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Spots were defined by use of the automatic grid feature of the software and manually adjusted where necessary.
All of the mtCOI sequences were aligned in Geneious [ 34] with the MUSCLE [ 35] alignment option set to 50 iterations, then visually inspected and manually adjusted where necessary.
The coding sequences of 31 Mal d 1 genes from the genome sequence of 'Golden Delicious' [ 6] were aligned using the Lasergene v8.0, MegAlign package (DNASTAR, Madison, WI, USA) and manually adjusted where necessary.
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Proper allele detection was checked manually and adjusted where necessary.
Allele detection was checked manually and adjusted where necessary.
The endocardial contour was semi-automatically traced and manually adjusted when needed.
Aligned sequences were inspected and manually adjusted when necessary.
The clustering of genotypic classes was manually adjusted when necessary.
Sequences were aligned using ClustalX and manually adjusted when necessary.
Alignments were subsequently manually adjusted and annotated in BioEdit 7.0.9 where necessary.
Volumes were manually adjusted using a single channel pipet (Gilson) where required and all observations were recorded.
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