Table 5

The subset of RFAM used to test the constrained SCFG algorithms.

RFAM family

Seauence (EMBL.ID / startpoint-endpoint)

Alignment

Basepair

X

Y

sens.

spec.

sens.

spec.

S15

AE004150.1/7123-7243

AE004888.1/2785-2659

0.65

0.752

0.462

0.353

S15

AE005545.1/3797-3683

AE004888.1/2785-2659

0.652

0.701

0.615

0.4

U3

U27297.1/2-180

AF277396.1/3-126

0.252

0.248

0.0833

0.087

glmS

AL935254.1/94449-94600

AE010557.1/24-169

0.603

0.599

0.667

0.595

glmS

AE010557.1/24-169

AE013165.1/2616-2459

0.532

0.587

0.545

0.667

glmS

AL596166.1/50734-50929

AE013165.1/2616-2459

0.873

0.873

0.757

0.7

glmS

AC078934.3/32621-32405

AE010557.1/24-169

0.869

0.863

0.756

0.689

glmS

AL935254.1/94449-94600

AE013165.1/2616-2459

0.715

0.715

0.811

0.769

Purine

AE007775.1/3558-3459

AL591981.1/205922-205823

0.869

0.869

0.773

0.81

Purine

AL591981.1/205922-205823

AP004595.1/160373-160472

0.838

0.838

0.591

0.5

Purine

AE007775.1/3558-3459

AE010606.1/4680-4581

0.67

0.699

0.636

0.875

Purine

AP003194.2/163700-163601

AE016809.1/202496-202595

0.84

0.866

0.857

0.75

U5

M16510.1/245-451

AF095839.1/890-777

0.584

0.579

0.667

0.8

U5

X63789.1/2236-2349

AF095839.1/890-777

0.716

0.69

0.8

0.8

IRE

AY112742.1/12-41

S57280.1/391-417

0.667

0.667

0.6

0.75

IRE

AF266195.1/14-43

X01060.1/3950-3976

0.963

0.963

0.9

0.9

IRE

S57280.1/391-417

X13753.1/1434-1460

1

1

0.6

0.6

IRE

AY112742.1/12-41

X13753.1/1434-1460

0.778

0.778

0.8

0.727

IRE

AF266195.1/14-43

AF171078.1/1416-1442

0.963

0.963

0.7

0.7

IRE

AF171078.1/1416-1442

X01060.1/3950-3976

1

1

0.7

0.875

6S

Y00334.1/77-254

AL627277.1/108623-108805

0.869

0.869

0.811

0.754

6S

AE004317.1/5626-5807

AL627277.1/108623-108805

0.777

0.777

0.736

0.709

Holmes BMC Bioinformatics 2005 6:73   doi:10.1186/1471-2105-6-73