Order	SeqName	SeqType	IsAE	Lum_Epi	Lum_Epi2	Myo_Epi	Myo_Epi2	hESCs	StemLike	vHMECs
1	RPGR	Gene	0	38.43	42.84	25.58	13.81	18.58	18.40	10.35
2	378505	Transcript	0	12.61	6.99	9.16	3.36	2.82	1.93	1.06
3	342811	Transcript	0	0.81	0.00	0.00	0.00	0.00	0.00	0.00
4	318842	Transcript	0	0	0	0	0	0	0	0
5	339363	Transcript	0	14.32	12.77	8.22	4.74	2.71	2.68	1.85
6	309513	Transcript	0	2.40	0.00	0.00	1.14	2.26	0.00	0.00
7	338898	Transcript	0	5.22	8.72	0.75	0.00	1.18	0.00	0.00
8	ER1a	ExonRegion	0	19.14	33.04	11.74	13.25	8.92	8.63	5.35
9	E1a_E2a	KnownJunction	1	15.04	51.83	8.94	10.67	6.25	13.59	9.01
10	ER2a	ExonRegion	0	36.23	87.53	30.72	23.99	30.53	30.06	19.53
11	E2_Da	NovelBoundary	1	14.80	0.00	1.71	0.00	0.88	0.00	0.87
12	E2a_E3a	KnownJunction	0	23.85	105.43	21.87	18.80	22.68	26.64	21.41
13	ER3a	ExonRegion	1	39.80	111.45	30.02	25.45	24.36	35.21	23.51
14	E3a_E4a	KnownJunction	1	35.15	97.94	33.47	23.08	31.49	28.92	22.47
15	E4_Aa	NovelBoundary	1	8.61	0.00	2.24	8.24	0.92	0.00	1.40
16	ER4a	ExonRegion	1	36.54	103.59	35.74	24.25	31.28	33.26	23.23
17	E4_Da	NovelBoundary	1	24.35	2.65	8.48	9.62	4.15	0.00	0.72
18	E4a_E5a	KnownJunction	0	33.16	115.57	36.44	21.02	32.80	34.06	18.32
19	I4	Intron	0	13.56	3.33	6.12	2.68	0.61	0.99	0.51
20	I4_SR1	SilentIntronRegion	0	13.60	3.34	6.14	2.69	0.61	0.99	0.51
21	ER5a	ExonRegion	0	60.48	100.02	50.45	29.86	36.83	39.83	23.69
22	E5a_E6a	KnownJunction	0	63.89	93.42	54.16	30.37	34.23	43.55	19.79
23	ER6a	ExonRegion	0	73.57	91.54	55.01	33.06	36.77	44.12	21.63
24	E6_Da	NovelBoundary	1	29.67	17.94	22.49	2.90	7.88	2.84	0.00
25	E6a_E7a	KnownJunction	0	43.43	83.60	34.06	19.61	21.32	38.83	15.89
26	I6	Intron	0	19.70	7.66	11.98	2.44	2.80	1.70	1.11
27	I6_AR1	ActiveIntronRegion	0	14.29	1.23	7.79	2.00	1.35	0.85	1.63
28	I6_SR1	SilentIntronRegion	0	17.57	7.05	12.01	1.98	2.43	1.81	1.19
29	I6_AR2	ActiveIntronRegion	1	34.27	13.50	13.35	5.04	4.81	1.57	0.61
30	I6_AR5	ActiveIntronRegion	0	16.89	5.00	10.79	2.56	3.19	1.08	1.19
31	E7_Aa	NovelBoundary	1	21.83	10.96	17.42	3.25	2.19	1.50	1.29
32	ER7a	ExonRegion	0	64.08	83.26	41.27	21.65	31.97	46.70	19.50
33	E7_Da	NovelBoundary	1	17.56	2.71	7.46	3.36	2.35	0.00	0.79
34	E7a_E8a	KnownJunction	0	45.40	74.61	42.16	18.99	35.13	34.65	22.08
35	I7	Intron	0	15.43	2.41	10.14	0.74	0.66	0.57	0.63
36	I7_SR1	SilentIntronRegion	0	15.53	2.39	10.27	0.75	0.66	0.58	0.64
37	E8_Aa	NovelBoundary	1	12.25	2.94	6.50	0.00	0.00	1.66	0.00
38	ER8a	ExonRegion	0	83.41	68.20	49.08	25.87	38.48	32.95	19.48
39	E8a_E9a	KnownJunction	0	94.11	76.48	60.27	30.29	53.30	36.37	25.70
40	E9_Aa	NovelBoundary	1	12.00	0.00	7.23	0.00	0.00	0.00	0.00
41	ER9a	ExonRegion	0	124.74	96.34	75.41	36.74	53.05	37.07	22.13
42	E9a_E10a	KnownJunction	0	118.52	82.99	74.80	35.92	31.10	34.54	21.97
43	E9a_E11a	KnownJunction	0	2.40	0.00	0.00	1.14	2.26	0.00	0.00
44	ER10a	ExonRegion	0	88.60	92.82	60.63	28.59	51.16	28.57	24.85
45	E10_Da	NovelBoundary	1	17.06	9.25	9.46	0.00	1.91	0.00	0.62
46	E10a_E11a	KnownJunction	0	43.29	72.96	40.45	26.50	25.91	18.52	21.70
47	I10	Intron	0	13.53	5.25	8.79	1.86	0.81	1.00	0.40
48	I10_SR1	SilentIntronRegion	0	13.17	4.46	9.37	1.61	1.05	0.00	0.57
49	I10_SR2	SilentIntronRegion	1	15.57	6.16	9.27	2.17	0.64	1.35	0.27
50	E11_Aa	NovelBoundary	1	18.26	10.72	18.74	4.52	0.00	1.53	1.59
51	ER11a	ExonRegion	0	75.17	112.28	50.87	27.37	37.13	34.73	23.56
52	E11a_E12a	KnownJunction	0	77.57	91.06	67.12	24.95	45.71	36.72	20.90
53	E11a_E13a	KnownJunction	0	5.22	8.72	0.75	0.00	1.18	0.00	0.00
54	ER12a	ExonRegion	0	89.90	111.27	74.14	36.50	52.39	39.51	25.21
55	E12a_E13a	KnownJunction	0	126.78	125.00	80.03	52.12	70.77	44.17	26.44
56	ER13a	ExonRegion	0	127.36	119.87	71.62	41.04	49.19	57.44	20.95
57	E13_Da	NovelBoundary	1	13.84	6.07	8.68	1.11	2.24	0.00	0.00
58	E13a_E14a	KnownJunction	0	80.41	95.68	51.92	29.75	49.84	52.47	13.31
59	E13a_E16a	NovelJunction	0	11.60	18.86	18.24	4.39	2.03	9.78	12.47
60	I13_SR1	SilentIntronRegion	1	15.22	3.87	7.82	0.00	2.24	0.00	0.12
61	E14_Aa	NovelBoundary	1	21.81	10.19	5.59	2.57	5.44	3.22	1.59
62	ER14a	ExonRegion	0	93.50	119.24	51.38	35.67	51.65	57.62	19.08
63	E14_Da	KnownBoundary	0	11.97	11.74	6.62	2.52	5.37	6.38	3.20
64	E14a_E14b	KnownJunction	0	48.48	92.32	32.32	28.07	41.36	47.36	20.05
65	ER14b	ExonRegion	0	14.32	12.77	8.22	4.74	2.71	2.68	1.85
66	E14_Ab	KnownBoundary	0	13.87	6.49	4.27	5.96	2.14	1.10	0.89
67	ER14c	ExonRegion	0	89.70	89.06	47.78	32.39	64.86	38.89	22.39
68	E14_Db	KnownBoundary	0	18.79	13.69	7.17	7.64	4.84	3.27	1.63
69	E14b_E15a	KnownJunction	0	1.00	0.00	0.00	0.00	0.00	0.00	0.00
70	E14b_E16a	KnownJunction	0	74.44	84.88	31.38	28.45	53.18	36.15	22.39
71	ER14d	ExonRegion	0	12.61	6.99	9.16	3.36	2.82	1.93	1.06
72	I14	Intron	0	12.86	7.70	6.97	2.62	3.42	1.66	1.37
73	I14_SR1	SilentIntronRegion	0	12.12	7.29	6.53	2.44	3.16	1.17	1.38
74	I14_AR3	ActiveIntronRegion	0	24.15	12.71	12.01	2.88	5.69	2.23	1.96
75	I14_SR2	SilentIntronRegion	0	15.43	8.56	6.73	4.44	5.68	5.05	1.73
76	E15_Aa	NovelBoundary	0	20.35	15.66	14.66	9.86	7.35	4.98	2.82
77	ER15a	ExonRegion	0	0.62	0.00	0.00	0.00	0.00	0.00	0.00
78	E15_Da	NovelBoundary	0	16.72	7.54	4.99	1.68	13.26	0.00	2.39
79	I15	Intron	0	15.04	7.74	8.53	3.02	4.88	2.15	2.59
80	I15_SR1	SilentIntronRegion	0	17.24	10.46	8.68	3.70	6.60	3.51	2.37
81	I15_SR2	SilentIntronRegion	0	16.15	6.40	10.76	2.85	4.25	0.28	2.94
82	I15_AR2	ActiveIntronRegion	0	16.92	4.87	9.54	2.10	3.77	0.00	2.56
83	E16_Aa	NovelBoundary	1	33.03	14.21	13.72	5.42	10.10	2.57	1.73
84	ER16a	ExonRegion	0	121.49	117.33	68.80	36.77	66.60	68.99	41.02
85	E16_Da	NovelBoundary	1	9.58	13.53	5.23	2.93	0.00	0.00	0.00
86	E16a_E17a	KnownJunction	0	86.52	102.51	54.02	30.75	54.29	37.28	43.18
87	E16a_E18a	NovelJunction	0	10.78	10.35	4.73	5.77	2.14	14.79	0.00
88	E17_Aa	NovelBoundary	0	7.16	6.99	10.62	0.00	0.00	1.37	2.16
89	ER17a	ExonRegion	0	68.17	85.38	40.65	20.21	49.19	36.65	34.71
90	E17_Da	NovelBoundary	1	44.04	22.25	26.30	7.12	13.74	8.98	3.18
91	E17a_E18a	KnownJunction	1	46.11	68.25	28.93	10.78	54.08	39.13	27.26
92	I17	Intron	0	33.07	21.83	21.50	7.83	8.92	10.78	2.50
93	I17_SR1	SilentIntronRegion	0	33.06	23.16	20.58	7.98	9.08	10.76	2.37
94	I17_AR1	ActiveIntronRegion	0	33.22	19.60	23.19	7.59	8.69	10.86	2.74
95	E18_Aa	NovelBoundary	1	23.02	22.38	23.67	5.12	10.93	21.92	5.27
96	ER18a	ExonRegion	0	68.80	99.37	48.97	24.42	48.22	41.70	37.57
97	E18_Da	NovelBoundary	1	11.92	1.10	12.90	3.74	0.95	7.99	0.59
98	E18a_E19a	KnownJunction	0	52.29	81.55	45.57	21.48	36.22	42.88	27.46
99	E19_Aa	NovelBoundary	0	5.89	6.94	7.21	1.11	1.18	10.10	0.00
100	ER19a	ExonRegion	0	29.52	31.93	22.45	10.91	11.42	23.67	9.97