////////////////////////////////////////////////////////////////////
RUN NUMBER 1 (29/09/14 at 15:24:35)
////////////////////////////////////////////////////////////////////
Project information:
--------------------
NbSamples = 25
DataType = DNA
GenotypicData = 0
==============================
Settings used for Calculations
==============================
General settings:
-----------------
Deletion Weight = 1
Transition Weight Weight = 1
Tranversion Weight Weight = 1
Epsilon Value = 1e-07
Significant digits for output = 5
Use original haplotype definition
Alllowed level of missing data = 0.005
Active Tasks:
-------------
Analysis of Molecular Variance:
-------------------------------
No. of Permutations = 1000
Distance matrix:
Compute distance matrix
Molecular distance : Tamura
Gamma a value = 0.017
===============================================================================
== GENETIC STRUCTURE ANALYSIS
===============================================================================
Number of usable loci for distance computation : 48
Allowed level of missing data : 0.005
List of usable loci :
---------------------
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15
16 17 18 19 20 21 22 23 24 25 26 27 28 29 30
31 32 33 34 35 36 37 38 39 40 41 42 43 44 45
46 47 48
List of loci with too much missing data :
-----------------------------------------
NONE
=================================================================
AMOVA ANALYSIS
=================================================================
---------------------------
Genetic structure to test :
---------------------------
No. of Groups = 2
[[Structure]]
StructureName = "2 groups of populations"
NbGroups = 2
#Group1
Group={
"Sample 1"
}
#Group2
Group={
"Sample 2"
"Sample 3"
"Sample 4"
"Sample 5"
"Sample 6"
"Sample 7"
"Sample 8"
"Sample 9"
"Sample 10"
"Sample 11"
"Sample 12"
"Sample 13"
"Sample 14"
"Sample 15"
"Sample 16"
"Sample 17"
"Sample 18"
"Sample 19"
"Sample 20"
"Sample 21"
"Sample 22"
"Sample 23"
"Sample 24"
"Sample 25"
}
---------------------------
Distance method: Tamura
--------------------------
AMOVA design and results :
--------------------------
Weir, B.S. and Cockerham, C.C. 1984.
Excoffier, L., Smouse, P., and Quattro, J. 1992.
Weir, B. S., 1996.
----------------------------------------------------------------------
Source of Sum of Variance Percentage
variation d.f. squares components of variation
----------------------------------------------------------------------
Among
groups 1 39.900 1.72734 Va 22.02
Among
populations
within
groups 23 154.898 0.06847 Vb 0.87
Within
populations 225 1361.239 6.04995 Vc 77.11
----------------------------------------------------------------------
Total 249 1556.037 7.84576
----------------------------------------------------------------------
Fixation Indices
FSC : 0.01119
FST : 0.22889
FCT : 0.22016
----------------------------------------------------------------------
Significance tests (1023 permutations)
------------------
Vc and FST : P(rand. value < obs. value) = 0.09873
P(rand. value = obs. value) = 0.00000
P-value = 0.09873+-0.00819
Vb and FSC : P(rand. value > obs. value) = 0.30303
P(rand. value = obs. value) = 0.00000
P-value = 0.30303+-0.01608
Va and FCT : P(rand. value > obs. value) = 0.00000
P(rand. value = obs. value) = 0.04985
P-value = 0.04985+-0.00652
////////////////////////////////////////////////////////////////////
END OF RUN NUMBER 1 (29/09/14 at 15:24:36))
Total computing time for this run : 0h 0m 1s 154 ms
////////////////////////////////////////////////////////////////////