POPREP

Population Structure and Pedigree

Analysis

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Introduction

POPREP is a web application (http://poprep.tzv.fal.de)

operating on the principle of uploading data.

The software is available under the General Public

License (Free Software Foundation, Inc (1991)).

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Methodology

Convert the pedigree file into input file format ASCII

(American Standard Code for Information Interchange)

Open user interface which require six inputs

i. Email address to which the results will be sent

ii. Name of the breed

iii. Codes used for males and females

iv. Date format

v. Date separator

vi. Upload of the pedigree file to the website

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Methodology…

Browse and upload the pedigree file

Data requirements

i. Animal ID (not null)

ii. Sire ID (may be null)

iii. Dam ID (may be null)

iv. Date of birth of animal (may be null)

v. Sex of the animal (not null)

The five columns are delimited by pipe sign

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Results-Population structure

Number of breeding males and females by year

Age structure of the parents by birth year of offspring

Distribution of parity of dams at birth of offspring

Generation interval

Family size

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Number of breeding bulls registered in the herd book

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Number of cows registered in the herd book

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Number of breeding males and females by year

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Age of parents used for breeding over the studied period

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Generation interval of the Sahiwal breed in Kenya

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Number of progenies per dam

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Number of progenies per sire

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Results-Pedigree analysis

Pedigree completeness per year

Inbreeding

Effective population size

Average and rate of additive relationships

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Pedigree completeness index

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Parameter ValueAverage pedigree completeness index (%) for:1st generation2nd generation3rd generation4th generation5th generation6th generation

75.773.869.964.758.351.4

Longest ancestral path traced 16Maximum generation equivalents

6.41

Average generation equivalents 2.46

Trend of the total number of registered and inbred

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Average inbreeding of the registered and inbred animals

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Average inbreeding level of sires and dams

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Distribution of inbred animals by inbreeding classes

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The trend of Ne

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