Order	SeqName	SeqType	IsAE	Lum_Epi	Lum_Epi2	Myo_Epi	Myo_Epi2	hESCs	StemLike	vHMECs
1	AL691432.53	Gene	0	47.08	42.75	58.53	56.53	62.74	40.63	37.45
2	404249	Transcript	0	9.28	4.02	7.09	3.33	5.07	1.49	1.36
3	407249	Transcript	0	3.70	2.35	5.42	3.25	4.08	3.13	2.08
4	340677	Transcript	0	0.13	0.00	0.00	0.00	0.52	0.00	0.00
5	356937	Transcript	0	0	0	0	0	0	0	0
6	341832	Transcript	0	0	0	0	0	0	0	0
7	358779	Transcript	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
8	ER1a	ExonRegion	0	6.77	4.25	2.62	2.73	0.00	0.61	0.00
9	ER1b	ExonRegion	0	12.60	6.24	5.62	5.51	1.39	1.39	0.28
10	E1a_E10a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
11	E1b_E2a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
12	ER1c	ExonRegion	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
13	ER2a	ExonRegion	1	50.60	13.33	66.58	23.18	39.04	13.01	18.79
14	E2a_E3a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
15	ER3a	ExonRegion	0	1.88	6.26	0.83	7.39	0.46	5.43	0.54
16	E3a_E4a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
17	ER4a	ExonRegion	0	8.12	19.99	20.88	21.79	0.69	32.98	11.39
18	E4a_E5a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
19	Ix_AR2	ActiveIntronRegion	0	13.04	3.42	20.03	6.94	3.82	6.04	1.89
20	ER5a	ExonRegion	0	1.05	0.54	2.36	0.62	15.41	0.54	1.52
21	E5a_E6a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
22	ER6a	ExonRegion	0	0.13	0.67	0.00	0.69	0.31	1.65	0.00
23	E6a_E7a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
24	ER7a	ExonRegion	0	0.34	0.00	0.17	0.00	0.65	1.20	0.00
25	E7a_E8a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
26	ER8a	ExonRegion	0	0.74	0.00	0.85	0.00	1.16	0.00	0.51
27	E8a_E9a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
28	ER9a	ExonRegion	0	3.65	1.54	5.80	4.75	15.73	1.50	4.69
29	E9a_E21a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
30	Ix	Intron	0	26.29	16.72	27.18	20.59	5.12	11.22	9.86
31	Ix_AR1	ActiveIntronRegion	0	26.49	16.85	27.37	20.75	5.17	11.30	9.93
32	Ix	Intron	0	11.18	17.04	19.78	29.93	5.21	15.88	8.69
33	Ix_AR1	ActiveIntronRegion	0	11.28	17.18	19.96	30.20	5.25	16.03	8.78
34	Ix_AR1	ActiveIntronRegion	0	55.51	4.89	19.14	1.82	8.82	3.14	9.04
35	Ix	Intron	1	26.01	10.97	9.27	2.10	7.49	1.54	2.55
36	Ix_AR1	ActiveIntronRegion	0	26.15	11.02	9.31	2.11	7.53	1.54	2.56
37	Ix_AR1	ActiveIntronRegion	0	8.82	9.14	4.69	4.30	2.69	2.80	2.05
38	E10_Ab	NovelBoundary	0	105.00	37.23	106.99	37.71	136.03	47.44	30.28
39	ER10a	ExonRegion	1	17.40	3.30	15.14	6.32	19.44	1.93	3.37
40	ER10b	ExonRegion	1	13.65	5.27	14.13	5.49	6.51	4.75	3.49
41	E10_Da	KnownBoundary	1	22.10	17.05	19.72	4.88	3.32	8.28	1.66
42	E10a_E11a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
43	ER10c	ExonRegion	1	14.83	11.69	12.00	6.65	4.24	4.58	2.22
44	ER10d	ExonRegion	0	7.88	8.66	5.50	4.36	2.63	4.44	3.20
45	ER10e	ExonRegion	0	7.41	0.87	5.68	0.97	1.65	0.32	1.19
46	ER11a	ExonRegion	0	96.40	42.46	147.09	76.02	122.96	60.21	51.05
47	E11a_E12a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
48	E11a_E13a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
49	E12a_E14a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
50	ER12a	ExonRegion	0	0.43	0.34	0.98	0.55	0.99	0.27	0.41
51	E13_Aa	NovelBoundary	0	20.65	5.07	16.37	6.66	8.23	4.48	10.12
52	ER13a	ExonRegion	0	0.08	0.00	0.00	0.00	3.08	0.00	0.00
53	E13_Da	NovelBoundary	1	55.34	9.04	20.33	12.76	18.56	8.76	10.92
54	E13a_E14a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
55	E14_Aa	NovelBoundary	0	719.62	447.72	577.83	393.88	357.04	344.14	417.76
56	ER14a	ExonRegion	1	29.05	9.85	10.62	2.49	8.77	3.33	2.75
57	E14_Da	NovelBoundary	1	77.39	26.25	41.36	19.26	22.36	16.05	10.92
58	E14a_E15a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
59	E15_Aa	NovelBoundary	1	27.89	11.32	9.76	4.50	8.60	9.33	4.06
60	ER15a	ExonRegion	0	3.00	0.00	2.98	0.00	18.90	0.00	0.00
61	E15_Da	KnownBoundary	0	683.20	320.59	509.28	289.14	1029.45	279.09	320.72
62	E15a_E16a	KnownJunction	0	0.62	0.00	0.00	0.00	0.00	0.00	0.00
63	ER15b	ExonRegion	0	5.11	0.00	5.27	0.00	31.26	0.00	0.00
64	E15_Db	NovelBoundary	0	1399.35	782.26	947.44	821.00	504.19	862.76	890.40
65	E15b_E17a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
66	E16_Aa	NovelBoundary	0	3985.24	2807.02	2864.80	2313.34	2815.58	2243.94	1870.59
67	ER16a	ExonRegion	0	0.08	0.00	0.00	0.00	0.04	0.00	0.00
68	E16_Da	NovelBoundary	0	758.09	628.94	689.42	508.39	627.48	566.20	410.15
69	E16a_E17a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
70	E17_Aa	NovelBoundary	1	16.59	16.60	12.30	9.97	1.11	3.08	6.99
71	ER17a	ExonRegion	0	5.76	0.00	1.69	1.09	1.46	1.16	0.00
72	E17_Ab	KnownBoundary	0	2.84	0.00	0.65	0.00	1.18	3.27	0.85
73	ER17b	ExonRegion	0	2.54	0.00	0.93	0.68	0.28	0.62	0.00
74	E17_Da	KnownBoundary	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
75	E17a_E29b	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
76	ER17c	ExonRegion	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
77	E17b_E18a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
78	ER18a	ExonRegion	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
79	E18a_E19a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
80	Ix	Intron	0	18.47	4.57	11.94	4.44	1.61	3.38	7.59
81	Ix_AR1	ActiveIntronRegion	0	18.57	4.59	12.00	4.46	1.62	3.40	7.63
82	ER19a	ExonRegion	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
83	E19a_E20a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
84	ER20a	ExonRegion	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
85	E20a_E21a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
86	ER21a	ExonRegion	0	26.17	20.03	29.86	27.98	10.14	24.59	22.30
87	E21a_E22a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
88	ER22a	ExonRegion	0	98.39	48.50	79.24	59.71	102.65	44.25	48.05
89	E22a_E23a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
90	ER23a	ExonRegion	0	243.75	131.87	245.12	210.42	221.74	133.49	144.91
91	E23a_E24a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
92	ER24a	ExonRegion	0	289.94	259.32	310.06	309.91	341.87	196.22	216.38
93	E24_Da	NovelBoundary	1	25.37	46.66	13.01	51.39	7.98	36.23	5.89
94	E24a_E25a	KnownJunction	0	158.20	208.54	187.62	251.05	298.28	136.84	160.57
95	ER25a	ExonRegion	0	234.34	253.10	275.65	298.41	331.83	171.79	220.45
96	E25_Da	NovelBoundary	0	19.33	31.18	27.84	23.16	14.20	25.41	7.17
97	E25a_E26a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
98	Ix	Intron	0	12.19	20.66	12.29	22.57	8.21	17.24	6.67
99	Ix_AR1	ActiveIntronRegion	0	12.29	20.84	12.38	22.78	8.29	17.38	6.73
100	E26_Aa	NovelBoundary	0	30.73	25.75	27.61	30.69	13.23	35.46	14.00
101	ER26a	ExonRegion	0	116.80	183.72	175.91	232.47	268.08	141.81	176.27
102	E26a_E27a	KnownJunction	0	106.43	134.54	156.69	192.35	237.95	126.12	152.43
103	ER27a	ExonRegion	0	118.97	123.96	190.53	166.22	237.01	115.02	124.39
104	E27a_E28a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
105	ER28a	ExonRegion	0	93.47	107.36	159.42	158.83	169.90	137.44	97.75
106	E28_Da	NovelBoundary	0	1.69	12.43	5.78	8.10	5.19	4.31	4.17
107	E28a_E29a	KnownJunction	0	131.67	104.88	225.79	134.64	189.31	138.29	110.42
108	ER29a	ExonRegion	0	118.83	156.74	214.37	223.81	163.17	222.45	116.26
109	E29_Ab	KnownBoundary	0	94.60	221.78	169.61	303.85	184.26	297.42	105.39
110	ER29b	ExonRegion	0	58.76	117.54	100.38	170.02	83.61	143.60	59.56
111	E29a_E30a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
112	ER30a	ExonRegion	0	24.11	35.50	41.82	56.45	43.53	50.44	24.80
113	E30a_E31a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
114	ER31a	ExonRegion	0	0.00	0.00	0.05	0.10	1.08	0.00	0.29