Locus 2053

Sequence ID 3R_DroMel_CAF1
Location 5,822,380 – 5,822,500
Length 120
Max. P 0.767526
window3362

overview

Window 2

Location 5,822,380 – 5,822,500
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.92
Mean single sequence MFE -32.57
Consensus MFE -26.48
Energy contribution -26.68
Covariance contribution 0.20
Combinations/Pair 1.17
Mean z-score -1.69
Structure conservation index 0.81
SVM decision value 0.52
SVM RNA-class probability 0.767526
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5822380 120 + 27905053
GUAUUGAAAUCCAGGAUUCCAUUAAGGGCACAAAAGUAGCCCAGGCUGCGUUGAAUAAUUCUCCUUAGAGAAGCCAUGACCCUGUUCACUAACUUUCCGCCAAGCAACUGGGCUUCAAUC
..((((((..((((...........((((((....)).))))..((((((..((....(((((....)))))....(((......))).....))..)))..)))..))))..)))))). ( -31.20)
>DroSec_CAF1 113744 120 + 1
ACAUUGAAAUCCAGGAUUCCAUUAAGGGCACAAAAGUAGCCCAGGCUACGUUGUAUAGUUCUCCUUAGAGAAGCCAUGACCCUAUUCACUAACUUUCCGCCAAGCAACUGGGCUUCAAUC
..((((((..((((((..........(((((((..(((((....))))).))))....(((((....))))))))..........))...........((...))..))))..)))))). ( -31.65)
>DroSim_CAF1 114750 120 + 1
GCAUUGAAGUCCAGGAUUCCAUUAAGGGCACAAAAGUAGCCCAGGCUACGUUGUAUAGUUCUCCUUAGAGAAGUCAUGACCCUGUUCACUAACUUUCCGCCAAGCAACUGGGCUUCAAUC
..((((((((((((..........(((((((((..(((((....))))).))))....(((((....))))).....).))))...............((...))..)))))))))))). ( -36.90)
>DroEre_CAF1 110934 120 + 1
GCAUUGAAGUCCAGAACUCCAUUAAGGGCACAAAAGCAGCCCAGGCUACGUUGUAAAAGUCUUCGCAGAGAGGCCAUGAACCGGCUCACCAACUUUCCAGGAAGCAACUGGGCUACAAUU
..((((.(((((((..((((.....((((.........)))).((....((((......((((....))))((((.......))))...))))...)).)).))...))))))).)))). ( -31.70)
>DroYak_CAF1 100144 120 + 1
GCGUUGAAAUCCAGAAUUCCAUUAAGGGCACAAAAACAGCCCAGGCUACGACGUAAAAGUCUUCUCAGAGAGGCCAUGACCCUGUUCACCAGCUUUCCGCCAAGCAACUGGGUUGCAAAU
...(((.(((((((...........((((.........)))).(((...(((......)))......(..((((..(((......)))...))))..))))......))))))).))).. ( -31.40)
>consensus
GCAUUGAAAUCCAGGAUUCCAUUAAGGGCACAAAAGUAGCCCAGGCUACGUUGUAUAAUUCUCCUUAGAGAAGCCAUGACCCUGUUCACUAACUUUCCGCCAAGCAACUGGGCUUCAAUC
..((((((((((((...........((((.........)))).((((............((((....))))))))................................)))))))))))). (-26.48 = -26.68 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:15 2006