 |
GPI Lipid Anchor Project |
 |
The jack-knife-test II over the largest subset of non-homologous sequences only: Protozoa
Contact:
Birgit Eisenhaber (IMP/Austria)
Peer Bork (MDC/EMBL)
Frank Eisenhaber (IMP/Austria)
Prediction Results
How to read the prediction results
#
# ------------------------------------------------------------------- #
#
# package *-> proto <-*
# *********************
#
# name of executable : proto
# time of program compilation : Jul 16 1999 (13:14:40)
# time of program execution : Fri Jul 16 13:16:33 1999
# version of the code : Revision: 1.15 (Date: 1999/01/28 15:56:41)
#
ReadAapLib: AAProperty library opened
Number of entrys in AapLib: <641>
-->All selects were switched on.
Selection parameters:
---------------------
0: PToken: OC
SToken:
RExp: PROTOZOA
is_SToken: 0
expect: 1
-->OpenSWFile: Data file <./gpi.learn.sav> opened
-->begin GPI-site evaluations
-->ReadGPILib: GPI library opened
INFO> ReadGPILib: VARSPLIC line in entry <UPAR_RAT> .!!
INFO> ReadGPILib: VARSPLIC line in entry <ACES_TORCA> .!!
INFO> ReadGPILib: VARSPLIC line in entry <ACES_TORMA> .!!
INFO> ReadGPILib: VARSPLIC line in entry <CEPU_CHICK> .!!
INFO> ReadGPILib: VARSPLIC line in entry <DAF_HUMAN> .!!
INFO> ReadGPILib: VARSPLIC line in entry <NRTR_HUMAN> .!!
INFO> ReadGPILib: VARSPLIC line in entry <NRTR_MOUSE> .!!
INFO> ReadGPILib: VARSPLIC line in entry <OPCM_RAT> .!!
number of entries of file 1 : 169
number of accepted entries of file 1 : 169
total number of entries : 169
-->Statistic_confidence of GPILib 1 :
number of accepted entries : 169
number of entries with certain GPI-site : 40
number of entries with potential GPI-site : 65
number of entries with GPI-site by similarity : 64
-->GPIStatistic_Length: GPILibNumber = 1
Lmin : 14 ( entry: PAG1_TRYBB, file: 1 )
Lmax : 31 ( entry: THY1_MACMU, file: 1 )
deltaL : 5
number of intervals : 4
interval of length from to number of entries
1 14 19 21
2 20 24 84
3 25 29 53
4 30 34 11
total number of entries : 169
-->Statistic_taxonomy of GPILib 1 / total number of entries 169
1 VIRUSES
168 EUKARYOTA
120 ..METAZOA
5 ....INSECTA
113 ....VERTEBRATA
3 ......PISCES
5 ......AVES
105 ......MAMMALIA
55 ........PRIMATES
10 ..FUNGI
38 ..PROTOZOA
--> Jack-Knife-Test for largest subset is running!!
-->Calc_EVD_Param: file of values opened
LinearCorrelation of 1061 data points [x,y]
r=-0.975986 (P=0.000000)
LinearFit: from 1061 datapoints [x,y] for y=a+bx (1059 degrees of freedom)
without weights (RMSD) for y (uniform sigma is estimated)
x mean=-75.462328 (stan.dev.=24.061508)
y mean=-0.574634 (stan.dev.=1.269734)
interception a=-4.461182 (siga=0.027977)
slope b=-0.051503 (sigb=0.000353)
correlation R(siga,sigb)=0.952782
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ > statistical validation
1) total chi2=81.090823, P=1.000000e+00 B=-ln(P)/df= 0.000
(used for weight estimation !)
2) t-Test for interception a=0: t=-159.459749 P=0.000000e+00
[-4.553500,-4.368863] for alpha=0.001 (TWO_SIDED, Tna=3.299805)
[-4.533376,-4.388987] for alpha=0.010 (TWO_SIDED, Tna=2.580505)
[-4.516078,-4.406285] for alpha=0.050 (TWO_SIDED, Tna=1.962204)
3) t-Test for slope b=0: t=-145.804769 P=0.000000e+00
[-0.052669,-0.050338] for alpha=0.001 (TWO_SIDED, Tna=3.299805)
[-0.052415,-0.050592] for alpha=0.010 (TWO_SIDED, Tna=2.580505)
[-0.052196,-0.050810] for alpha=0.050 (TWO_SIDED, Tna=1.962204)
4) Fisher's test (average of function value versus regression)
F=21259.030543 (df1=1, df2=1059) P=0.000000e+00
u: -86.619580 lambda: 0.051503
Thresholds for GPI-anchor selecting:
A-site: p = 0.0025 score = 29.69
B-site: p = 0.0050 score = 16.21
C-site: p = 0.0075 score = 8.31
D-site: p = 0.0100 score = 2.70
S-site: p = 0.0175 score = -8.24
| 24.14 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 24.14
|
ID: GP63_LEIMA AC: P08148 Len: 602 1:B 577 Sc: 24.14 Pv: 3.325570e-03
| 29.52 | -0.25 | -0.38 | -0.29 | 0.00 | 0.00 | 0.00 | -1.49 | -0.59 | -0.08 | -0.10 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 26.34
|
ID: VSG7_TRYBR AC: P02898 Len: 467 1:B 444 Sc: 26.34 Pv: 2.970484e-03
| 21.63 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | -0.05 | -0.45 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 21.14
|
ID: G13A_DICDI AC: P34115 Len: 730 1:B 708 Sc: 21.14 Pv: 3.880739e-03
| 14.08 | -1.43 | -2.34 | -3.74 | 0.00 | 0.00 | 0.00 | -2.51 | 0.00 | 0.00 | -0.15 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 3.91
|
ID: GP85_TRYCR AC: Q03877 Len: 714 1:D 691 Sc: 3.91 Pv: 9.399976e-03
| 18.07 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | -0.67 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 17.40
|
ID: MSA1_SARMU AC: Q01416 Len: 280 1:B 256 Sc: 17.40 Pv: 4.703500e-03
| 17.59 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | -1.22 | 0.00 | -0.52 | -0.16 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 15.69
|
ID: PARB_TRYBB AC: P09791 Len: 129 1:C 107 Sc: 15.69 Pv: 5.133386e-03
| 23.76 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | -0.13 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 23.63
|
ID: PONA_DICDI AC: P54660 Len: 143 1:B 118 Sc: 23.63 Pv: 3.413372e-03
| 16.51 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | -0.47 | 0.00 | -0.24 | -1.58 | -12.00 | 0.00 | 0.00 | 0.00 | 0.00 | 2.22
|
ID: PSA_DICDI AC: P12729 Len: 168 1:I 147 Sc: 2.22 Pv: 1.025039e-02
| 23.46 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | -0.03 | -0.49 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 22.94
|
ID: VSG2_TRYEQ AC: P20950 Len: 457 1:B 440 Sc: 22.94 Pv: 3.537403e-03
| 17.32 | -0.13 | -0.24 | -0.52 | 0.00 | 0.00 | 0.00 | -7.59 | -0.12 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 8.71
|
ID: VSI1_TRYBB AC: P26326 Len: 471 1:C 454 Sc: 8.71 Pv: 7.347121e-03
| 21.28 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 21.28
|
ID: VSI2_TRYBB AC: P26327 Len: 479 1:B 462 Sc: 21.28 Pv: 3.852163e-03
| 23.88 | -0.88 | -1.37 | -0.52 | 0.00 | 0.00 | 0.00 | 0.00 | -0.76 | -0.21 | -0.34 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 19.80
|
ID: VSI3_TRYBB AC: P26328 Len: 532 1:B 509 Sc: 19.80 Pv: 4.155906e-03
| 33.90 | -0.64 | -0.88 | -0.83 | 0.00 | 0.00 | 0.00 | -0.02 | -1.06 | -0.08 | -0.10 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 30.28
|
ID: VSI6_TRYBB AC: P06014 Len: 503 1:A 480 Sc: 30.28 Pv: 2.425395e-03
| 24.98 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | -0.98 | -0.56 | -0.73 | -12.00 | 0.00 | 0.00 | 0.00 | 0.00 | 10.71
|
ID: VSM0_TRYBB AC: P07209 Len: 72 1:C 50 Sc: 10.71 Pv: 6.630512e-03
| 21.71 | 0.00 | 0.00 | -0.02 | 0.00 | 0.00 | 0.00 | 0.00 | -0.13 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 21.55
|
ID: VSM2_TRYBB AC: P26332 Len: 476 1:B 459 Sc: 21.55 Pv: 3.798682e-03
| 31.92 | -0.64 | -0.88 | -0.83 | 0.00 | 0.00 | 0.00 | -1.57 | -0.50 | -0.03 | -0.01 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 27.45
|
ID: VSM4_TRYBB AC: P02896 Len: 526 1:B 503 Sc: 27.45 Pv: 2.804483e-03
| 29.23 | -0.71 | -0.93 | -0.72 | 0.00 | 0.00 | 0.00 | 0.00 | -0.19 | -0.85 | -0.50 | -12.00 | 0.00 | 0.00 | -12.00 | 0.00 | 1.32
|
ID: VSM5_TRYBB AC: P26333 Len: 474 1:I 451 Sc: 1.32 Pv: 1.073353e-02
| 19.30 | 0.00 | 0.00 | -0.02 | 0.00 | 0.00 | 0.00 | 0.00 | -0.13 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 19.14
|
ID: VSWB_TRYBR AC: P20947 Len: 487 1:B 470 Sc: 19.14 Pv: 4.299438e-03
| 18.03 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | -0.26 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 17.76
|
ID: VSY1_TRYCO AC: P20948 Len: 419 1:B 400 Sc: 17.76 Pv: 4.615047e-03
-->end of list of found GPI-sites
number of found GPI-sites 17
-->ReadSWEntry: End of File
number of complete entries : 38
number of too short entries : 0
number of failed entries : 0
number of unselected entries : 131
number of entries belong to the largest subset: 19
number of entries not belong to the largest subset: 19
-->CloseSWFile: Data file closed
#
#
# Normal termination of program proto.
# total program time: CPU 0:00:31.83 sec, elapsed time 0:00:41.00 sec
#
Last modified: 12th June 2002