Locus 996

Sequence ID 3R_DroMel_CAF1
Location 3,181,580 – 3,181,697
Length 117
Max. P 0.985884
window1613

overview

Window 3

Location 3,181,580 – 3,181,697
Length 117
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 97.61
Mean single sequence MFE -35.86
Consensus MFE -31.78
Energy contribution -34.18
Covariance contribution 2.40
Combinations/Pair 1.00
Mean z-score -2.05
Structure conservation index 0.89
SVM decision value 2.02
SVM RNA-class probability 0.985884
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3181580 117 + 27905053
ACUGGGGGCGUGGCGUGAGCCAUAAAGCUAACAAAUUGCUGACACAACAUAUGAAUGACAAUAUAUCAGUGGCGGAACCAGCCAGCUGAGUGGCUUCUGCUGAAUAACGUAUGAUUU
..((..((((((((....)))))...)))..))..............((((((............((((((((.......)))).))))..(((....)))......)))))).... ( -33.90)
>DroSec_CAF1 1063 117 + 1
ACUGGGGGCGUGGCGUGAGCCAUAAAGCUAACAAAUUGCUGACACAACAUAUGAAUGACAAUAUAUCAGUGGCGGAACCAGCCAGCUGAGUGGCUGCUGCUGAAUAACGUAUGAUUU
..((..((((((((....)))))...)))..))..............((((((.((....))...((((..((((.(((((....))).))..))))..))))....)))))).... ( -38.30)
>DroSim_CAF1 7024 117 + 1
ACUGGGGGCGUGGCGUGAGCCAUAAAGCUAACAAAUUGCUGACACAACAUAUGAAUGACAAUAUAUCAGUGGCGGAACCAGCCAGCUGAGUGGCUGCUGCUGAAUAACGUAUGAUUU
..((..((((((((....)))))...)))..))..............((((((.((....))...((((..((((.(((((....))).))..))))..))))....)))))).... ( -38.30)
>DroEre_CAF1 1967 117 + 1
ACUGGGGGCGUGGCGCGAGCCAUAAAGCUAACAAAUUGCUGACACAACAUAUGAAUGACAAUAUAUCAGUGGCGGAACCAGCCAGCUGAGUGGCUGCUGCUGAAUAACGUAUGAUUU
..((..((((((((....)))))...)))..))..............((((((.((....))...((((..((((.(((((....))).))..))))..))))....)))))).... ( -37.80)
>DroYak_CAF1 6806 117 + 1
ACUGGGGGCGUGGCUUCAGCCAUAAAGCUAACAAAUUGCUGACACAACAUAUGAAUGACAAUAUAUCAGUGGCGAAACCAGCCAGCUAAGUGGCUGCUGCUGAAAAACGUAUGAUUU
..((..((((((((....)))))...)))..))..............((((((.((....))...((((..(((....)(((((......)))))))..))))....)))))).... ( -31.00)
>consensus
ACUGGGGGCGUGGCGUGAGCCAUAAAGCUAACAAAUUGCUGACACAACAUAUGAAUGACAAUAUAUCAGUGGCGGAACCAGCCAGCUGAGUGGCUGCUGCUGAAUAACGUAUGAUUU
..((..((((((((....)))))...)))..))..............((((((.((....))...((((..((((.(((((....))).))..))))..))))....)))))).... (-31.78 = -34.18 +   2.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:55 2006