Locus 3547

Sequence ID 2R_DroMel_CAF1
Location 11,849,453 – 11,849,573
Length 120
Max. P 0.500000
window5774

overview

Window 4

Location 11,849,453 – 11,849,573
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 83.90
Mean single sequence MFE -21.08
Consensus MFE -13.12
Energy contribution -14.75
Covariance contribution 1.63
Combinations/Pair 1.12
Mean z-score -1.69
Structure conservation index 0.62
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11849453 120 + 20766785
UAAAAUAUAAUUUGGCAUCUAAAUGAAGGUUAAGAAUGACAUAACCAGGUGAUCAGUCAAAUUAGAAGUUCAUUUUUGCAAGAUCACUUGGUACAUGUAUUAAAAAUAUAUUUACAUAUA
..(((((((.((((((.((.....))..))))))....((((.(((((((((((...((((...(.....)...))))...)))))))))))..))))........)))))))....... ( -24.80)
>DroSec_CAF1 11475 116 + 1
UAAAGUAUAAUUUGGGAUCAAAACGAAGGUUAAGAAUGACAUAACCAGGUGAUCAGUCAAAUUAAAAGUUCAUUUUUGCAAGAUCAUUUGGUACAUGUAUUAAAAAUAAAUUU----AUA
....(((.((((((...((..(((....)))..))...((((.(((((((((((...((((.............))))...)))))))))))..))))........)))))))----)). ( -20.32)
>DroSim_CAF1 12159 116 + 1
UAAAAUAUAAUUUGGCAUCUAAACGAAGGUUAAGAAUGACAUAACCAGGUGAUCAGUCAAAUUAGAAGUUCAUUUUUGCAAGAUCACUUGGUACACGUAUUAAAAAUAUAUUU----AUA
..(((((((.(((.((.(((.(((....))).)))........(((((((((((...((((...(.....)...))))...)))))))))))....))....))).)))))))----... ( -27.00)
>DroEre_CAF1 12126 101 + 1
UAAAAUAUAAUUUUGCAUCCAAA-GAAGGUUAAGAAUGACAUAACCGG-GGAUCAGUCAAUUUCAUAGUUAAUUUUUGCAAGAUCU-------------UUACAAAACUAUUU----AUA
.........((((((((......-...(((((.(.....).))))).(-..((......))..)............))))))))..-------------..............----... ( -12.20)
>consensus
UAAAAUAUAAUUUGGCAUCUAAACGAAGGUUAAGAAUGACAUAACCAGGUGAUCAGUCAAAUUAAAAGUUCAUUUUUGCAAGAUCACUUGGUACAUGUAUUAAAAAUAUAUUU____AUA
..(((((((...................((((....))))...(((((((((((...((((.............))))...)))))))))))..............)))))))....... (-13.12 = -14.75 +   1.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:09 2006