Locus 3787

Sequence ID X_DroMel_CAF1
Location 10,027,124 – 10,027,240
Length 116
Max. P 0.553500
window6221

overview

Window 1

Location 10,027,124 – 10,027,240
Length 116
Sequences 3
Columns 119
Reading direction forward
Mean pairwise identity 76.84
Mean single sequence MFE -31.57
Consensus MFE -17.06
Energy contribution -17.95
Covariance contribution 0.89
Combinations/Pair 1.12
Mean z-score -2.06
Structure conservation index 0.54
SVM decision value 0.04
SVM RNA-class probability 0.553500
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10027124 116 + 22224390
UAAAUGGAUGGAUUGAGUUAUACAGUUAUGGCUUAAGGGCUUGGCAGGU---UGUUUUCUUGUCUUCACUUAGAGAUGAGGAUUACAAAACGUUUGUUAGCCUGUAGAAGUGCCUUGUA
.............(((((((((....)))))))))(((((...((((((---((..((((..((((......))))..))))..((((.....))))))))))))......)))))... ( -30.80)
>DroSim_CAF1 4450 116 + 1
UUAAUGGCUGGAUUCAGUUAUAGAGUUAUGGCUUAAGGGCUUGGCAGUU---UGUUUUCUUGUCUUCACUUAGAGAUGAGGAUUACAAAACGUUUGUUAGUCUGUGCAAGUGCCUUGUA
...(((((((....))))))).((((....))))(((((((((((((((---(((.((((..((((......))))..))))..)))))((........)))))).))))).))))... ( -29.90)
>DroEre_CAF1 34652 106 + 1
GAAAUGUGUGGAGUGACUUAUAGAGUUACGGCUUAGGGACUUGGCUGUUUGUUGUUUUCGUGUCUUCACUUGGAGAUGCGGAUUACAAAACGU-----AAGCCAAGGAAAU--------
............(((((((...)))))))..........(((((((.....((((.(((((((((((....)))))))))))..)))).....-----.))))))).....-------- ( -34.00)
>consensus
UAAAUGGAUGGAUUGAGUUAUAGAGUUAUGGCUUAAGGGCUUGGCAGUU___UGUUUUCUUGUCUUCACUUAGAGAUGAGGAUUACAAAACGUUUGUUAGCCUGUGGAAGUGCCUUGUA
.............(((((((((....))))))))).(((((...........(((.((((..((((......))))..))))..)))...........)))))................ (-17.06 = -17.95 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:30 2006