# List of top-scoring protein chains for t2k-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
3cdxA	354	0.8798		
1ghj	79	0.997		
1qjoA	80	1.496	b.84.1.1	28229
1gjxA	81	1.523	b.84.1.1	65222
1pfzA	380	2.198	b.50.1.2	26881
1k8mA	93	2.252	b.84.1.1	68314
2qj8A	332	2.377		
1y8oB	128	2.426	b.84.1.1	122759
1bdoA	80	2.967	b.84.1.1	28214
2evbA	74	5.250		
1htp	131	6.093		
3crkC	87	6.147		
1qddA	144	8.920	d.169.1.1	42324
2hrvA	142	11.40	b.47.1.4	26429
1bdo	80	14.65		
2j58A	359	16.05		
1g1tA	157	23.68	d.169.1.1,g.3.11.1	65104,65105
2vhfA	374	27.18		
1f0xA	571	28.92	d.58.32.2,d.145.1.1	39483,41746
1t5oA	351	29.54	c.124.1.5	106459
1hpcA	131	31.21	b.84.1.1	28221
1oihA	301	35.35	b.82.2.5	93051
1jmxB	349	39.80	b.69.2.2	66906
2gjlA	328	40.45		
1zkoA	136	41.67		
1uv0A	149	46.36	d.169.1.1	100028
1rvkA	382	46.64	c.1.11.2,d.54.1.1	97928,97929
2biwA	490	49.72		
1dt9A	437	50.15	c.55.4.2,d.79.3.2,d.91.1.1	33738,39815,40257
1dyoA	160	52.80	b.18.1.7	23771
1qi7A	253	54.34	d.165.1.1	42210
1vpdA	299	54.90	a.100.1.1,c.2.1.6	113951,113952
1qa7A	217	55.81	b.47.1.4	26425
1t5eA	360	57.73	f.46.1.1	106436
1tdzA	272	60.53	a.156.1.2,b.113.1.1,g.39.1.8	106787,106788,106789
2r6uA	148	65.21		
3boeA	210	72.27		
2phnA	254	75.67	d.340.1.1	139696
2axwA	134	77.48		
1jer	138	77.78		
1vqoA	240	78.80	b.34.5.3,b.40.4.5	120361,120362
1llnA	262	78.93	d.165.1.1	84625
1h6yA	170	80.53	b.18.1.7	70904
2d1uA	104	81.93		
1oz7A	131	82.19	d.169.1.1	93806
1amy	403	84.03		
1g8pA	350	84.95	c.37.1.20	60376
2e3hA	90	85.17		
2yueA	168	85.42