Skip to main content

Table 5 Characteristics and probable genesis of the most abundant SSR-couples in the cds

From: Survey of microsatellite clustering in eight fully sequenced species sheds light on the origin of compound microsatellites

 

H. sapiens

 

M. mulatta

motif

obs.1

or.2

%plus3

gen.4

motif

obs.1

or.2

%plus3

gen.4

AGC-CCG

20

74

20

s

AAC-AGC

12

2 244

100

s

AAC-AGC

18

1 913

100

s

AGC-CCG

8

61

25

s

AAG-AGG

10

133

100

s

AAG-AGG

7

160

100

s

AGG-CCG

9

38

22

s

AAAG-AAGG

5

> 104

100

s

AAG-ATC

6

428

0

s

ACC-CCG

4

134

100

-

ACC-CCG

5

73

80

s

AGC-AGCTCC

3

367

100

-

AGCCTG-AGGCCC

4

> 104

0

-

AGG-AAGAGG

3

508

100

-

AGC-AGCCTG

4

2 381

0

-

A-AAG

3

122

100

-

AGC-AGG

4

12

100

-

AGC-AGG

3

15

100

-

ACG-AGG

3

419

100

-

AGG-CCG

2

19

0

-

 

M. musculus

 

R. norvegicus

AAG-AGG

13

210

100

s

AACC-ATCC

16

> 104

100

s

AAC-AGC

10

751

100

s

AT-AC

12

2 473

(100)

s

AC-AG

7

5 655

43

s

AAG-AGG

12

353

100

s

CCG-AGCCGG

6

2 937

100

s/?

AAAG-AAGG

9

> 104

100

s

AGC-AGGCCC

6

732

100

?

AG-AAAG

9

3520

100

s

ACC-CCG

5

121

100

s

AC-AG

7

481

86

s

AAAG-AAGG

5

> 104

100

s

CCG-AGCCGG

5

4 828

100

s/?

AGC-CCG

4

25

0

-

AGG-CCG

4

86

0

-

AGG-CCG

3

23

67

-

AG-AAGG

4

2 347

100

-

AAG-AAAAG

2

1 159

100

-

AG-ACAG

4

9 387

100

-

 

O. anatinus

 

G. gallus

AAC-AGC

2

4 265

100

-

AAAG-AAGG

5

> 104

100

s

AGC-AATG

2

262

100

-

ACG-AGC

4

1 260

100

-

ACG-AGG

2

319

100

-

A-AAAG

4

2 605

100

-

ACT-AGG

2

3 828

0

-

ACC-AGG

3

121

0

-

AC-AG

1

1 866

0

-

AAG-AGG

3

107

100

-

AATG-AAGG

1

3 445

100

-

AAGG-AGGG

2

> 104

100

-

AGC-ACACC

1

2 843

100

-

CCG-CCGCG

2

2 085

100

-

AG-AAAG

1

7 464

100

-

AGC-CCG

1

21

0

-

AAC-ACACC

1

> 104

100

-

ACCGC-AGCGG

1

> 104

0

-

ATC-ACG

1

1 464

0

-

AGC-AGG

1

12

100

-

 

D. rerio

 

D. melanogaster

AAC-AGC

12

788

100

s

AAC-AGC

36

62

100

s

AAT-AAAT

9

4 273

100

s

AGC-CCG

8

40

75

s

AACC-ATCC

6

> 104

100

s

ACC-AGC

7

19

100

s

AC-AC

6

41

(0)

r/?

AGC-AGG

5

13

80

s

ATCC-ACGG

6

> 104

0

s

AAT-AAC

4

315

100

-

ATC-ACG

4

5 622

0

-

AAC-ATC

4

140

100

-

AAG-ATC

4

113

0

-

ATC-AGC

4

24

100

-

ATC-AGG

4

58

0

-

ACG-AGG

3

240

100

-

AAT-ACT

3

9 081

100

-

AGC-AACAGC

3

31

100

-

ACC-AGC

3

126

0

-

AAC-ACC

3

47

100

-

  1. 1observed number of SSR-couples having the given motif
  2. 2overrepresentation
  3. 3percent of the SSR-couples found in the plus-conformation (see Text). Values in brackets indicate that only the specified conformation is feasible (e.g.: SSR-Couples containing self complementary microsatellites)
  4. 4suggested genesis of the SSR-couple: c: chance; r: recombination; s: slippage; ?: unknown