Order	SeqName	SeqType	IsAE	Lum_Epi	Lum_Epi2	Myo_Epi	Myo_Epi2	hESCs	StemLike	vHMECs
1	FOXJ3	Gene	0	198.32	211.60	244.62	206.78	131.47	118.22	77.80
2	372573	Transcript	0	8.41	6.62	16.46	15.93	0.98	13.04	0.61
3	361346	Transcript	0	0	0	0	0	0	0	0
4	361776	Transcript	1	71.42	176.36	151.31	116.52	53.85	82.89	16.34
5	372572	Transcript	0	3.00	1.76	3.30	3.48	2.32	0.44	0.55
6	372571	Transcript	1	40.21	17.36	67.26	9.59	18.40	6.12	9.04
7	ER1a	ExonRegion	0	10.07	6.15	15.99	19.43	1.96	14.60	1.23
8	E1a_E6a	KnownJunction	0	6.76	7.09	16.93	12.43	0.00	11.47	0.00
9	ER2a	ExonRegion	0	14.25	51.30	17.51	49.69	10.70	24.49	12.93
10	E2a_E6a	KnownJunction	0	13.17	130.94	15.72	81.25	7.58	53.57	12.63
11	ER3a	ExonRegion	0	0.02	0.03	0.03	0.09	0.00	0.00	0.00
12	E3a_E4a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
13	ER4a	ExonRegion	0	12.17	9.60	14.72	13.05	9.49	2.55	2.85
14	E4a_E5a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
15	E4a_E6a	NovelJunction	1	11.57	24.93	9.37	17.64	14.18	4.23	5.60
16	ER5a	ExonRegion	0	5.81	0.93	4.44	7.75	4.44	0.09	0.47
17	E5a_E6a	KnownJunction	0	0.00	0.00	0.60	0.00	0.00	0.00	0.00
18	ER6a	ExonRegion	0	31.10	184.44	71.91	142.75	16.60	96.23	43.27
19	E6a_E7a	KnownJunction	0	65.32	216.40	130.41	190.10	24.80	139.39	71.99
20	E6a_E8a	NovelJunction	1	0.63	11.53	4.07	0.00	0.88	9.81	0.89
21	I6_AR8	ActiveIntronRegion	0	10.01	44.58	18.85	23.59	9.08	15.19	2.09
22	E7_Aa	NovelBoundary	0	29.93	96.34	43.02	64.80	9.38	49.87	6.91
23	ER7a	ExonRegion	0	198.44	480.81	388.31	357.95	107.74	270.16	105.11
24	E7a_E8a	KnownJunction	0	244.31	510.59	446.79	374.59	140.81	245.22	105.46
25	E7a_E9a	NovelJunction	1	4.19	13.37	4.56	1.49	0.00	1.05	0.00
26	ER8a	ExonRegion	0	241.73	513.03	444.13	424.43	184.79	254.76	113.22
27	E8a_E9a	KnownJunction	0	259.81	467.47	445.45	419.86	222.28	242.30	117.29
28	E8a_E11a	NovelJunction	0	2.90	4.54	0.69	3.14	0.00	8.55	0.00
29	ER9a	ExonRegion	0	278.55	502.99	403.99	449.69	178.63	226.97	128.60
30	E9a_E10a	KnownJunction	0	150.26	358.61	184.04	312.25	93.29	148.87	101.32
31	E9a_E11a	KnownJunction	1	71.42	176.36	151.31	116.52	53.85	82.89	16.34
32	ER10a	ExonRegion	0	175.08	386.09	264.14	341.79	120.25	185.87	139.59
33	E10_Da	NovelBoundary	1	73.60	0.00	110.25	1.25	0.00	0.00	0.00
34	E10a_E11a	KnownJunction	0	161.74	419.63	252.49	394.20	139.54	188.38	168.72
35	ER11a	ExonRegion	0	207.28	574.03	385.29	458.30	198.55	258.30	173.12
36	E11a_E12a	KnownJunction	0	258.56	564.05	505.23	496.01	270.66	248.03	212.78
37	ER12a	ExonRegion	0	245.28	569.69	481.89	494.39	238.49	302.90	205.43
38	E12a_E13a	KnownJunction	0	296.46	622.79	521.30	593.08	284.70	282.58	240.50
39	ER13a	ExonRegion	0	162.19	443.48	255.47	445.35	190.94	211.61	172.49
40	E13a_E14b	KnownJunction	0	113.01	177.38	162.20	209.17	125.11	68.39	69.12
41	I13	Intron	0	25.87	14.60	53.91	16.48	14.92	8.03	8.66
42	I13_SR1	SilentIntronRegion	1	25.93	14.63	54.03	16.52	14.96	8.05	8.68
43	E14_Aa	NovelBoundary	0	75.87	20.57	111.13	20.75	23.12	8.23	14.29
44	ER14a	ExonRegion	1	67.66	23.42	107.81	15.68	31.47	9.73	13.71
45	E14_Ab	KnownBoundary	1	70.87	12.14	88.61	14.79	21.12	6.19	10.43
46	ER14b	ExonRegion	0	159.36	213.55	244.34	250.06	192.94	112.74	104.11
47	E14_Da	KnownBoundary	0	21.16	8.93	29.83	4.98	4.31	5.68	2.42
48	E14a_E14c	KnownJunction	0	152.00	220.86	221.94	214.40	241.69	154.82	105.46
49	ER14c	ExonRegion	0	12.77	11.30	26.72	3.51	5.33	2.50	4.36
50	E14_Ac	KnownBoundary	0	16.94	16.34	12.49	2.79	6.27	1.26	8.25
51	ER14d	ExonRegion	0	373.48	307.00	395.35	318.23	227.02	164.42	149.54
52	E14b_E15a	KnownJunction	0	531.77	415.43	485.83	386.86	264.72	228.15	191.32
53	I14_AR2	ActiveIntronRegion	0	32.91	10.77	52.41	5.35	19.88	3.07	12.96
54	I14_AR3	ActiveIntronRegion	0	51.99	19.26	50.47	11.42	32.86	5.75	15.12
55	I14_AR7	ActiveIntronRegion	0	46.57	21.62	49.58	15.84	20.98	6.01	11.81
56	I14_AR8	ActiveIntronRegion	0	49.69	22.27	57.58	16.00	23.89	6.54	12.37
57	I14_AR9	ActiveIntronRegion	0	45.97	20.40	37.94	13.76	24.77	5.83	18.60
58	E15_Aa	NovelBoundary	0	49.50	20.70	52.29	11.22	30.84	4.93	22.10
59	ER15a	ExonRegion	0	507.32	380.14	411.44	362.72	314.78	189.00	171.83
60	E15a_E16a	KnownJunction	0	372.39	309.87	316.41	274.70	234.93	161.84	123.48
61	ER16a	ExonRegion	0	260.71	181.10	283.60	196.83	159.13	113.80	73.68
62	ER16b	ExonRegion	0	0.38	1.01	2.71	1.45	1.08	0.00	2.14