# List of top-scoring protein chains for t04-w0.5-1-alpha-0.1-scores hidden Markov model.
# HMM and HMM E-value scores computed by  SAM (c) 1992-2001 Regents of the University of California, Santa Cruz
# Sequence Alignment and Modeling Software System
#     http://compbio.soe.ucsc.edu/sam.html
# ----------------- Citations (SAM, SAM-T99, HMMs) --------------------
# R. Hughey, A. Krogh, Hidden Markov models for sequence analysis:
#  Extension and analysis of the basic method, CABIOS 12:95-107, 1996.
# K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting
#  remote protein homologies, Bioinformatics 14(10):846-856, 1998.
# A. Krogh et al., Hidden Markov models in computational biology:
#  Applications to protein modeling, JMB 235:1501-1531, Feb 1994.
#
#SCOP domains found in each protein chain taken from SCOP:
# ------------------Citations (SCOP) -----------------------------------
#Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995).
#SCOP: a structural classification of proteins database for the investigation of sequences and structures.
#J. Mol. Biol. 247, 536-540.
Sequence_ID	Length	Target_Evalue	SCOP_domain	SCOP_suid
5S	5N	12S	12S	10N
1owlA	484	0.7976	a.99.1.1,c.28.1.1	93647,93648
1qnf	484	0.9741		
2qorA	204	1.869		
1u2wA	122	2.216	a.4.5.5	119487
3lsgA	103	2.881		
2fozA	347	3.405		
1a6sA	87	5.583	a.61.1.4	18134
2od5A	116	8.083	a.4.5.70	148736
1tezA	474	9.240	a.99.1.1,c.28.1.1	112409,112410
1f21A	155	14.12	c.55.3.1	33550
1jl1A	155	15.61	c.55.3.1	66821
2pjpA	121	19.04		
3ik4A	365	19.41		
1gxjA	186	20.66	d.215.1.1	70707
2h7bA	105	20.81	a.277.1.1	147237
1o7dA	298	23.22	c.6.2.1	86641
1np8A	159	23.49	a.39.1.8	92022
1bl0A	129	23.51	a.4.1.8,a.4.1.8	16053,16054
2aamA	309	23.92	c.1.8.15	126489
2dejA	350	24.68		
1dw0A	112	25.34	a.3.1.1	15911
3fwaA	497	25.81		
2rn2	155	26.84		
1gu2A	124	28.25	a.3.1.1	76348
1wdcB	156	28.45	a.39.1.5	17302
1wovA	250	28.52	a.132.1.1	121124
1xo5A	183	29.42	a.39.1.5	115680
3k7mX	431	30.48		
2vsoE	289	30.63		
3gpgA	168	32.99		
1s1eA	224	33.01	a.39.1.5	112007
1sfxA	109	33.08	a.4.5.50	105505
2j0fA	482	33.15		
1yakA	263	34.06	a.132.1.3	122833
1rec	201	34.80		
1u8bA	133	35.01		
1obpA	159	36.45	b.60.1.1	27092
1wsuA	124	36.71	a.4.5.35,a.4.5.35	121245,121246
1yzxA	226	37.35		
2i7aA	174	39.42		
2ajtA	500	40.03	b.43.2.2,c.85.1.2	126894,126895
1uhnA	189	40.14	a.39.1.5	99399
1gt1A	159	42.80	b.60.1.1	90515
3dxfA	299	43.83		
1i4aA	318	44.10	a.65.1.1	61681
1r1uA	106	44.29	a.4.5.5	104771
2fkiA	126	48.53	d.198.3.1	133657
1rroA	108	50.99	a.39.1.4	17195
1w3wA	327	51.59		
2oqgA	114	52.04		
2wm3A	299	54.22		
2x5yA	173	54.66		
1smtA	122	57.53	a.4.5.5	16109
5palA	109	57.99	a.39.1.4	17215
1k94A	165	59.84	a.39.1.8	68333
1r1tA	122	61.23	a.4.5.5	104769
1dwkA	156	61.77	a.35.1.4,d.72.1.1	17075,39606
4cpvA	108	65.34	a.39.1.4	17198
1hkqA	132	65.69	a.4.5.10	83555
1f4qA	165	65.95	a.39.1.8	17360
1gg3A	279	66.17	a.11.2.1,b.55.1.5,d.15.1.4	16372,27007,37615
1pieA	419	66.37	d.14.1.5,d.58.26.7	94706,94707
3i4kA	383	67.90		
1w53A	84	68.86	a.186.1.2	109175
1alvA	173	69.28	a.39.1.8	17370
2fjuB	799	72.03	a.39.1.7,b.7.1.1,b.55.1.1,c.1.18.1	145170,145171,145172,145173
3fw9A	495	74.93		
1xszA	356	77.23	a.118.3.1,d.129.9.1	116005,116006
1zi8A	236	78.46		
2aajA	130	78.61	d.80.1.6	126481
3eoqA	406	79.60		
1auiB	169	81.23	a.39.1.5	17325
1bj7A	156	83.33	b.60.1.1	27113
3eslA	202	85.35		
1qzpA	68	86.19	a.14.1.1	96654
2jd3A	130	87.86		
1rxqA	178	88.02	a.213.1.1	105118
1u9tA	354	88.35	e.62.1.1	119651
2bzeA	153	89.07	b.34.21.1	146224
1lvaA	258	89.13	a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35	74276,74277,74278,74279
3a42A	295	89.81