Locus 5281

Sequence ID 2R_DroMel_CAF1
Location 17,158,841 – 17,158,954
Length 113
Max. P 0.765729
window8441

overview

Window 1

Location 17,158,841 – 17,158,954
Length 113
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 83.86
Mean single sequence MFE -46.63
Consensus MFE -34.24
Energy contribution -36.60
Covariance contribution 2.36
Combinations/Pair 1.18
Mean z-score -2.51
Structure conservation index 0.73
SVM decision value 0.51
SVM RNA-class probability 0.765729
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17158841 113 - 20766785
GCGCAAGCUUCUGCAGGAGCGGCUGAUGGUGCGGGUGGACGCACUGUUCAACAUGCUCUUCUCUGC---CUCGCCGUUCCUGCAGAGCUUCCAUGAGCGGCGCAAGUCCACCGAUC
((....)).((((((((((((((.((.((((.(((.(((.(((.((.....)))))))).))))))---)))))))))))))))))((((....))))(((....)))........ ( -54.20)
>DroPse_CAF1 40245 116 - 1
CCGCAAGGUGCUUAAUGAGAAAAUGCGGGUCCACGUGGACACGCUAUUCAACAUGCUGUUCUCCGCUACGUCGCCCUUCUUCCAGAAAUUCCACGAGAUGCGAAAUUCGACGGACC
((....)).((....((((.....(((.((((....)))).)))..))))....)).....(((((....((((...((((...(.....)...)))).)))).....).)))).. ( -27.10)
>DroSec_CAF1 26037 113 - 1
GCGCAAGCUUCUGCAGGAGCGGCUGACGGUGCGGGUGGACGCACUGUUCAACAUGCUCUUCUCUGC---CUCGCCGUUCCUGCAGAGCUUCCAUGAGCGACGCAAGUCCACCGAUC
((....)).((((((((((((((.(((((((((......)))))))))......((........))---...))))))))))))))((((....))))(((....)))........ ( -56.60)
>DroSim_CAF1 27187 113 - 1
GCGCAAGCUUCUGCAGGAGCGGCUGACGGUGCGGGUGGACGCACUGUUCAACAUGCUCUUCUCUGC---CUCGCCGUUUCUGCAGAGCUUCCAUGAGCGACGCAAGUCCACCGAUC
((....)).((((((((((((((.(((((((((......)))))))))......((........))---...))))))))))))))((((....))))(((....)))........ ( -53.70)
>DroEre_CAF1 27075 113 - 1
GCGCAAGCUUCUGCAGGAGCGGCUGAUGGUGCGGGUGGAUGCACUGUUCAACAUGCUCUUCUCUGC---CUCGCCGUUUCUGCAGAACUUCCAUGACAAGCGCAAAUCUACCGAUC
(((((((.(((((((((((((((.((.((((.(((.(((.(((.((.....)))))))).))))))---))))))))))))))))))))).........))))............. ( -46.70)
>DroYak_CAF1 26288 113 - 1
GCGCAAGCUACUGCAGGAGCGGCUAAUGGUGCAGGUGGAUUCACUGUUCAAUAUGCUCUUCUCAGC---CUCGCCGUUUCUGCAAAGCUUCCAUGAGCGGCGCAGGUCUACCGAUC
((((.......((((((((((((....((((((..(((((.....)))))...)))........))---)..))))))))))))..((((....)))).)))).((....)).... ( -41.50)
>consensus
GCGCAAGCUUCUGCAGGAGCGGCUGAUGGUGCGGGUGGACGCACUGUUCAACAUGCUCUUCUCUGC___CUCGCCGUUCCUGCAGAGCUUCCAUGAGCGGCGCAAGUCCACCGAUC
(((((((((.(((((((((((((.(((((((((......)))))))))......((........))......)))))))))))))))))).........))))............. (-34.24 = -36.60 +   2.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:06 2006