Locus 824

Sequence ID 3R_DroMel_CAF1
Location 2,843,134 – 2,843,230
Length 96
Max. P 0.650655
window1310

overview

Window 0

Location 2,843,134 – 2,843,230
Length 96
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 95.21
Mean single sequence MFE -27.68
Consensus MFE -23.36
Energy contribution -23.04
Covariance contribution -0.32
Combinations/Pair 1.13
Mean z-score -1.40
Structure conservation index 0.84
SVM decision value 0.24
SVM RNA-class probability 0.650655
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2843134 96 + 27905053
AAGUACUACUUUAAGAAUUUACAUGCGGCAAUUGCAGCCAGCGGCAACGGCGGUGUAAACUCCUGGAAACGGAGAAUCGGGACGUAGGAGCUAACA
.(((.((((.((..((.((((((((((((.......)))..((....)))).)))))))((((.(....)))))..))..)).))))..))).... ( -30.00)
>DroSec_CAF1 118380 96 + 1
AAGUACUACUUUAAGAAUUUACAUGCGGCAAUUGCAGCCAGCGGCAACGGCGGCGUAAACUGCUGGAAACGGAGAAUCGGAACGUAGGAGCUAACA
.(((.((((.((..((.(((((.((((.....))))(((..((....))..))))))))((.(((....)))))..))..)).))))..))).... ( -26.50)
>DroSim_CAF1 123139 96 + 1
AAGUACUACUUUAAGAAUUUACAUGCGGCAAUUGCAGCCAGCGGCAACGGCGGCGUAAACUGCUGGAAACGGAGAAUCGGGACGUAGGAGCUAACA
.(((.((((.((..((.(((((.((((.....))))(((..((....))..))))))))((.(((....)))))..))..)).))))..))).... ( -26.90)
>DroEre_CAF1 121546 96 + 1
AAGUACUACUUUAAGAAUUUACAUGCGGCAAUUGCAGCCAGCGGCAACGGCGGCGUGAACUGCUGCAAACGGAGAAUCGGGACGUAGGAGCAAGCA
..((.((((.((..((.(((...(((((((.(..(.(((..((....))..))))..)..))))))).....))).))..)).))))..))..... ( -27.70)
>DroYak_CAF1 130751 96 + 1
AAGUACUACUUUAAGAAUUUACAUGCGGCAAUUGCAGCCAGCGGCAACGGGGGUGUAAACUGCUGCAAACGGAGAAUCGGGACGGGGGAGCUAGCA
.(((.(..((((..((.(((...(((((((.(((((.((..((....)).)).)))))..))))))).....))).))..)).))..).))).... ( -27.30)
>consensus
AAGUACUACUUUAAGAAUUUACAUGCGGCAAUUGCAGCCAGCGGCAACGGCGGCGUAAACUGCUGGAAACGGAGAAUCGGGACGUAGGAGCUAACA
.(((.((((.((..((.(((((.((((.....))))(((..((....))..))))))))((.(((....)))))..))..)).))))..))).... (-23.36 = -23.04 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:01 2006