Locus 841

Sequence ID 2R_DroMel_CAF1
Location 3,943,349 – 3,943,467
Length 118
Max. P 0.833923
window1462

overview

Window 2

Location 3,943,349 – 3,943,467
Length 118
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 91.69
Mean single sequence MFE -29.32
Consensus MFE -22.60
Energy contribution -23.36
Covariance contribution 0.76
Combinations/Pair 1.14
Mean z-score -1.94
Structure conservation index 0.77
SVM decision value 0.73
SVM RNA-class probability 0.833923
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3943349 118 + 20766785
UUAAAUCCCCUCCUUUGAGCUUGACUUGGCAUUGCCAGGCCGUGAACCACUUUUGUAGUCCCAUCAAGACUCCAUGGACUACAAAGCAUCGCCGACUUCUUAGACUCGAUGUUUUGUA
..........(((...((((((((((((((...))))))..(((...))).............))))).)))...))).((((((((((((....((....))...)))))))))))) ( -31.30)
>DroSec_CAF1 3900 118 + 1
UUAAAUCCCCUCUUUUGAGCUUGACUUGGCAUUGCAAAGCCGUGAACCACUUUUGCAGUGCCAUCAAGACUCCAUUGACUUCAAAGCAUCGCCGACUUCUUAGACUCGAUGUUUUGUC
..........((..(.((((((((..(((((((((((((..(((...))))))))))))))))))))).))).)..))...((((((((((....((....))...)))))))))).. ( -37.60)
>DroSim_CAF1 5053 118 + 1
UUAAAUCCCCUCUUUUGAGCUUGACUUUGCAUUGCCAAGCCGUGAACCACUUUUGCAGUGCCAUCAAGACUCCAUUGACUACAAAGCAUCGCCGACUUCUUAGACUCGAUGUUUUGUC
..........((..(.((((((((....(((((((.(((..(....)..)))..)))))))..))))).))).)..))..(((((((((((....((....))...))))))))))). ( -30.30)
>DroEre_CAF1 4511 117 + 1
UUAAAUCCCCUCU-UUGAGCUUGACUUGGCAUUGCCAAGCCGUGAACCACUUUUGGAGUGCCAUGAAGACUCCAUUGACUACAAAGUAUCGCCGACUUCUUAGACUCGAUGUUUUGCA
.............-..((((((.(..(((((((.(((((..(((...))).))))))))))))).))).)))(((((((((..((((.......))))..)))..))))))....... ( -25.70)
>DroYak_CAF1 6079 117 + 1
UUGAAUCCCCUCU-AUAAGCUUGACAUGGCUUUGCCAAACCGUGAACCACUUUUGCAGUGCCAUAACGACUCCAUUGACUACAAAGUAUUGCCGACUUCUUAGACUCGAUGUUUUGCA
.............-....((..((((((((.((((.(((..(((...)))))).)))).))))).........((((((((..((((.......))))..)))..))))))))..)). ( -21.70)
>consensus
UUAAAUCCCCUCUUUUGAGCUUGACUUGGCAUUGCCAAGCCGUGAACCACUUUUGCAGUGCCAUCAAGACUCCAUUGACUACAAAGCAUCGCCGACUUCUUAGACUCGAUGUUUUGUA
..........((....((((((((..(((((((((.(((..(((...)))))).)))))))))))))).)))....))...((((((((((....((....))...)))))))))).. (-22.60 = -23.36 +   0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:42 2006