Locus 3948

Sequence ID 3R_DroMel_CAF1
Location 10,677,476 – 10,677,596
Length 120
Max. P 0.818115
window6328

overview

Window 8

Location 10,677,476 – 10,677,596
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 95.00
Mean single sequence MFE -20.90
Consensus MFE -19.25
Energy contribution -19.12
Covariance contribution -0.12
Combinations/Pair 1.06
Mean z-score -1.74
Structure conservation index 0.92
SVM decision value 0.67
SVM RNA-class probability 0.818115
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10677476 120 + 27905053
UCUUUUACGAGCUAAACACACCCUCUUCACACCUACAAGAUACUUUAGUACGUGCUGAACCACUUAUCUUAAGUAUCUUUAUCACAUAUGGAUGGUUUGUUUAUUUAAAUGAAUAGGUAU
(((((((..((.((((((.(((.(((..........(((((((((.((((.(((......))).)).)).)))))))))..........))).))).)))))).))...)))).)))... ( -22.45)
>DroSec_CAF1 18834 120 + 1
UCUUUUACGACCUUAACACACCCUCUUCACACCAACAAGAUACUUUAGUACGUGCUGAACCACUUAUCUUAAGUAUCUUUGUCACAUAUGGAUGGUUUAUUUAUUUAAAUGAAUAGGUAU
.........(((.......(((.(((........(((((((((((.((((.(((......))).)).)).))))))).)))).......))).))).(((((((....)))))))))).. ( -21.46)
>DroSim_CAF1 20888 120 + 1
UCUUUUACGAGCUUAACACACCCUCUUCACACCUACAAGAUACUUUAGUACGUGCUGAACCACUUAUCUUAAGUAUCUUUAUCACAUAUGGAUGGUUUAUUUAUUUAAAUGAAUAGGUAU
........(((...........))).....(((((.(((((((((.((((.(((......))).)).)).))))))))).....(((.(((((((.....))))))).)))..))))).. ( -20.60)
>DroEre_CAF1 16039 118 + 1
UCUUUUACGAGCCUAGCACACCCUCUUCACACCUACAAGAUACUUUAGUACGUGCUGAACCACUUAUCUUAAGUAUCUUUAUCACACA--GAUGGUUUAUUUAUUUUAAUGAAUAAGUAU
........(((((.......................(((((((((.((((.(((......))).)).)).))))))))).(((.....--))))))))((((((((....)))))))).. ( -19.10)
>consensus
UCUUUUACGAGCUUAACACACCCUCUUCACACCUACAAGAUACUUUAGUACGUGCUGAACCACUUAUCUUAAGUAUCUUUAUCACAUAUGGAUGGUUUAUUUAUUUAAAUGAAUAGGUAU
.....(((...........(((.(((..........(((((((((.((((.(((......))).)).)).)))))))))..........))).)))((((((((....))))))))))). (-19.25 = -19.12 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:12 2006