Table 1

Results on the CMfinder-SARSE dataset

RNA

#seq

MPI

RIBOSUM

RNAalifold

Pfold

KNetFold

McC_mea


Antizyme_FSE

13

87

1.000

1.000

1.000

1.000

1.000

ctRNA_pGA1

15

72

1.000

1.000

1.000

0.976

1.000

Entero_5_CRE

160

84

1.000

0.848

0.478

1.000

0.942

Entero_CRE

56

81

1.000

0.736

1.000

0.953

0.953

GcvB

17

64

0.939

0.799

0.889

0.939

0.921

glmS

11

60

0.986

0.972

0.972

0.809

0.837

HACA_sno_Snake

22

90

0.871

0.407

0.414

0.915

0.884

HCV_SLIV

110

89

1.000

0.922

1.000

1.000

0.961

HDV_ribozyme

15

95

0.953

-0.015

0.590

0.460

0.460

HepC_CRE

52

87

1.000

0.962

1.000

1.000

1.000

Histone3

64

78

1.000

1.000

1.000

1.000

1.000

Hsp90_CRE

4

98

0.855

0.855

0.413

0.867

0.874

IBV_D-RNA

10

96

1.000

0.928

0.928

1.000

1.000

Intron_gpII

114

54

1.000

0.779

1.000

1.000

1.000

IRE

39

63

1.000

0.938

1.000

1.000

0.938

let-7

14

73

1.000

0.979

1.000

1.000

0.957

lin-4

9

73

1.000

0.973

1.000

1.000

1.000

Lysine

43

49

0.990

0.918

0.960

0.990

0.990

mir-10

11

67

0.973

0.888

0.916

0.973

0.973

mir-194

4

79

0.870

0.849

1.000

0.866

0.698

mir-BART1

3

93

0.977

0.977

0.861

1.000

0.977

nos_TCE

3

90

0.975

0.975

0.951

1.000

0.975

Purine

22

56

0.945

0.917

1.000

0.945

0.945

Rhino_CRE

12

72

0.734

0.734

0.680

0.974

0.756

RNA-OUT

4

96

0.775

0.775

0.834

0.740

0.775

rncO

6

80

0.903

0.923

0.668

0.896

0.825

Rota_CRE

14

86

1.000

0.764

0.682

0.099

-0.011

s2m

38

79

0.739

1.000

0.774

0.652

0.861

SCARNA14

4

67

0.969

0.748

-0.005

0.532

0.777

SCARNA15

3

96

1.000

1.000

0.601

0.971

0.925

SECIS

63

43

0.941

0.813

0.943

0.971

0.813

SNORA14

3

92

0.944

0.944

0.853

0.959

0.869

SNORA18

6

79

0.913

0.503

0.702

0.971

0.893

SNORA38

5

84

0.759

0.743

0.858

0.410

0.734

SNORA40

7

80

0.962

0.962

0.704

0.948

0.920

SNORA56

4

97

0.816

0.922

0.446

0.779

0.741

SNORD105

2

89

1.000

1.000

-0.007

0.648

0.971

SNORD64

3

94

1.000

0.539

0.539

0.661

-0.014

SNORD86

6

82

0.641

-0.012

-0.007

0.511

0.000

snoU83B

4

87

0.927

0.927

0.846

0.895

0.927

TCV_H5

3

97

1.000

1.000

0.685

1.000

1.000

TCV_Pr

4

95

1.000

1.000

0.688

1.000

1.000

Tymo_tRNA-like

28

64

1.000

0.916

1.000

0.973

1.000

ykoK

36

61

0.856

0.756

0.906

0.841

0.794


mean

0.937

0.831

0.765

0.866

0.837


Performance comparisons on the CMfinder-SARSE dataset. We list the MCC for different alignments. Best performance bold.

Bernhart et al. BMC Bioinformatics 2008 9:474   doi:10.1186/1471-2105-9-474

Open Data