Locus 171

Sequence ID 4_DroMel_CAF1
Location 1,085,029 – 1,085,149
Length 120
Max. P 0.712395
window274

overview

Window 4

Location 1,085,029 – 1,085,149
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.50
Mean single sequence MFE -28.12
Consensus MFE -23.58
Energy contribution -23.42
Covariance contribution -0.16
Combinations/Pair 1.17
Mean z-score -1.43
Structure conservation index 0.84
SVM decision value 0.38
SVM RNA-class probability 0.712395
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 1085029 120 + 1281640
CUGUACUUGUUUCGCUGUAUUUGUAUUUAUUUACAAGACAUACACUUAAAUACUAUGUGGCACAAUUGUAGAUGUGUGAGUUCUUGAUUUAUUUGAGGUAUUUAAAGUGAGUGUUUUCAC
.......((...((((((.((((((......))))))))...(((((((((((....(.(((((........))))).)...((..(.....)..)))))))).)))))))))....)). ( -23.00)
>DroSec_CAF1 17112 120 + 1
AUUUACUUGUGCCGCUGUAUUUGUAUAUAUUUACAAGACAUACACUUAAAUACUAUGUGGCACAAUUCUAGAUGUGUGGGUUCUUGAUUUGUUCGAGGUAUUUAAAGUGAGUGUUUUCAC
(((((((((((((((.(((((((((......)))(((.......)))))))))...))))))).............(((((((((((.....)))))).)))))))))))))........ ( -28.30)
>DroSim_CAF1 15575 118 + 1
CUUUACUUGUGCCGCUGUAUGUG--UAUAUUUACAAGACAUACACUUAAAUACUAUGUGGCACAAUUGGAGAUGUGUGGGUUCUUGAUUUGUUCGAGGUAUUUAAAGUGAGUGUUUUCAC
(((((.(((((((((.(((((((--(((.((.....)).))))))....))))...))))))))).))))).....(((((((((((.....)))))).)))))..(((((....))))) ( -33.50)
>DroEre_CAF1 24507 120 + 1
CUUUACUCGUGCGGCUGUAUUUGUAUUUAUUUACAAGACAUACACUUAAAUACUACGUGGCACAAGUACAGAUGUGUGGGUUCUUGAUUUAUUCGAGGUAUUUAAAGUGAGUGUUUUCAC
....(((((..((.((((((((((.(((......))).....(((.((.....)).)))..)))))))))).))..)))))((((((.....))))))........(((((....))))) ( -27.30)
>DroYak_CAF1 21623 120 + 1
CUUUACUUAUGCCGCUGUAUAUGUAUUAAUUUACAAGACAUACGCUUAAAUACUGCGUGACACAAGUGCUGAUGUGUGGGUUCUUGAUUUAUACGAGGUAUUUAAAGUGAGUGUUUUCAC
...(((.(((((....))))).))).........(((((((.((((((((((((.((((...((((.(((.(....).))).)))).....)))).))))))).))))).)))))))... ( -28.50)
>consensus
CUUUACUUGUGCCGCUGUAUUUGUAUUUAUUUACAAGACAUACACUUAAAUACUAUGUGGCACAAUUGCAGAUGUGUGGGUUCUUGAUUUAUUCGAGGUAUUUAAAGUGAGUGUUUUCAC
...(((..((((....))))..))).........(((((((.(((((((((((....(.(((((........))))).)...(((((.....))))))))))).))))).)))))))... (-23.58 = -23.42 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:02 2006