Table 3 Selected Y-linked fragments with Ri-norm < 0.3, PCR results are shown in Fig. 3.

From: Computational identification of Y-linked markers and genes in the grass carp genome by using a pool-and-sequence method

Fragment name

Length

Fi-read

Mi-reads

Ri-norm

PCR (full-sib)

PCR (wild)

Sca971_3_662

662

0

34

0

Y

Y

Sca713_52_382

382

1

45

0.022

Y

N

Sca28791_1_303

303

2

47

0.043

Y

N

Sca811_22_1407

1407

2

58

0.034

Y

N

Sca704_77_319

319

0

11

0

Y

N

  1. Note: Fi-reads is the number of female-pool aligned reads against Fragmenti in male-gc-assembly, Mi-reads is the number of male-pool aligned reads against Fragmenti in male-gc-assembly. Thus, Ri denotes the ratio that divides the Fi-reads by the Mi-reads, Ri-norm is the normalization of Ri value, and can fairly describe the difference in the ratio of alignment reads against the reference genome between the female-pool and the male-pool. In the seventh and eighth columns, Y represents the corresponding sequence that was only amplified successfully in male individuals, and N represents the corresponding sequence that was amplified in both male and female individuals.
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