Skip to main content

Table 6 Comparative mapping of C. melo BES to other plant genomes

From: Genome-wide BAC-end sequencing of Cucumis melo using two BAC libraries

Plant genomes

No. of

masked

BES with

BLAST

matches1

No. of

masked

BES pairs

withM

BLAST

matches2, 3

On same

chromosome,

contig or scaffold3, 4

Within

50 - 500 kb3, 4

In the

correct

orientation3, 4

%5

Total %6

Species

Pseudo_

molecules7

Length

(Mb)8

   

No. of

mapping

Loci9

 

No. of

mapping

loci

   

A. thaliana

5

135

2,958 (6.3%)

135

(0.4%)

86

(63.7%)

111

(1.3)

15 (17%)

15

11

(73%)

8

0.05

V. vinifera

19

487

4,919 (10.4%)

334

(1.5%)

195

(58.4%)

350

(1.8)

86 (44%)

91

56

(65%)

17

0.26

G. max

20

975

4,446 (9.4%)

282

(1.3%)

171

(60.6%)

437

(2.6)

73 (43%)

120

57

(78%)

20

0.26

M. truncatula

8

241

3,214 (6.8%)

155

(0.7%)

102

(65.8)

210

(2.0)

30 (29%)

36

24

(80%)

15

0.11

P. trichocarpa

19

370

4,676 (9.9%)

315

(1.4%)

171

(54.3%)

276

(1.6)

95 (55%)

123

76

(80%)

24

0.35

C. sativus 10

117

149

30,818 (65.4%)

10,296 (47.6%)

6,475

(62.9%)

31,385

(4.8)

4,945 (76%)

17,456

4,138

(84%)

40

19.14

  1. 1Percentage relative to the total number of high-quality BES (47,140)
  2. 2Percentage relative to the total number of pairs of high-quality BES (43,224/2)
  3. 3Paired-BES mapping on several genome locations are counted once
  4. 4Percentage relative to the values in the previous column
  5. 5Percentage of paired BES with BLAST matches mapping on same chromosome/contig/scaffold within 50-500 kb in the correct orientation
  6. 6Percentage relative to the total number of paired-BES
  7. 7Number of pseudomolecules/scaffolds used for the analysis. In all cases except C. sativus, pseudomolecules correspond to chromosomes
  8. 8Total length of the genomic sequences used for the analysis
  9. 9In parenthesis, average number of mapping loci of pairs of BES mapping on same chromosome/contig/scaffold
  10. 10Scaffolds > 500 kb, representing 73.4% of the C. sativus genome assembly deposited n the Phytozome v5 database.