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Table 1 Species, ploidy levels, clean reads, uniquely mapped reads, uniquely mapped reads in genic regions and estimated depth per allele of the 14 accessions

From: Mining sequence variations in representative polyploid sugarcane germplasm accessions

Clone name

Species

Ploidy level

Reads in million

Estimated number of reads per allele dose

Clean reads

Uniquely mapped reads (% of clean reads)

Uniquely mapped reads in genic regions (% of uniquely mapped)

IND81–14

S. spontaneous

6x

4.5

1.4 (33.1)

1.2 (85.7)

7.0

US57–060

E. rufipilu

6x

3.9

1.3 (33.3)

1.0 (76.9)

5.8

US61–037

Unknown

6x

3.6

1.2 (33.3)

1.0 (83.3)

5.8

Kalimpon

E. procerum

6x

4.0

1.2 (30.0)

1.0 (83.3)

5.8

SES196

S. spontaneum

8x

4.0

1.3 (32.5)

1.1 (84.6)

4.8

TekchaOk

S. sinense

8x

4.1

1.3 (31.7)

1.1 (84.6)

4.8

NG57–054

S. robustum

8x

6.2

2.1 (33.9)

1.8 (85.7)

7.9

P-MAG-84

S. officinarum

8x

4.2

1.4 (33.3)

1.2 (85.7)

5.3

Pathri

S. barberi

8x

6.0

1.9 (31.7)

1.6 (84.2)

7.0

NG96–024

S. officinarum

8x

4.2

1.4 (33.3)

1.2 (85.7)

5.3

Q050

Saccharum hybrid

12x

4.3

1.4 (35.8)

1.0 (83.3)

2.9

R570

Saccharum hybrid

12x

5.0

1.6 (32.0)

1.4 (87.5)

4.1

CP95–1039

Saccharum hybrid

12x

11.3

3.7 (32.7)

3.2 (86.4)

9.3

CP88–1762

Saccharum hybrid

12x

13.0

4.3 (33.1)

3.7 (86.0)

10.8

Average

  

5.6

1.8 (32.4)

1.5 (83.3)

6.2