# List of top-scoring protein chains for t04-w0.5-1-CB8-sep9-0.3-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://www.cse.ucsc.edu/research/compbio/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
2gcxA	75	2.91e-09		
2h3jA	75	3.03e-09		
2dtrA	226	0.000215	a.4.5.24,a.76.1.1,b.34.1.2	16193,18399,24450
1fx7A	230	0.000234	a.4.5.24,a.76.1.1,b.34.1.2	60088,60089,60090
2qq9A	226	0.000694		
2dtr	226	0.007121		
1qw1A	121	0.007130		
1bymA	97	1.820	b.34.1.2	24458
1rhs	296	6.085		
1pujA	282	8.247	c.37.1.8	88294
1uarA	285	10.11	c.46.1.2,c.46.1.2	107762,107763
1a8i	842	13.71		
1e0cA	271	16.40	c.46.1.2,c.46.1.2	32717,32718
1rhsA	296	16.41	c.46.1.2,c.46.1.2	32703,32704
2qptA	550	19.33		
2dulA	378	20.15		
1wf3A	301	21.39	c.37.1.8,d.52.3.1	114574,114575
1qyrA	252	21.65	c.66.1.24	104657
1ne2A	200	31.67	c.66.1.32	85586
2dbyA	368	33.06		
1np3A	338	34.90	a.100.1.2,c.2.1.6	85946,85947
1qusA	322	35.72	d.2.1.6	36991
2gj8A	172	35.94	c.37.1.8	135270
1yrlA	491	37.04		
2cxxA	190	40.29	c.37.1.8	131013
1xkqA	280	40.85	c.2.1.2	115417
1y8xB	98	42.88		
1sviA	195	42.93	c.37.1.8	106048
3b9qA	302	43.07		
1z2mA	155	43.12	d.15.1.1,d.15.1.1	124387,124388
2qu8A	228	43.32		
1o6yA	299	47.39	d.144.1.7	81106
2e5vA	472	49.56		
1esmA	316	50.35	c.37.1.6	31953
2yqzA	263	50.72		
1tq4A	413	51.81	c.37.1.8	107201
1mdoA	393	52.44	c.67.1.4	79013
1udxA	416	52.79	b.117.1.1,c.37.1.8,d.242.1.1	99228,99229,99230
2dejA	350	61.18		
1ni3A	392	62.84	c.37.1.8,d.15.10.2	80531,80532
1mq4A	272	69.26	d.144.1.7	91391
1qamA	244	70.11	c.66.1.24	34220
2qm8A	337	70.86		
2h1rA	299	72.90		
1tq6A	413	77.02	c.37.1.8	107202
2b8wA	328	77.98		
2bb3A	221	78.68	c.90.1.1	128257
1xhlA	297	80.22	c.2.1.2	109591
1aru	344	80.29		
1d4fA	431	84.42	c.2.1.4,c.23.12.3	30110,31370
1wc2A	181	88.56		
2fa1A	160	88.56	d.190.1.2	133182
2nwrA	267	89.43