IMP GPI Lipid Anchor Project IMP-Bioinformatics

The jack-knife-test I over the whole learning set: 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  : Apr 15 1999 (15:10:29)
# time of program execution    : Thu Apr 15 15:14:01 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 VIRIDAE
   168 EUKARYOTA
   120 ..METAZOA
     5 ....INSECTA
   113 ....VERTEBRATA
     3 ......PISCES
     5 ......AVES
   105 ......MAMMALIA
    55 ........PRIMATES
    10 ..FUNGI
    38 ..PROTOZOA

--> Jack-Knife-Test 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
17.68 0.00 0.00 0.00 0.00 0.00 0.00 -0.95 0.00 -0.01 -0.16 0.00 0.00 0.00 0.00 0.00 16.56
ID:
G13B_DICDI AC: P34116 Len: 734 1:B 712 Sc: 16.56 Pv: 4.910192e-03
22.19 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 22.19
ID: GP63_LEIMA AC: P08148 Len: 602 1:B 577 Sc: 22.19 Pv: 3.676186e-03
19.43 -0.23 -0.31 -0.23 0.00 0.00 0.00 -1.56 -0.54 -0.07 -0.11 0.00 0.00 0.00 0.00 0.00 16.38
ID: VSG7_TRYBR AC: P02898 Len: 467 1:B 444 Sc: 16.38 Pv: 4.956160e-03
12.41 0.00 0.00 -0.01 0.00 0.00 0.00 -0.66 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 11.74
ID: CSA_DICDI AC: P08796 Len: 514 1:C 492 Sc: 11.74 Pv: 6.287905e-03
18.01 -0.53 -0.26 -0.16 0.00 0.00 0.00 0.00 0.00 -0.58 -0.42 0.00 0.00 0.00 0.00 0.00 16.05
ID: G13A_DICDI AC: P34115 Len: 730 1:C 704 Sc: 16.05 Pv: 5.039094e-03
23.59 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 23.59
ID: GP63_LEICH AC: P15706 Len: 599 1:B 574 Sc: 23.59 Pv: 3.420513e-03
23.59 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 23.59
ID: GP63_LEIDO AC: P23223 Len: 590 1:B 565 Sc: 23.59 Pv: 3.420513e-03
-10.58 -1.40 -2.11 -3.68 0.00 0.00 0.00 -2.57 0.00 0.00 -0.16 0.00 -12.00 0.00 0.00 0.00 -32.50
ID: GP85_TRYCR AC: Q03877 Len: 714 1:I 691 Sc: -32.50 Pv: 5.971670e-02
-11.85 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 -0.63 0.00 0.00 -12.00 0.00 0.00 0.00 -24.48
ID: MSA1_SARMU AC: Q01416 Len: 280 1:N 256 Sc: -24.48 Pv: 3.992833e-02
-13.30 -0.30 0.00 0.00 -4.00 0.00 0.00 0.00 -0.02 0.00 0.00 0.00 0.00 0.00 0.00 0.00 -17.62
ID: PAG1_TRYBB AC: Q01889 Len: 405 1:N 388 Sc: -17.62 Pv: 2.820615e-02
18.72 0.00 0.00 0.00 0.00 0.00 0.00 -1.18 0.00 -0.56 -0.27 0.00 0.00 0.00 -12.00 0.00 4.72
ID: PARA_TRYBB AC: P18764 Len: 114 1:D 92 Sc: 4.72 Pv: 9.014354e-03
13.21 0.00 0.00 0.00 0.00 0.00 0.00 -1.18 0.00 -0.42 -0.15 0.00 0.00 0.00 0.00 0.00 11.45
ID: PARB_TRYBB AC: P09791 Len: 129 1:C 107 Sc: 11.45 Pv: 6.382387e-03
19.89 0.00 0.00 0.00 0.00 0.00 0.00 -1.18 0.00 -0.52 -0.27 0.00 0.00 0.00 -12.00 0.00 5.93
ID: PARC_TRYBB AC: Q06084 Len: 145 1:D 123 Sc: 5.93 Pv: 8.473868e-03
9.89 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 9.88
ID: PONA_DICDI AC: P54660 Len: 143 1:C 117 Sc: 9.88 Pv: 6.917442e-03
9.55 0.00 0.00 0.00 0.00 0.00 0.00 -5.92 0.00 -0.06 -1.68 -12.00 -12.00 0.00 0.00 0.00 -22.10
ID: PSA_DICDI AC: P12729 Len: 168 1:I 148 Sc: -22.10 Pv: 3.540888e-02
30.96 -0.57 -0.83 -0.72 0.00 0.00 0.00 -4.21 -0.31 0.00 0.00 0.00 0.00 0.00 0.00 0.00 24.31
ID: VSA1_TRYBB AC: P06015 Len: 503 1:B 480 Sc: 24.31 Pv: 3.296017e-03
33.74 -0.57 -0.83 -0.72 0.00 0.00 0.00 -0.85 -0.34 -0.08 -0.09 0.00 0.00 0.00 0.00 0.00 30.25
ID: VSA8_TRYBB AC: P06017 Len: 115 1:A 92 Sc: 30.25 Pv: 2.428588e-03
29.49 -0.57 -0.83 -0.72 0.00 0.00 0.00 -1.41 -0.45 -0.05 -0.32 0.00 0.00 0.00 0.00 0.00 25.14
ID: VSAC_TRYBB AC: P06016 Len: 482 1:B 459 Sc: 25.14 Pv: 3.159501e-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: VSE2_TRYBR AC: P26335 Len: 55 1:B 38 Sc: 21.28 Pv: 3.852495e-03
22.65 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 22.13
ID: VSG2_TRYEQ AC: P20950 Len: 457 1:B 440 Sc: 22.13 Pv: 3.686992e-03
21.21 -0.55 -0.71 -0.66 0.00 0.00 0.00 -0.92 -0.32 -2.40 -5.40 -12.00 0.00 0.00 -12.00 0.00 -13.75
ID: VSG4_TRYBR AC: P02897 Len: 476 1:I 457 Sc: -13.75 Pv: 2.317073e-02
9.01 -0.49 0.00 0.00 0.00 0.00 -4.00 -0.34 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.17
ID: VSI1_TRYBB AC: P26326 Len: 471 1:D 455 Sc: 4.17 Pv: 9.271417e-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: 3.852637e-03
24.51 -0.84 -1.19 -0.46 0.00 0.00 0.00 0.00 -0.70 -0.18 -0.35 0.00 0.00 0.00 0.00 0.00 20.80
ID: VSI3_TRYBB AC: P26328 Len: 532 1:B 509 Sc: 20.80 Pv: 3.947568e-03
33.16 -0.55 -0.71 -0.66 0.00 0.00 0.00 -0.28 -0.07 -0.07 -0.01 0.00 0.00 0.00 0.00 0.00 30.80
ID: VSI4_TRYBB AC: P26329 Len: 514 1:A 491 Sc: 30.80 Pv: 2.360443e-03
32.08 -0.55 -0.71 -0.66 0.00 0.00 0.00 -0.28 -0.07 -0.07 -0.01 0.00 0.00 0.00 0.00 0.00 29.73
ID: VSI5_TRYBB AC: P26330 Len: 507 1:A 484 Sc: 29.73 Pv: 2.495234e-03
32.67 -0.66 -0.86 -0.83 0.00 0.00 0.00 -0.02 -1.06 -0.08 -0.09 0.00 0.00 0.00 0.00 0.00 29.06
ID: VSI6_TRYBB AC: P06014 Len: 503 1:B 480 Sc: 29.06 Pv: 2.581568e-03
19.84 0.00 0.00 0.00 0.00 0.00 0.00 -1.07 -0.30 0.00 0.00 0.00 0.00 0.00 0.00 0.00 18.47
ID: VSIB_TRYBB AC: P07208 Len: 471 1:B 454 Sc: 18.47 Pv: 4.451119e-03
8.26 0.00 0.00 0.00 0.00 0.00 0.00 0.00 -0.88 -0.51 -0.75 -12.00 0.00 0.00 0.00 0.00 -5.88
ID: VSM0_TRYBB AC: P07209 Len: 72 1:I 50 Sc: -5.88 Pv: 1.551222e-02
19.75 0.00 0.00 0.00 0.00 0.00 0.00 -0.93 -0.59 0.00 0.00 0.00 0.00 0.00 0.00 0.00 18.24
ID: VSM1_TRYBB AC: P26331 Len: 492 1:B 475 Sc: 18.24 Pv: 4.503907e-03
17.20 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 17.05
ID: VSM2_TRYBB AC: P26332 Len: 476 1:B 459 Sc: 17.05 Pv: 4.787682e-03
31.20 -0.66 -0.86 -0.83 0.00 0.00 0.00 -1.35 -0.55 -0.03 -0.01 0.00 0.00 0.00 0.00 0.00 26.90
ID: VSM4_TRYBB AC: P02896 Len: 526 1:B 503 Sc: 26.90 Pv: 2.884998e-03
24.05 -0.68 -0.82 -0.64 0.00 0.00 0.00 0.00 -0.19 -0.78 -0.52 -12.00 0.00 0.00 -12.00 0.00 -3.57
ID: VSM5_TRYBB AC: P26333 Len: 474 1:I 451 Sc: -3.57 Pv: 1.378065e-02
24.13 -0.55 -0.71 -0.66 0.00 0.00 0.00 -2.94 -0.52 -0.07 -0.01 0.00 0.00 0.00 0.00 0.00 18.65
ID: VSM5_TRYBR AC: P21840 Len: 517 1:B 495 Sc: 18.65 Pv: 4.408716e-03
32.33 -0.55 -0.71 -0.66 0.00 0.00 0.00 -1.47 -0.42 -0.02 -0.01 0.00 0.00 0.00 0.00 0.00 28.48
ID: VSM6_TRYBB AC: P26334 Len: 529 1:B 506 Sc: 28.48 Pv: 2.660605e-03
20.08 0.00 0.00 -0.03 0.00 0.00 0.00 0.00 -0.13 0.00 0.00 0.00 0.00 0.00 0.00 0.00 19.93
ID: VSWA_TRYBR AC: P20946 Len: 471 1:B 454 Sc: 19.93 Pv: 4.129721e-03
13.46 0.00 0.00 0.00 0.00 0.00 0.00 -0.01 -0.14 0.00 0.00 0.00 0.00 0.00 0.00 0.00 13.31
ID: VSWB_TRYBR AC: P20947 Len: 487 1:C 470 Sc: 13.31 Pv: 5.801761e-03
2.75 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 -0.01 0.00 0.00 -12.00 0.00 0.00 0.00 -9.26
ID: VSY1_TRYCO AC: P20948 Len: 419 1:N 401 Sc: -9.26 Pv: 1.843099e-02
-->end of list of found GPI-sites

   number of found GPI-sites 30
-->ReadSWEntry: End of File
   number of complete entries : 38
   number of failed entries : 0
   number of unselected entries : 131
-->CloseSWFile: Data file closed

# 
# 
# Normal termination of program proto.
# total program time: CPU 0:00:55.15 sec, elapsed time 0:01:03.00 sec
# 


Last modified: 12th June 2002