Locus 4895

Sequence ID 3R_DroMel_CAF1
Location 12,868,789 – 12,868,889
Length 100
Max. P 0.588420
window8014

overview

Window 4

Location 12,868,789 – 12,868,889
Length 100
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 83.40
Mean single sequence MFE -29.01
Consensus MFE -19.08
Energy contribution -19.36
Covariance contribution 0.28
Combinations/Pair 1.19
Mean z-score -1.77
Structure conservation index 0.66
SVM decision value 0.11
SVM RNA-class probability 0.588420
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12868789 100 + 27905053
------CUAAGUUGUUUUGGAAAAGGAAACAGGCUCGUAGUUCCGUCCAAAGCAAUAGUUCAAGAACUAGUAAUUUAGGGAUGAGCUUGCGGGCGCUGAUUUCAAG
------(((((....)))))....((((.((((((((((((((.((((.......(((((....))))).........)))))))).))))))).))).))))... ( -30.39)
>DroSec_CAF1 1031 99 + 1
------CUAAGUUGUUUUGGUA-AGGAAACAGGCUCGCAGUUCCGUCCAAAGCAAUAGUUCAAGAACUAGUAAUUUAGGGAUGAGCUUGCGGGCGCUGAUUUCAAG
------(((((....)))))..-.((((.((((((((((((((.((((.......(((((....))))).........)))))))).))))))).))).))))... ( -31.89)
>DroSim_CAF1 1145 100 + 1
------CUAAGUUGUUUUGGUAAAGGAAACAGGCUCACAGUUCCGUCCAAAGCAAUAGUUCAAGAACUAGUAAUUUAGGGAUGAGCUUGCGGGCGCUGAUUUCAAG
------(((((....)))))....((((.(((((((.((((((.((((.......(((((....))))).........)))))))).)).)))).))).))))... ( -26.49)
>DroEre_CAF1 2232 106 + 1
AGGUGGCCAAUUUGUUUUGGAAAAGAAAAUACGCUCGCUGUUCCGUCCGAAGCAAUAGUUCAAGAACUAGUCAUUUAGAGAUGAGUUGGCGGCCGCUGGCUUCAAG
.(((((((...((((((((((...(((....(....)...)))..))))))))))(((((....)))))((((((((....)))).)))))))))))......... ( -31.40)
>DroYak_CAF1 1155 106 + 1
AAAUGACCAAUUUGUUUUGAAAACGAAAAUAUGCUCGGCGUUCAGUCCGAAGCAAUAGUUCAAGAACUAGUUACUUAGAAAUGAGUUGGCAACCGCUGGUUUCAAG
....(((((.((((..(((((..(((........)))...)))))..))))((..(((((....)))))((((((((....)))).))))....)))))))..... ( -24.90)
>consensus
______CUAAGUUGUUUUGGAAAAGGAAACAGGCUCGCAGUUCCGUCCAAAGCAAUAGUUCAAGAACUAGUAAUUUAGGGAUGAGCUUGCGGGCGCUGAUUUCAAG
...........((((((((((...((((............)))).))))))))))(((((....)))))........(((((.(((........))).)))))... (-19.08 = -19.36 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:28 2006