Locus 3166

Sequence ID 2R_DroMel_CAF1
Location 10,819,235 – 10,819,351
Length 116
Max. P 0.997602
window5212

overview

Window 2

Location 10,819,235 – 10,819,351
Length 116
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 95.00
Mean single sequence MFE -22.58
Consensus MFE -20.70
Energy contribution -21.02
Covariance contribution 0.32
Combinations/Pair 1.12
Mean z-score -1.99
Structure conservation index 0.92
SVM decision value 2.89
SVM RNA-class probability 0.997602
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10819235 116 + 20766785
AACGCGAGUCAAAAACCUUUUGGAUAAAAACAGUUUAAAGUGGCAGCCGCCCGCUGUCAAUAAAGCAGAUUAAUUGCAAAUAAACUGAUUCACUCUUAAGCCAUAAUAAAUUAAAU
.....((((......((....)).......(((((((...(((((((.....))))))).....((((.....))))...)))))))....))))..................... ( -23.60)
>DroSec_CAF1 26629 116 + 1
AACGCGAGUCAAAAACCUUUUGGAUAAAAACAGUUUAAAGUGGCAGCCGCCCGCUGUCAGUAAAGCAAAUUAAUUGCAAAUAAACUGAUUCACUCUUAAGCCAUAAUAAAUUAAAU
.....((((......((....)).......(((((((.(.(((((((.....))))))).)...((((.....))))...)))))))....))))..................... ( -24.80)
>DroSim_CAF1 26857 116 + 1
AACGCGAGUCAAAAACCUUUUGGAUAAAAACAGUUUAAAGUGACAGCCGCCCGCUGUCAAUAAAGCAGAUUAAUUGCAAAUAAACCGAUUCACUCUUAAGCCAUAAUAAAUUAAAU
.....(((((.....((....)).........(((((...(((((((.....))))))).....((((.....))))...))))).)))))......................... ( -22.10)
>DroEre_CAF1 31512 115 + 1
AACGCGAGUCAAAAACCUUUUGGAUAAAAACAGUUUCAAGUGGAGGCAGCCCGCUGUCAAUAAAGCAGAUU-AUUGCAAAUAAACUGAUUUACUCUUAAGCCAUAAUAAAUGAUAU
.....((((.(((..((....)).......((((((........(((((....)))))......((((...-.))))....)))))).)))))))..................... ( -18.90)
>DroYak_CAF1 32675 116 + 1
AACGCGAGUCAAAAACCUUUUGGAUAAAAACCGUUUAAAGUGGCAGCAGCCCGCUGUCAAUAAAGCAGAUUAAUUGCAAAUAAACUGAUUCACUCUUAAGCCAUAAUAAAUUAAGU
.....((((((....((....)).........(((((...(((((((.....))))))).....((((.....))))...)))))))))))...(((((...........))))). ( -23.50)
>consensus
AACGCGAGUCAAAAACCUUUUGGAUAAAAACAGUUUAAAGUGGCAGCCGCCCGCUGUCAAUAAAGCAGAUUAAUUGCAAAUAAACUGAUUCACUCUUAAGCCAUAAUAAAUUAAAU
.....((((......((....)).......(((((((...(((((((.....))))))).....((((.....))))...)))))))....))))..................... (-20.70 = -21.02 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:03 2006