Sample	mapped_passed	duplicates_failed	secondary_passed	paired in sequencing_failed	duplicates_passed	read2_passed	read1_failed	read1_passed	with mate mapped to a different chr_passed	total_failed	properly paired_passed_pct	singletons_passed	supplementary_passed	singletons_passed_pct	mapped_failed_pct	mapped_passed_pct	supplementary_failed	with itself and mate mapped_failed	mapped_failed	total_passed	properly paired_failed	flagstat_total	with mate mapped to a different chr (mapQ >= 5)_passed	properly paired_failed_pct	with mate mapped to a different chr (mapQ >= 5)_failed	with itself and mate mapped_passed	read2_failed	with mate mapped to a different chr_failed	properly paired_passed	paired in sequencing_passed	singletons_failed	secondary_failed	singletons_failed_pct
GSC_round1_NA24143	941158861	0	6561215	0	171247553	470870985	0	470870985	10923658	0	97.01	2362392	0	0.25	nan	99.25	0	0	0	948303185	0	948303185	5130203	nan	0	932235254	0	0	913575778	941741970	0	0	nan
GSC_round1_NA24149	898421202	0	6341274	0	171239886	447815377	0	447815377	10723960	0	97.43	1382340	0	0.15	nan	99.61	0	0	0	901972028	0	901972028	5159946	nan	0	890697588	0	0	872628958	895630754	0	0	nan
GSC_round1_NA24385	964483540	0	6452671	0	187992427	482185118	0	482185118	11425506	0	97.11	2253267	0	0.23	nan	99.35	0	0	0	970822907	0	970822907	5391900	nan	0	955777602	0	0	936457992	964370236	0	0	nan
GSC_round2_NA24143	782314870	0	4897123	0	109265468	393197729	0	393197729	9650486	0	96.43	3629003	0	0.46	nan	98.87	0	0	0	791292581	0	791292581	4713776	nan	0	773788744	0	0	758345106	786395458	0	0	nan
GSC_round2_NA24149	819858527	0	5067651	0	114513645	412742881	0	412742881	9920374	0	96.46	2730540	0	0.33	nan	98.71	0	0	0	830553413	0	830553413	4863107	nan	0	812060336	0	0	796259946	825485762	0	0	nan
GSC_round2_NA24385	791715448	0	4923719	0	89225818	398469420	0	398469420	9804292	0	96.36	3461441	0	0.43	nan	98.73	0	0	0	801862559	0	801862559	4735143	nan	0	783330288	0	0	767959020	796938840	0	0	nan
GSC_round3_NA24143	834557454	0	5312353	0	76303200	420140793	0	420140793	9769016	0	96.45	3225239	0	0.38	nan	98.69	0	0	0	845593939	0	845593939	4666193	nan	0	826019862	0	0	810410336	840281586	0	0	nan
GSC_round3_NA24149	837387864	0	5289768	0	82834290	421030977	0	421030977	9846190	0	96.63	2392886	0	0.28	nan	98.82	0	0	0	847351722	0	847351722	4717701	nan	0	829705210	0	0	813668004	842061954	0	0	nan
GSC_round3_NA24385	773814455	0	4903751	0	71621701	388888830	0	388888830	9109738	0	96.59	2833892	0	0.36	nan	98.87	0	0	0	782681411	0	782681411	4294574	nan	0	766076812	0	0	751281998	777777660	0	0	nan
McGill_round1_NA24143	914477329	0	5406686	0	35929223	459919031	0	459919031	11098888	0	96.75	2158813	0	0.23	nan	98.84	0	0	0	925244748	0	925244748	5987282	nan	0	906911830	0	0	889955462	919838062	0	0	nan
McGill_round1_NA24149	892630330	0	5385272	0	34764295	447707005	0	447707005	10723590	0	97.05	2407066	0	0.27	nan	99.09	0	0	0	900799282	0	900799282	6012991	nan	0	884837992	0	0	869017190	895414010	0	0	nan
McGill_round1_NA24385	880197512	0	5064458	0	31836254	441791030	0	441791030	9372836	0	97.15	2593512	0	0.29	nan	99.05	0	0	0	888646518	0	888646518	4984773	nan	0	872539542	0	0	858359026	883582060	0	0	nan
SickKids_round1_NA24143	932993879	0	6332195	0	106932081	474011360	0	474011360	13958330	0	95.37	1081072	0	0.11	nan	97.76	0	0	0	954354915	0	954354915	7686588	nan	0	925580612	0	0	904094786	948022720	0	0	nan
SickKids_round1_NA24149	970261363	0	6784525	0	157397375	493568361	0	493568361	14193000	0	95.26	1021696	0	0.1	nan	97.62	0	0	0	993921247	0	993921247	7579534	nan	0	962455142	0	0	940332176	987136722	0	0	nan
SickKids_round1_NA24385	953208298	0	6657351	0	126625706	481562920	0	481562920	13933174	0	95.93	1003197	0	0.1	nan	98.29	0	0	0	969783191	0	969783191	7489204	nan	0	945547750	0	0	923928486	963125840	0	0	nan