Locus 4846

Sequence ID 3R_DroMel_CAF1
Location 12,695,891 – 12,695,982
Length 91
Max. P 0.588613
window7937

overview

Window 7

Location 12,695,891 – 12,695,982
Length 91
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 82.52
Mean single sequence MFE -28.17
Consensus MFE -19.79
Energy contribution -20.99
Covariance contribution 1.20
Combinations/Pair 1.18
Mean z-score -1.61
Structure conservation index 0.70
SVM decision value 0.11
SVM RNA-class probability 0.588613
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12695891 91 + 27905053
GCAGCGAGUUCAAAAUAUUUCCAAACAUGGA-----AGGUAAUUCUGCCGGCUAACGACUGGCAGCCAUGUCAUUGGUCGCAGGUUGGUAAGCG-----UA---
...(((((((.......((((((....))))-----))..)))))((((((((..(((((((((....))))...)))))..)))))))).)).-----..--- ( -27.00)
>DroSec_CAF1 71803 91 + 1
GCAGCGAGUUCAAAAUAUUUCCAAACAUGGA-----UGGGAAUUCUGCCGGCUAACGACUGACAGCCAUGUCAUUGGUCGCAGGUUGGUAAGCG-----UA---
...((((((((........((((....))))-----...))))))((((((((..(((((((((....))))...)))))..)))))))).)).-----..--- ( -29.70)
>DroSim_CAF1 72888 91 + 1
GCAGCGAGUUCAAAAUAUUUCCAAACAUGGA-----AGGGAAUUCUGCCGGCUAACGACUGACAGCCAUGUCAUUGGUCGCAGGUUGGUAAGCG-----UA---
...((((((((......((((((....))))-----)).))))))((((((((..(((((((((....))))...)))))..)))))))).)).-----..--- ( -32.00)
>DroEre_CAF1 76541 91 + 1
GCAACGAGUUCAAAAUAUUUCCAAACAUGGC-----AGGGAGUUCUGCCGGCUAACGACUGACAGCCAUGUCAUUGGUCUCAGGUUGGUAAGCG-----UA---
((.........................((((-----(((....)))))))((((((..((((..((((......)))).))))))))))..)).-----..--- ( -24.20)
>DroYak_CAF1 65509 96 + 1
GCAACGAGUUCGAAAUAUUUCCAAACAUGGC-----AGGGAAUUCUGCCGGCUAACAACCGACAACCAUGACAUUGGUCGCAGGUUGGUGAGCGCACUAUA---
((..((....))...............((((-----(((....)))))))(((..(((((..(.((((......)))).)..)))))...)))))......--- ( -28.90)
>DroAna_CAF1 59246 93 + 1
CCAGCGACUCGAAAAA------AAAAAUGGAUGAGCUGGGUAUUCCUCCGACUAACGACUGGCAGACAUGUCAUUGGUCGCCGGAUGGCGAGCA-----UAUCU
................------......(((((.(((.(.(((.((..(((((((.(((((.....)).))).)))))))..))))).).))).-----))))) ( -27.20)
>consensus
GCAGCGAGUUCAAAAUAUUUCCAAACAUGGA_____AGGGAAUUCUGCCGGCUAACGACUGACAGCCAUGUCAUUGGUCGCAGGUUGGUAAGCG_____UA___
((...((((((.........(((....))).........))))))((((((((..(((((((((....))))...)))))..)))))))).))........... (-19.79 = -20.99 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:14 2006