Sample	Input reads	M Input reads	Paired	M Paired	Single	M Single	QC-fail	M QC-fail	Map	M Map	Map R1	M Map R1	Map R2	M Map R2	Unmap	M Unmap	MQ⩾40	M MQ⩾40	Dup	M Dup	Uniq	Self & mate map	M Self & mate map	Prop pair	M Prop pair	Discord	M Discord	Singleton	M Singleton	Diff chrom	M Diff chrom	Diff chr, MQ⩾10	M Diff chr, MQ⩾10	Reads with indel R1	M Reads with indel R1	Reads with indel R2	M Reads with indel R2	Read len	Avg IS	Med IS	IS std	Mb Input bases	Mb Input bases R1	Mb Input bases R2	Mapped bases R1	Mb Mapped bases R1	Mapped bases R2	Mb Mapped bases R2	Soft-clip bases R1	Mb Soft-clip bases R1	Soft-clip bases R2	MM bases R1	Mb MM bases R1	MM bases R2	MM bases R1 excl indels	Mb MM bases R1 excl indels	MM bases R2 excl indels	Q30	Mb Q30	Q30 R1	Mb Q30 R1	Q30 R2	Mb Q30 R2	Q30 excl dup & clipped	Mb Q30 excl dup & clipped	M Alignments	Sec'ry	M Sec'ry	Suppl'ry	M Suppl'ry
Alp13-1-100 | Alp13-1-100	100.0	0.127526	100.0	0.127526	0.0	0.0	0.0	0.0	98.69	0.12585	99.35	0.06335099999999999	98.02	0.062499	1.31	0.001676	98.62	0.125766	0.0	0.0	100.0	98.01	0.12498799999999999	95.23	0.12143799999999999	2.78	0.0035499999999999998	0.68	0.0008619999999999999	0.09	0.000108	0.06	7.599999999999999e-05	2.91	0.001846	4.3	0.002688	149.38	229.39	217.0	47.87	19.049236	9.528179	9.521056999999999	49.92113594476965	9.509595	49.21362200562795	9.374819	0.52	0.049462	0.75	0.23	0.021778	0.26	0.21	0.019795	0.22	96.53	18.387349999999998	97.75	9.313875	95.3	9.073475	96.04963684632811	18.296722	0.126033	0.0	0.0	0.15	0.000183
Alp13-1-20 | Alp13-1-20	100.0	0.136886	100.0	0.136886	0.0	0.0	0.0	0.0	97.48	0.133432	98.04	0.06709899999999999	96.92	0.066333	2.52	0.003454	97.38	0.133298	0.0	0.0	100.0	96.9	0.132638	93.12	0.127472	3.77	0.005166	0.58	0.000794	0.1	0.000128	0.07	9.7e-05	2.85	0.0019099999999999998	4.35	0.0028829999999999997	147.56	226.78	217.0	106.74	20.199120999999998	10.101346999999999	10.097774	49.739817886134745	10.047006	49.14659900299622	9.927181	0.61	0.061196999999999994	0.85	0.22	0.021626	0.28	0.19	0.019587	0.25	95.88	19.366099	97.47	9.845854	94.28	9.520245	95.3174893105497	19.253294999999998	0.133604	0.0	0.0	0.13	0.00017199999999999998
Alp22-1-100 | Alp22-1-100	100.0	0.13787	100.0	0.13787	0.0	0.0	0.0	0.0	99.09	0.13661299999999998	99.73	0.068746	98.45	0.067867	0.91	0.0012569999999999999	98.92	0.136384	0.0	0.0	100.0	98.43	0.135708	94.9	0.13084199999999999	3.53	0.004866	0.66	0.000905	0.07	9.999999999999999e-05	0.06	8.499999999999999e-05	2.9	0.001993	3.19	0.002162	149.77	225.69	222.0	137.53	20.648414	10.32794	10.320473999999999	49.934585774965576	10.310699999999999	49.25824327234044	10.171045999999999	0.72	0.074305	0.64	0.16	0.016004	0.33	0.13	0.013687999999999999	0.31	96.01	19.824037999999998	97.75	10.095265	94.27	9.728773	95.46570017435721	19.712153	0.136796	0.0	0.0	0.13	0.000183
Alp22-1-20 | Alp22-1-20	100.0	0.124804	100.0	0.124804	0.0	0.0	0.0	0.0	99.05	0.123613	99.68	0.062204999999999996	98.41	0.061408	0.95	0.001191	98.88	0.12340999999999999	0.0	0.0	100.0	98.39	0.12279799999999999	97.71	0.121942	0.69	0.000856	0.65	0.000815	0.09	0.00011399999999999999	0.07	9.2e-05	2.92	0.001816	3.17	0.0019459999999999998	149.62	223.13	222.0	112.21	18.673778	9.339487	9.334291	49.93255783591301	9.324295	49.260936913783596	9.198877999999999	0.73	0.068301	0.71	0.14	0.013306	0.47	0.12	0.011302	0.44	94.85	17.711726	97.7	9.125091	91.99	8.586635	94.29628541155411	17.608679	0.123787	0.0	0.0	0.14	0.000174
Alp32-1-100 | Alp32-1-100	100.0	0.118542	100.0	0.118542	0.0	0.0	0.0	0.0	99.16	0.11754999999999999	99.69	0.059087	98.64	0.058462999999999994	0.84	0.000992	99.02	0.117377	0.0	0.0	100.0	98.63	0.116918	97.9	0.11605599999999999	0.73	0.0008619999999999999	0.53	0.000632	0.1	0.000118	0.08	9.4e-05	4.7	0.002777	8.63	0.005046	149.61	238.15	244.0	106.66	17.734911	8.861551	8.87336	49.89290896356909	8.848462999999999	49.4302339605764	8.766408	0.56	0.049183	3.22	0.32	0.028586999999999998	0.91	0.14	0.012149	0.76	93.03	16.499135	97.57	8.646098	88.5	7.853037	92.3303815846609	16.374710999999998	0.117597	0.0	0.0	0.04	4.7e-05
Alp32-1-20 | Alp32-1-20	100.0	0.132436	100.0	0.132436	0.0	0.0	0.0	0.0	99.29	0.1315	99.81	0.066092	98.78	0.065408	0.71	0.000936	99.16	0.131317	0.0	0.0	100.0	98.77	0.13080999999999998	98.15	0.129992	0.62	0.0008179999999999999	0.52	0.00069	0.1	0.000128	0.08	0.000103	4.81	0.003182	7.83	0.005123	149.89	237.03	244.0	48.54	19.850478	9.919811	9.930667	49.90505014539197	9.906391	49.443262776845984	9.814724	0.56	0.055944	2.71	0.33	0.033056999999999996	0.88	0.14	0.013996999999999999	0.74	93.1	18.481573	97.59	9.680432999999999	88.63	8.80114	92.44499804992101	18.350773999999998	0.131538	0.0	0.0	0.03	3.7999999999999995e-05
Alp42-1-100 | Alp42-1-100	100.0	0.125326	100.0	0.125326	0.0	0.0	0.0	0.0	98.32	0.123217	99.16	0.062136	97.48	0.061080999999999996	1.68	0.0021089999999999998	98.22	0.123098	0.0	0.0	100.0	97.47	0.122154	92.05	0.11535799999999999	5.42	0.006796	0.85	0.001063	0.12	0.000148	0.1	0.000122	2.79	0.001731	2.39	0.0014609999999999998	149.06	239.58	235.0	87.01	18.681019	9.352566	9.328453	49.87135337745762	9.316476999999999	48.89831223874886	9.134703	0.59	0.054508	0.63	0.12	0.011316	0.24	0.1	0.009436	0.22	95.69	17.87603	97.24	9.094562999999999	94.14	8.781467	95.19813132249371	17.783981	0.12325299999999999	0.0	0.0	0.03	3.6e-05
Alp42-1-20 | Alp42-1-20	100.0	0.135068	100.0	0.135068	0.0	0.0	0.0	0.0	98.19	0.132629	98.92	0.06680599999999999	97.47	0.06582299999999999	1.81	0.0024389999999999998	98.09	0.132494	0.0	0.0	100.0	97.45	0.131626	92.1	0.1244	5.35	0.007226	0.74	0.001003	0.1	0.000134	0.08	0.000108	2.76	0.001846	2.46	0.0016209999999999998	148.76	239.72	235.0	153.24	20.092736	10.057545	10.035191	49.84941324068559	10.016111	48.99581122252341	9.844598999999999	0.6	0.059692999999999996	0.66	0.12	0.011635999999999999	0.32	0.1	0.009622	0.31	94.92	19.071801	97.17	9.772587999999999	92.67	9.299213	94.41625570554453	18.970809	0.132674	0.0	0.0	0.03	4.4999999999999996e-05
Alp52-1-100 | Alp52-1-100	100.0	0.12016199999999999	100.0	0.12016199999999999	0.0	0.0	0.0	0.0	99.18	0.11917699999999999	99.81	0.059968	98.55	0.059209	0.82	0.000985	99.06	0.11903599999999999	0.0	0.0	100.0	98.54	0.11841199999999999	95.43	0.11467	3.11	0.0037419999999999997	0.64	0.000765	0.08	9.6e-05	0.06	7.2e-05	4.2	0.002516	4.06	0.002404	150.06	224.12	214.0	39.25	18.031717999999998	9.019542	9.012176	49.95682607724899	9.008073999999999	49.283695541378805	8.886697	0.43	0.039125	0.98	0.22	0.020069	0.4	0.19	0.017416	0.38	96.24	17.35397	97.7	8.811842	94.78	8.542128	95.78813843472929	17.272247	0.11921699999999999	0.0	0.0	0.03	3.9999999999999996e-05
Alp52-1-20 | Alp52-1-20	100.0	0.134678	100.0	0.134678	0.0	0.0	0.0	0.0	99.2	0.133605	99.76	0.067176	98.65	0.066429	0.8	0.001073	99.06	0.133417	0.0	0.0	100.0	98.64	0.132842	96.19	0.129548	2.45	0.003294	0.57	0.000763	0.08	0.000102	0.06	7.999999999999999e-05	3.75	0.002522	3.95	0.002621	149.97	222.85	214.0	42.07	20.197796999999998	10.103002	10.094795	49.94054549612515	10.08689	49.34132172929553	9.96586	0.46	0.04605	0.97	0.22	0.022088	0.45	0.19	0.019355	0.42	95.69	19.327438	97.64	9.864173	93.74	9.463265	95.23122744525058	19.23461	0.13365	0.0	0.0	0.03	4.4999999999999996e-05
Alp62-1-100 | Alp62-1-100	100.0	0.154422	100.0	0.154422	0.0	0.0	0.0	0.0	98.76	0.15251199999999998	99.61	0.07690899999999999	97.92	0.07560299999999999	1.24	0.0019099999999999998	98.26	0.151733	0.0	0.0	100.0	97.9	0.15117999999999998	94.03	0.145202	3.87	0.005978	0.86	0.0013319999999999999	0.16	0.000248	0.13	0.00019099999999999998	6.62	0.005095	3.89	0.0029389999999999998	149.51	229.88	223.0	125.17	23.087419	11.555418	11.532001	49.91537598897477	11.524172	48.965754898804406	11.304929	0.72	0.083511	1.24	0.22	0.025186999999999998	0.27	0.17	0.019518	0.24	96.24	22.218828	97.67	11.286306	94.8	10.932521999999999	95.48057320742522	22.044	0.152831	0.0	0.0	0.21	0.000319
Alp62-1-20 | Alp62-1-20	100.0	0.15967199999999998	100.0	0.15967199999999998	0.0	0.0	0.0	0.0	98.85	0.157833	99.58	0.079499	98.12	0.078334	1.15	0.001839	98.35	0.157031	0.0	0.0	100.0	98.1	0.15664	91.89	0.146726	6.21	0.009914	0.75	0.001193	0.14	0.000216	0.1	0.000154	5.71	0.004539	3.59	0.002813	149.52	228.0	220.0	105.35	23.874810999999998	11.948725999999999	11.926084999999999	49.90385054775931	11.914449999999999	49.073996858027485	11.716324	0.72	0.085252	1.24	0.21	0.025088	0.31	0.17	0.020066	0.28	95.78	22.867563999999998	97.62	11.664888	93.93	11.202676	95.0260171693087	22.687282	0.158181	0.0	0.0	0.22	0.000348
AlpP2-NG011977-1-100 | AlpP2-NG011977-1-100	100.0	0.129634	100.0	0.129634	0.0	0.0	0.0	0.0	96.55	0.12516	97.35	0.063099	95.75	0.062061	3.45	0.004474	96.49	0.125081	0.0	0.0	100.0	95.73	0.124094	48.03	0.062257999999999994	47.7	0.061835999999999995	0.82	0.0010659999999999999	0.09	0.000112	0.07	8.599999999999999e-05	3.64	0.002294	4.52	0.002806	147.83	256.51	273.0	103.54	19.164264	9.58455	9.579714	49.638900820819416	9.512929999999999	48.80253684670593	9.352647	0.27	0.025217999999999997	0.25	0.1	0.009533999999999999	0.21	0.07	0.007129	0.18	95.68	18.336268	97.26	9.321883	94.1	9.014384999999999	95.51532477323418	18.304809	0.125165	0.0	0.0	0.0	4.9999999999999996e-06
AlpP2-NG011977-1-20 | AlpP2-NG011977-1-20	100.0	0.13311599999999998	100.0	0.13311599999999998	0.0	0.0	0.0	0.0	94.21	0.125412	94.98	0.063217	93.44	0.062195	5.79	0.007704	94.13	0.125304	0.0	0.0	100.0	93.41	0.12433799999999999	93.19	0.12404599999999999	0.22	0.000292	0.81	0.0010739999999999999	0.11	0.000134	0.08	0.00010499999999999999	3.51	0.002221	4.43	0.002754	145.23	241.88	245.0	82.96	19.332887	9.668555	9.664332	49.29702428819866	9.530538	48.480788203024204	9.372736	0.35	0.033495	0.25	0.1	0.00954	0.24	0.08	0.007199	0.21	94.8	18.327685	96.71	9.350816	92.89	8.976868999999999	94.59314586590197	18.287585999999997	0.125421	0.0	0.0	0.01	9e-06
AlpP3-1-100 | AlpP3-1-100	100.0	0.14819	100.0	0.14819	0.0	0.0	0.0	0.0	97.59	0.144613	98.28	0.072819	96.89	0.071794	2.41	0.003577	97.45	0.14440699999999998	0.0	0.0	100.0	96.88	0.143564	96.13	0.142456	0.75	0.001108	0.71	0.001049	0.12	0.00017199999999999998	0.08	0.00011399999999999999	2.89	0.002107	4.08	0.0029289999999999997	147.2	226.28	222.0	91.47	21.813954	10.902453999999999	10.9115	49.734307682137775	10.849019	49.066015267108384	10.703237999999999	0.39	0.042143	0.58	0.2	0.021528	0.36	0.18	0.019003	0.33	96.39	21.026581	97.57	10.637922999999999	95.21	10.388658	96.07404966564063	20.957549	0.144863	0.0	0.0	0.17	0.00025
AlpP3-1-20 | AlpP3-1-20	100.0	0.135936	100.0	0.135936	0.0	0.0	0.0	0.0	94.89	0.128991	95.46	0.064881	94.32	0.06411	5.11	0.006945	94.69	0.128716	0.0	0.0	100.0	94.27	0.128142	93.0	0.126416	1.27	0.0017259999999999999	0.62	0.0008489999999999999	0.14	0.000174	0.09	0.000116	2.83	0.001833	3.98	0.002549	142.75	222.29	222.0	65.05	19.405531	9.697906	9.707625	49.314125957182	9.569668	48.756728171983546	9.461502	0.56	0.053271	0.71	0.21	0.020201999999999998	0.42	0.19	0.018081	0.39	95.3	18.494284999999998	96.88	9.395309	93.73	9.098976	94.84841718580131	18.405839	0.129138	0.0	0.0	0.11	0.000147
