Locus 6127

Sequence ID 3R_DroMel_CAF1
Location 16,057,311 – 16,057,421
Length 110
Max. P 0.724527
window9989

overview

Window 9

Location 16,057,311 – 16,057,421
Length 110
Sequences 4
Columns 115
Reading direction forward
Mean pairwise identity 87.39
Mean single sequence MFE -22.97
Consensus MFE -16.40
Energy contribution -17.58
Covariance contribution 1.19
Combinations/Pair 1.14
Mean z-score -1.84
Structure conservation index 0.71
SVM decision value 0.41
SVM RNA-class probability 0.724527
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16057311 110 + 27905053
-----GCUUUGAAUUGAAUUUUAUGCUCAGGAUGGCAUUGAGAAUGUUGAGACUUACAUAAAAUAAAACAAUAUAUGCCAAGUUUAUUUUGAAUUUUAAUUCAAAUUAAGCUGUU
-----((..((((......)))).))......((((((.....((((((...................))))))))))))((((((.(((((((....))))))).))))))... ( -19.21)
>DroSec_CAF1 15540 115 + 1
AUGCAGCUUUGAAUUGAAUUUCAUGCUCCGCAUGGCAUUGAAUAUGUUGAGACUAACAUAAAAUAAAACAAUAUAUUGCAAGUUUAUUUUAGAUUUUAAUUCAAAUUAAGCUGUU
..((((((((((((((((..((...(((.(((((........))))).))).......(((((((((.(((....)))....))))))))))).)))))))))....))))))). ( -26.20)
>DroSim_CAF1 15716 115 + 1
AUGCAGCUUUGAAUUGAAUUUCAUGCUCAGAAUGGCAUUGAAUAUGUUGAGACUAACAUAAAAUAAAACAAUAUAUGCCAAGUUUAUUUUGGAUUUUAAUUCAAAUUAAGCUGUU
..((((((((((((((((.((((.........((((((....(((((((....)))))))..(((......))))))))).........)))).)))))))))....))))))). ( -27.87)
>DroYak_CAF1 23859 114 + 1
CAGCAGCUUUCAAUUAAAUUUCAUGCUCCAAAUGGCAUUGAAUAUGUUGAGAAUAACCUAAGCUGAAAUAAUAUAUGCCAAGUAUAUUUUG-AUUUUAAUUCAAAUUAAUCUGUU
.(((((.(((((((...((((.(((((......))))).))))..)))))))...........((((((...((((((...))))))....-))))))............))))) ( -18.60)
>consensus
AUGCAGCUUUGAAUUGAAUUUCAUGCUCAGAAUGGCAUUGAAUAUGUUGAGACUAACAUAAAAUAAAACAAUAUAUGCCAAGUUUAUUUUGGAUUUUAAUUCAAAUUAAGCUGUU
..((((((((((((((((.((((((((......))))(((.((((((((...................))))))))..)))........)))).)))))))))....))))))). (-16.40 = -17.58 +   1.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:22 2006