance=-41
+chr1	cwpair	.	124306	124307	761.0	.	.	cw_distance=-43
+chr1	cwpair	.	134230	134231	659.0	.	.	cw_distance=100
+chr1	cwpair	.	136369	136370	365.0	.	.	cw_distance=-14
+chr1	cwpair	.	138876	138877	711.0	.	.	cw_distance=-4
+chr1	cwpair	.	139230	139231	1179.0	.	.	cw_distance=15
+chr1	cwpair	.	151365	151366	595.0	.	.	cw_distance=-28
+chr1	cwpair	.	155079	155080	1573.0	.	.	cw_distance=83
+chr1	cwpair	.	169095	169096	1887.0	.	.	cw_distance=-43
+chr1	cwpair	.	170134	170135	657.0	.	.	cw_distance=10
+chr1	cwpair	.	173276	173277	546.0	.	.	cw_distance=8
+chr1	cwpair	.	180331	180332	97.0	.	.	cw_distance=82
+chr1	cwpair	.	185109	185110	1371.0	.	.	cw_distance=46
+chr1	cwpair	.	197535	197536	5.0	.	.	cw_distance=73
+chr1	cwpair	.	199413	199414	810.0	.	.	cw_distance=-30
+chr1	cwpair	.	203863	203864	1476.0	.	.	cw_distance=-37
+chr1	cwpair	.	228672	228673	626.0	.	.	cw_distance=58
+chr1	cwpair	.	229759	229760	4531.0	.	.	cw_distance=16
+chr1	cwpair	.	229762	229763	699.0	.	.	cw_distance=63
+chr1	cwpair	.	230142	230143	10.0	.	.	cw_distance=-25
+chr1	cwpair	.	230151	230152	75.0	.	.	cw_distance=63
+chr1	cwpair	.	230166	230167	30.0	.	.	cw_distance=-13