# Perl-RDB 
# PROFsec
# 
# Copyright          : Burkhard Rost, CUBIC NYC / LION Heidelberg
# Email              : rost@columbia.edu
# WWW                : http://cubic.bioc.columbia.edu
# Version            : 2000.02
# 
# --------------------------------------------------------------------------------
# About your protein :
# 
# VALUE    PROT_ID   : unk
# VALUE    PROT_NRES : 80
# VALUE    PROT_NALI : 1
# VALUE    PROT_NFAR : 0
# 
# --------------------------------------------------------------------------------
# About the alignment:
# 
# VALUE    ALI_ORIG  : paho_chick
# 
# --------------------------------------------------------------------------------
# About PROF specifics:
# 
# VALUE    PROF_FPAR : sec=/nfs/home1/yachdav/work/SNAP/prof/net/PROFsec_tst.jct
# VALUE    PROF_NNET : sec=1
# 
# --------------------------------------------------------------------------------
# Notation used      :
# 
# NOTATION HEADER    : PROTEIN
# NOTATION PROT_ID   : identifier of protein [w]
# NOTATION PROT_NRES : number of residues [d]
# NOTATION PROT_NALI : number of proteins aligned in family [d]
# NOTATION PROT_NFAR : number of distant relatives [d]
# 
# NOTATION HEADER    : ALIGNMENT
# NOTATION HEADER    : ALIGNMENT: input file
# 
# NOTATION HEADER    : INTERNAL
# NOTATION PROF_FPAR : name of parameter file, used [w]
# NOTATION PROF_NNET : number of networks used for prediction [d]
# 
# 
# NOTATION BODY      : PROTEIN
# NOTATION NO        : counting residues [d]
# NOTATION AA        : amino acid one letter code [A-Z!a-z]
# NOTATION CHN       : protein chain [A-Z!a-z]
# 
# 
# NOTATION BODY      : PROFsec
# NOTATION PHEL      : PROF predicted secondary structure: H=helix, E=extended (sheet), blank=other (loop) PROF = PROF: Profile network prediction HeiDelberg
# NOTATION RI_S      : reliability index for PROFsec prediction (0=lo 9=high) Note: for the brief presentation strong predictions marked by '*'
# NOTATION pH        : 'probability' for assigning helix (1=high, 0=low)
# NOTATION pE        : 'probability' for assigning strand (1=high, 0=low)
# NOTATION pL        : 'probability' for assigning neither helix, nor strand (1=high, 0=low)
# NOTATION OtH       : actual neural network output from PROFsec for helix unit
# NOTATION OtE       : actual neural network output from PROFsec for strand unit
# NOTATION OtL       : actual neural network output from PROFsec for 'no-regular' unit
# 
# --------------------------------------------------------------------------------
# 
No	AA	PHEL	RI_S	pH	pE	pL	OtH	OtE	OtL
1	M	L	9	0	0	9	0	2	97
2	P	L	9	0	0	9	2	2	93
3	P	L	4	2	0	6	31	1	72
4	R	H	2	5	0	3	61	3	38
5	W	H	5	7	0	1	79	7	20
6	A	H	8	8	0	0	90	6	7
7	S	H	8	8	0	1	91	4	11
8	L	H	8	9	0	0	91	2	7
9	L	H	9	9	0	0	93	2	3
10	L	H	9	9	0	0	96	2	2
11	L	H	8	9	0	0	92	0	7
12	A	H	7	8	0	1	86	0	16
13	C	H	6	8	0	1	84	1	20
14	S	H	6	7	0	1	81	1	20
15	L	H	6	7	0	1	79	5	18
16	L	H	5	7	1	1	72	11	15
17	L	H	3	5	2	1	55	25	16
18	L	H	0	4	2	3	41	29	32
19	A	L	0	1	4	3	16	43	31
20	V	L	1	0	3	5	7	33	52
21	P	L	6	0	1	8	5	14	78
22	P	L	7	0	0	8	8	8	83
23	G	L	6	0	1	7	9	13	80
24	T	L	6	0	1	7	9	12	79
25	A	L	7	0	0	8	6	10	85
26	G	L	7	0	1	8	3	12	88
27	P	L	8	0	0	8	5	6	88
28	S	L	8	0	0	8	5	8	88
29	Q	L	6	0	1	8	6	14	83
30	P	L	7	0	1	8	4	11	89
31	T	L	7	0	1	8	6	11	84
32	Y	L	6	0	1	7	4	18	81
33	P	L	8	0	0	9	4	5	92
34	G	L	8	0	0	9	5	5	91
35	D	L	7	0	0	8	9	4	88
36	D	L	6	1	0	7	19	3	83
37	A	L	6	1	0	7	16	6	80
38	P	L	2	3	0	6	35	2	64
39	V	H	6	7	0	1	81	4	17
40	E	H	7	8	0	1	89	3	12
41	D	H	8	8	0	0	92	2	10
42	L	H	8	9	0	0	93	2	5
43	I	H	9	9	0	0	96	3	2
44	R	H	8	9	0	0	93	2	5
45	F	H	9	9	0	0	97	0	5
46	Y	H	8	9	0	0	95	1	8
47	N	H	8	9	0	0	93	0	7
48	D	H	8	8	0	1	97	0	13
49	L	H	8	8	0	1	93	1	11
50	Q	H	9	9	0	0	97	1	3
51	Q	H	8	9	0	0	94	3	6
52	Y	H	9	9	0	0	98	1	4
53	L	H	6	8	0	1	78	4	12
54	N	H	7	8	0	0	80	8	6
55	V	H	6	8	0	1	77	5	11
56	V	H	4	6	2	1	61	19	13
57	T	H	4	6	1	1	64	15	14
58	R	H	3	5	2	1	60	27	19
59	H	H	1	4	2	3	47	23	31
60	R	L	0	1	3	4	20	38	44
61	Y	L	0	1	3	4	15	42	51
62	G	L	3	0	3	6	7	32	66
63	R	L	2	0	3	5	8	35	63
64	R	L	2	1	3	5	12	36	59
65	S	L	3	1	2	6	16	25	63
66	S	L	4	1	1	6	20	16	68
67	S	L	4	2	1	6	21	16	66
68	R	L	0	2	3	4	22	38	47
69	V	E	0	1	4	3	20	47	38
70	L	E	2	2	4	2	29	51	27
71	C	L	0	0	4	4	9	45	52
72	E	L	0	1	4	4	11	51	46
73	E	L	4	1	2	6	11	21	66
74	P	L	3	2	1	6	25	13	61
75	M	L	4	2	0	6	26	10	69
76	G	L	5	1	0	7	17	10	75
77	A	L	4	2	0	6	30	6	71
78	A	L	6	1	1	7	15	10	75
79	G	L	6	1	1	7	11	12	79
80	C	L	9	0	0	9	1	2	96
