Table 6

Comparison of Halobacterium coverage bias. Kolmogorov-Smirnov comparison of the distributions of reads per bin from an unamplified sample of Halobacterium species NRC-1 with an additional unamplified replicate library and libraries amplified with GenomiPhi, Repli-G, PEP and DOP. Bin Size refers to the number of bases comprising each individual bin into which the genome was broken for analysis; 100,000 reads were used for each analysis. Ranked bias was derived from ranked D statistics, lowest to highest.

Unamplified Control versus:

Unamplified Replicate

GenomiPhi

RepliG

PEP

DOP


Bin Size (bp)

10

Number of Bins

257102

Number of Reads

100000

D Statistic

0.001

0.081

0.099

0.108

0.213

P value

1.000

0.000

0.000

0.000

0.000

Ranked Bias (5 is lowest)

5

4

3

2

1

Bin Size (bp)

100

Number of Bins

25711

Number of Reads

100000

D Statistic

0.003

0.357

0.492

0.495

0.756

P value

0.980

0.000

0.000

0.000

0.000

Ranked Bias (5 is lowest)

5

4

3

2

1

Bin Size (bp)

2571

Number of Bins

1001

Number of Reads

100000

D Statistic

0.028

0.648

0.717

0.736

0.837

P value

0.791

0.000

0.000

0.000

0.000

Ranked Bias (5 is lowest)

5

4

3

2

1

Bin Size (bp)

25711

Number of Bins

100

Number of Reads

100000

D Statistic

0.095

0.630

0.650

0.660

0.720

P value

0.737

0.000

0.000

0.000

0.000

Ranked Bias (5 is lowest)

5

4

3

2

1


Pinard et al. BMC Genomics 2006 7:216   doi:10.1186/1471-2164-7-216

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