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Table 2 Different allele types that can be determined with GTM relative to the number of parents with genotype information

From: GenoTypeMapper: graphical genotyping on genetic and sequence-based maps

Parenta

IOIb

CASEc

CASE-description

P1

P2

P3

P4

A

–

–

–

A

1_1

IOI—allele was derived from parent P1

T

–

–

–

A

1_2

IOI—allele was derived from parent P2

N

–

–

f

N

1_3

Analysis failed because of failed genotypic data

N

–

–

–

H

1_4

Allele in IOI is heterozygous

H

–

–

–

N

1_5

Allele in parent P1 is heterozygous

N

H

–

–

N

2_6

Allele in parent P2 is heterozygous

T

T

A

–

A

3_7

IOI—allele was derived from parent P3

N

N

H

–

N

3_8

Allele in recurrent parent P3 is heterozygous

A

T

T

–

T

3_9

IOI—allele was derived from parent P2 or P3

T

A

T

–

T

3_10

IOI—allele was derived from parent P1 or P3

N

N

N

H

N

4_11

Allele in parent P4 is heterozygous

  1. aN = (A, G, T, C), whereas H = (M, R, K, W, S, Y, K) nucleotide ambiguity code.
  2. bIOI = individual of interest.
  3. cCases are coded with two numbers and separated by a baseline (x_y), that represents the number of analysed parents (x) and case_types (y). Each case_type is mentioned only once, but case types determined with fewer parents can also be detected with more parents. For more detailed information see the text and Fig. 1.