Order	SeqName	SeqType	IsAE	Lum_Epi	Lum_Epi2	Myo_Epi	Myo_Epi2	hESCs	StemLike	vHMECs
1	PAPLN	Gene	0	24.97	7.95	7.62	4.65	56.29	13.51	11.88
2	340738	Transcript	0	0	0	0	0	0	0	0
3	216658	Transcript	0	3.85	2.41	0.35	0.06	8.28	2.86	3.13
4	381166	Transcript	0	0.00	1.63	0.00	0.00	1.11	0.00	0.60
5	394134	Transcript	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
6	394131	Transcript	0	3.23	0.97	1.11	1.05	7.73	1.82	1.02
7	IG36	Intergenic	0	30.64	21.86	17.51	11.77	15.54	18.21	18.93
8	IG36_AR1	ActiveIntergenicRegion	0	103.57	71.74	61.71	39.70	56.41	62.44	65.44
9	IG36_SR1	SilentIntergenicRegion	0	13.29	2.65	1.63	0.90	0.51	1.33	0.37
10	ER1a	ExonRegion	0	0.00	0.00	0.00	0.00	0.06	0.00	0.00
11	E1_Ab	KnownBoundary	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
12	ER1b	ExonRegion	0	0.00	0.00	0.00	0.00	0.85	0.00	0.00
13	E1a_E2a	KnownJunction	0	1.77	1.29	0.65	0.00	0.00	0.00	0.00
14	ER2a	ExonRegion	0	1.00	0.00	0.00	0.00	3.21	0.16	0.00
15	E2a_E3a	KnownJunction	0	2.02	0.00	0.00	0.00	6.96	0.00	0.00
16	ER3a	ExonRegion	0	3.51	1.51	0.00	0.00	11.32	3.08	2.63
17	E3_Da	NovelBoundary	1	8.68	1.63	4.15	1.19	22.57	4.37	18.37
18	E3a_E4a	KnownJunction	0	0.97	3.89	1.49	0.00	11.71	3.27	0.00
19	I3	Intron	0	4.32	1.68	1.87	1.61	12.62	5.85	6.18
20	I3_SR1	SilentIntronRegion	1	7.25	1.49	2.09	2.58	16.62	7.59	11.07
21	I3_AR1	ActiveIntronRegion	1	4.62	2.46	2.67	1.79	16.73	9.10	8.14
22	ER4a	ExonRegion	0	1.52	3.33	0.00	0.00	10.22	3.94	0.00
23	E4a_E5a	KnownJunction	0	3.29	1.05	0.00	0.00	11.34	4.72	0.00
24	ER5a	ExonRegion	0	2.13	8.63	0.00	0.00	12.41	4.96	2.47
25	E5a_E6a	KnownJunction	0	4.84	5.12	0.00	0.00	13.58	4.23	1.33
26	ER6a	ExonRegion	0	9.56	6.51	0.41	0.00	24.34	4.73	3.05
27	E6_Da	KnownBoundary	0	14.52	6.96	1.55	1.68	32.92	5.41	5.03
28	ER6b	ExonRegion	0	11.70	9.89	0.58	1.31	24.16	8.35	8.42
29	E6b_E7a	KnownJunction	0	14.02	9.09	0.73	1.60	21.97	11.79	8.79
30	ER7a	ExonRegion	0	12.52	9.54	1.05	1.25	29.81	9.70	9.64
31	E7a_E8a	KnownJunction	0	10.60	11.06	0.89	0.00	33.63	10.59	6.26
32	E7a_E10a	KnownJunction	0	0.00	6.17	0.00	0.00	1.11	1.10	0.00
33	ER8a	ExonRegion	0	9.50	7.90	0.63	0.00	27.48	7.45	9.71
34	E8a_E10a	KnownJunction	0	13.82	6.59	1.48	0.00	23.61	8.84	11.48
35	ER9a	ExonRegion	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
36	ER10a	ExonRegion	0	5.64	7.34	1.82	2.18	19.28	7.49	5.86
37	E10a_E11a	KnownJunction	0	8.70	5.20	0.00	0.00	11.64	6.94	5.75
38	ER11a	ExonRegion	0	6.74	6.60	0.92	1.00	14.05	7.71	5.53
39	E11a_E12a	KnownJunction	0	2.39	3.97	1.71	1.41	9.06	10.40	4.73
40	ER12a	ExonRegion	0	6.03	3.19	2.38	2.49	17.41	6.61	6.07
41	E12a_E13a	KnownJunction	0	0.85	0.00	0.00	0.00	0.00	0.00	0.60
42	E12a_E14a	KnownJunction	0	3.34	4.31	0.72	2.98	7.79	8.63	8.07
43	ER13a	ExonRegion	0	1.62	0.00	0.00	0.00	1.44	0.00	2.67
44	E13a_E14a	KnownJunction	0	2.37	0.00	0.00	0.00	1.06	0.00	2.21
45	ER14a	ExonRegion	0	8.87	5.15	1.04	2.86	20.85	10.40	7.83
46	E14_Da	NovelBoundary	0	3.04	0.00	0.00	9.48	5.39	3.56	1.29
47	E14a_E15a	KnownJunction	0	10.68	5.44	0.00	0.00	15.91	10.53	6.82
48	I14	Intron	0	2.71	1.85	0.99	1.65	11.75	0.70	2.03
49	I14_SR1	SilentIntronRegion	0	2.96	1.63	1.04	1.65	11.73	0.81	2.12
50	I14_AR1	ActiveIntronRegion	0	1.13	3.38	0.65	1.74	12.32	0.00	1.51
51	E15_Aa	NovelBoundary	0	3.61	2.60	0.00	1.06	14.57	8.07	2.95
52	ER15a	ExonRegion	0	14.82	10.87	1.62	4.65	33.54	11.90	10.85
53	E15a_E16b	KnownJunction	0	5.11	6.04	0.69	0.00	20.31	3.73	5.09
54	ER16a	ExonRegion	0	1.18	0.59	0.50	2.10	5.23	3.82	0.57
55	E16_Ab	KnownBoundary	0	5.34	1.63	1.68	1.11	5.16	2.65	1.48
56	ER16b	ExonRegion	0	12.82	9.73	1.84	0.80	35.98	8.19	10.25
57	E16_Da	KnownBoundary	0	1.90	1.63	0.65	0.00	1.18	1.02	0.59
58	E16a_E18a	KnownJunction	0	14.45	13.63	2.39	1.25	33.45	12.62	14.90
59	ER16c	ExonRegion	0	2.48	1.43	1.38	0.98	9.29	2.08	1.26
60	E16b_E17a	KnownJunction	0	0.60	0.00	0.00	0.00	1.06	0.00	0.00
61	E17_Aa	NovelBoundary	0	506.94	316.44	379.72	260.62	598.11	265.34	339.96
62	ER17a	ExonRegion	0	8.68	1.85	2.54	1.11	15.33	1.40	2.24
63	ER18a	ExonRegion	0	6.19	10.45	1.23	2.94	24.40	10.10	16.02
64	E18a_E19a	KnownJunction	0	4.39	4.07	0.86	1.30	14.82	7.29	8.77
65	E18a_E19b	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
66	ER19a	ExonRegion	0	13.58	6.88	2.08	0.93	27.79	11.41	13.30
67	E19_Ab	KnownBoundary	0	7.94	5.12	0.63	0.00	31.40	8.39	10.36
68	ER19b	ExonRegion	0	7.31	4.26	1.00	0.65	16.72	10.57	7.93
69	E19a_E20a	KnownJunction	0	5.34	3.73	0.00	0.00	6.04	4.45	6.49
70	E19a_E21a	KnownJunction	0	0.70	0.00	0.00	0.00	0.00	3.08	0.63
71	ER20a	ExonRegion	0	6.23	5.71	0.97	0.63	24.51	6.07	7.90
72	E20a_E21a	KnownJunction	0	4.56	3.65	0.82	1.25	25.98	6.59	10.86
73	ER21a	ExonRegion	0	5.54	4.14	1.12	0.13	18.69	7.43	9.30
74	E21a_E22a	KnownJunction	0	3.35	2.47	0.00	0.00	3.37	2.81	8.00
75	I21	Intron	0	3.65	1.37	0.93	1.41	22.87	1.10	1.57
76	I21_SR1	SilentIntronRegion	0	4.06	1.28	0.79	1.11	22.07	0.71	1.36
77	I21_AR1	ActiveIntronRegion	0	2.71	1.57	1.27	2.12	24.90	2.03	2.08
78	ER22a	ExonRegion	0	7.21	5.00	1.05	2.04	20.26	9.26	6.60
79	E22a_E23a	KnownJunction	0	6.51	1.52	1.67	1.46	11.94	7.83	5.29
80	I22	Intron	0	2.45	1.35	0.88	1.04	23.91	0.67	1.40
81	I22_AR1	ActiveIntronRegion	0	2.45	1.35	0.88	1.04	23.98	0.68	1.40
82	E23_Aa	NovelBoundary	0	2.95	0.00	0.00	1.33	20.66	0.00	0.62
83	ER23a	ExonRegion	0	7.61	7.23	2.62	2.11	33.58	14.56	7.04
84	E23a_E24a	KnownJunction	0	11.10	10.40	1.49	1.68	39.12	16.32	10.29
85	ER24a	ExonRegion	0	9.71	7.25	1.43	2.48	39.14	14.16	8.84
86	E24a_E25b	KnownJunction	0	10.50	2.86	1.78	3.12	43.52	10.34	10.10
87	E24b_E25a	KnownJunction	0	0.00	0.00	0.00	0.00	0.00	0.00	0.00
88	ER24b	ExonRegion	0	1.11	0.00	0.00	0.50	0.29	1.13	0.00
89	ER25a	ExonRegion	0	1.75	0.92	0.80	0.11	3.61	0.33	0.90
90	E25_Ab	KnownBoundary	0	2.05	1.39	1.39	0.00	4.36	4.56	0.85
91	ER25b	ExonRegion	0	9.52	4.82	1.28	4.09	34.48	9.52	11.19
92	E25a_E26a	KnownJunction	0	13.54	3.05	0.00	4.61	29.69	7.91	7.11
93	ER26a	ExonRegion	0	9.76	4.90	1.51	2.16	35.49	7.63	9.95
94	E26a_E27a	KnownJunction	0	7.48	2.34	0.00	0.00	40.80	6.54	9.39
95	E26a_E30a	KnownJunction	0	0.00	1.63	0.00	0.00	1.11	0.00	0.60
96	I26	Intron	0	3.32	2.66	1.79	1.29	12.29	1.26	3.20
97	I26_SR1	SilentIntronRegion	0	3.33	2.67	1.79	1.29	12.33	1.26	3.21
98	E27_Aa	NovelBoundary	0	5.86	7.96	1.41	2.74	10.54	1.21	4.69
99	ER27a	ExonRegion	0	12.87	3.20	1.05	2.14	43.02	8.87	10.79
100	E27_Da	NovelBoundary	1	7.04	17.68	6.04	1.33	22.98	2.20	7.87
101	E27a_E28a	KnownJunction	0	10.65	4.39	0.00	0.00	61.04	8.87	8.21
102	I27	Intron	0	1.23	0.00	0.00	0.00	13.56	1.97	2.73
103	I27_SR1	SilentIntronRegion	0	1.25	0.00	0.00	0.00	13.83	1.99	2.79
104	E28_Aa	NovelBoundary	0	6.03	11.01	0.83	4.93	11.07	3.27	9.06
105	ER28a	ExonRegion	0	17.33	9.75	4.15	0.00	60.78	12.51	15.82
106	E28_Da	NovelBoundary	0	9.75	2.89	0.00	0.00	32.44	3.97	8.18
107	E28a_E29a	KnownJunction	0	16.99	4.36	2.26	0.00	43.32	8.31	12.30
108	I28	Intron	0	4.40	2.78	2.17	1.83	22.46	2.03	3.64
109	I28_SR1	SilentIntronRegion	0	4.50	3.13	2.14	2.01	22.50	2.38	3.91
110	I28_AR1	ActiveIntronRegion	0	3.87	0.77	2.42	0.79	22.52	0.00	2.12
111	E29_Aa	NovelBoundary	0	16.99	1.47	6.18	2.71	34.23	9.27	9.23
112	ER29a	ExonRegion	0	20.25	7.57	4.15	2.27	77.47	13.48	15.48
113	E29a_E30a	KnownJunction	0	18.13	5.57	2.44	0.00	89.95	15.81	13.50
114	I29	Intron	1	7.22	3.05	5.15	3.31	13.41	2.76	7.57
115	I29_AR1	ActiveIntronRegion	1	8.52	3.00	5.11	2.99	16.99	1.96	7.64
116	I29_AR3	ActiveIntronRegion	1	13.15	6.95	10.67	7.42	16.67	7.16	14.17
117	E30_Aa	NovelBoundary	0	14.59	14.34	6.94	21.75	21.49	17.80	10.07
118	ER30a	ExonRegion	0	73.33	17.42	24.41	13.40	151.74	32.98	28.22
119	IG37	Intergenic	0	19.85	5.39	13.82	3.21	13.49	4.31	8.51
120	IG37_AR1	ActiveIntergenicRegion	0	13.48	3.39	9.39	2.27	7.02	1.79	6.70
121	IG37_SR1	SilentIntergenicRegion	0	28.54	6.30	16.81	1.99	13.68	4.37	8.84
122	IG37_SR2	SilentIntergenicRegion	0	43.86	9.72	27.94	7.07	25.71	11.03	14.56
123	IG37_AR2	ActiveIntergenicRegion	0	23.54	7.75	18.06	4.65	22.27	7.51	10.56