Locus 10242

Sequence ID 3R_DroMel_CAF1
Location 27,450,655 – 27,450,766
Length 111
Max. P 0.573737
window16325

overview

Window 5

Location 27,450,655 – 27,450,766
Length 111
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 83.44
Mean single sequence MFE -33.78
Consensus MFE -22.50
Energy contribution -22.38
Covariance contribution -0.12
Combinations/Pair 1.08
Mean z-score -1.73
Structure conservation index 0.67
SVM decision value 0.08
SVM RNA-class probability 0.573737
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27450655 111 - 27905053
GGUUGCCGGUGGUCGGUGGUCGGUGGUCGGUUGAAUGGCCAACGGCACCCGUGGUCCUGGCCAUUAACUAUGCAAAUAAUGUGCGGGAUAUAGACAAAAUCGCCACAAGAU
..((((..(((((..((((((((.(..(((((....)))).((((...)))))..)))))))))..)))))))))....((((.(.(((.........))).))))).... ( -37.70)
>DroSec_CAF1 6596 111 - 1
GGUUGCCGGUGGUCGGUGGUCGGUGUUCGGUUAAAUGGCCAACGGCACCCGUGGUCCUGGCCAUUAACUAUGCAAAUAAUGUGCGGGAUAUAGACAAAAUCGCCGCAAGAU
..((((.((((((.....(((.((((((((((((.((((((..((.(((...))))))))))))))))).((((.......)))))))))).)))...))))))))))... ( -39.60)
>DroSim_CAF1 6408 104 - 1
GGUUGCCGGUGGUCGGUGGUC-------GGUUAAAUGGCCAACGGCACCCGUGGUCCUGGCCAUUAACUAUGCAAAUAAUGUGCGGGAUAUAGACAAAAUCGCCACAAGAU
........((((.((((.(((-------((((((.((((((..((.(((...))))))))))))))))).((((.......)))).......)))...))))))))..... ( -34.60)
>DroEre_CAF1 6497 90 - 1
GCU---------------------UGUCGGUUAAAUGGCCAAGGGCACCCAUGGUCCUGGCCAUUAACUAUGCAAAUAAUGUGCGGGAUAAAGACAAAAUCGCCACAAGAU
..(---------------------(((.((((((.((((((.((((.......))))))))))))))))..))))....((((.(.(((.........))).))))).... ( -28.00)
>DroYak_CAF1 6560 97 - 1
GAUUG--------------UAUGUUGUCGGUUAAAUGGCCAACGGCAACGGUGGUCCUGGCCAUUAACUAUGCAAAUAAUGUGCGGGAUAUAGACAAAAUCGCCACAAGAU
..(((--------------(((((((..(((((...(((((.((....)).))))).)))))..)))).))))))....((((.(.(((.........))).))))).... ( -29.00)
>consensus
GGUUGCCGGUGGUCGGUGGUC_GUGGUCGGUUAAAUGGCCAACGGCACCCGUGGUCCUGGCCAUUAACUAUGCAAAUAAUGUGCGGGAUAUAGACAAAAUCGCCACAAGAU
............................((((((.((((((..((.(((...)))))))))))))))))..........((((.(.(((.........))).))))).... (-22.50 = -22.38 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:52:28 2006