706 file format
Field Description |
Format |
Example |
Record type 1 |
integer 3 |
706 |
Breed of animal 4 |
character 3 |
BSW |
Country of first registration of animal 2 |
character 3 |
AUS |
Sex |
character 1 |
M |
ID number of animal 5 |
alphanumeric 12 |
000000A12345 |
Organization sending this information |
character |
ANAFI |
UUID 6 |
alphanumeric 36 |
assigned automatically by gxprep.py program |
Genotyping laboratory 7 |
character |
Weatherbys Ireland |
Sample ID |
alphanumeric |
S1234WI2001 |
Additional |
for future reference |
|
Array identifier 8 |
alphanumeric |
54609_a |
AB – Genotype for SNP Index 1 10 |
integer 1 |
0 |
AB – Genotype for SNP Index 2 10 |
integer 1 |
1 |
AB – Genotype for SNP Index … 10 |
integer 1 |
2 |
AB – Genotype for SNP Index n 9,10 |
integer 1 |
5 |
- Record type is always 706 for this File Format
- ISO 3166-1 alpha-3 codes (3 characters, capital letters)
- Breed of evaluation (3 characters, capital letters, BSW, GUE, HOL, JER, RDC, SIM)
- Breed of animal (3 characters, capital letters)
- Alpha-numerical, Interbull standard, always 12 characters long
UUID, one for every uploaded genotype sequence. Additional information about generation of UUID can be found at https://wiki.interbull.org/public/uuid?action=print
Genotyping laboratory, among the ones listed in the "Laboratories" table available in the GenoEX-GDE System Data page https://genoex.org/display. If the laboratory is not listed in the table, a request should be sent to GenoEx@slu.se
Array identifier, one of the listed in the "SNP Arrays" table ("Code" column) available in the !GenoEX-GDE System Data page https://genoex.org/display.
- n is equal to the number of SNPs reported in the stem of the Array identifier
coded SNP values written as a continuous string.
Acceptable values depend on the Illumina coded allele values, according to the following:
BB→0 AB→1 AA→2 ‘unknown’→5
706 example
706;BSW;ITA;M;000000A12345;ANARB;09c98b1e-6af8-4254-9768-58d7cd1ddafd;Weatherbys Ireland;S1234WI2001;;54609_a;021010…