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Table 2 Summary of phase I FPC physical maps of 12 Oryza species

From: Construction, alignment and analysis of twelve framework physical maps that represent the ten genome types of the genus Oryza

Species

Average insert size

No. of total attempted

No. of clones FPCed

Genome coverage by all FPCed clones

Success ratio

Total organellar contam + no. inserts containing clones*

No. of FPC clones with paired BES reads

No. of singletons (%)

No. of contigs

Total CB units

Average no. of bands/clone

Deduced size of 1 CB unit† (kb)

Deduced genome size (Mb)‡ (coverage)

O. nivara

161

55,296

51,056

18

92%

4.1%

48,032 (94%)

2,356 (4.6%)

456

384,733

121.6

1.32

509 (114%)

O. rufipogon

134

35,712

33,023

10

92%

3.9%

31,202 (94%)

1,305 (4.0%)

637

406,768

106.2

1.26

513 (117%)

O. glaberrima

130

36,864

33,065

12

90%

3.7%

27,661 (84%)

2,098 (6.3%)

905

309,740

103.9

1.25

388 (109%)

O. punctata

142

36,864

34,224

11

93%

1.8%

30,228 (88%)

1,482 (4.3%)

490

340,240

117.4

1.21

412 (97%)

O. officinalis

141

54,144

45,856

10

85%

6.7%

40,549 (88%)

1,133 (2.5%)

703

462,126

115.5

1.22

564 (87%)

O. minuta

125

92,160

86,861

10

94%

1.2%

77,999 (90%)

9,576 (11.0%)

3,962

1,004,697

96.6

1.29

1,300 (116%)

O. alta

133

73,728

63,860

8

87%

0.4%

50,842 (80%)

3,111 (4.9%)

2,492

870,411

109.3

1.22

1,059 (105%)

O. australiensis

152

73,728

67,416

11

91%

2.7%

58,992 (88%)

3,144 (4.7%)

1,003

691,155

125.1

1.22

840 (87%)

O. brachyantha

131

36,864

33,424

12

91%

1.7%

29,523 (88%)

2,354 (7.0%)

422

215,208

100.9

1.30

279 (77%)

O. granulata

134

73,728

64,836

10

88%

3.4%

58,818 (91%)

3,032 (4.7%)

2,358

1,078,237

120.8

1.11

1,196 (136%)

O. ridleyi

127

110,592

104,393

10

94%

2.1%

93,192 (89%)

5,169 (5.0%)

2,190

1,216,461

111.2

1.14

1,389 (108%)

O. coarctata

123

100,224

92,522

15

92%

2.1%

82,180 (89%)

1,810 (2.0%)

1,250

611,953

100.0

1.23

753 (98%)

Total/Average

136

779,904

710,536

11

91%

2.8%

629,218 (89%)

5.1%

  

110.7

1.23

 
  1. *From [30]. †Deduced one CB unit size = average inset size/average number of bands. ‡Deduced genome size = †Deduced one CB unit size × Total CB units.