Locus 3061

Sequence ID 2R_DroMel_CAF1
Location 10,525,479 – 10,525,599
Length 120
Max. P 0.665710
window5042

overview

Window 2

Location 10,525,479 – 10,525,599
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.19
Mean single sequence MFE -14.41
Consensus MFE -11.12
Energy contribution -11.32
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.64
Structure conservation index 0.77
SVM decision value 0.28
SVM RNA-class probability 0.665710
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10525479 120 + 20766785
ACAACAAACACUUCGAAAAAGUUUGAAGCCCACUCUUAAAUAUUAUCUAGGGAGUACAACUCUUAAAAUCCAACUUAUACGACUCUGCUCAGUCCAGCUCGUAUACAAAACUCUUAUACA
..........(((((((....))))))).....................(((((.....)))))...........(((((((....(((......))))))))))............... ( -15.50)
>DroSec_CAF1 26349 120 + 1
ACAACAAACACUUCGAAAAAGUUUGAAGCCCACUCUUAAAUAUUAUUUAAGGAGUCCAACUCUUAAAAUCCAUCUUAUACGACUCUGUUAAGUCCAGCUCGUAUACAAAACUCUUAUACA
..........(((((((....)))))))................((((.(((((.....))))).))))......(((((((..(((.......))).)))))))............... ( -16.30)
>DroSim_CAF1 22531 120 + 1
ACAACAAACACUUCGAAAAAGUUUGAAGCCCACUCUUAAAUAUUAUCUAAGGAGUACAACUCUUAAAAUCCAACUUAUACGACUCUGCUAAGUCCAGCUCGUAUACAAAACUCUUAUACA
..........(((((((....))))))).....................(((((.....)))))...........(((((((....(((......))))))))))............... ( -15.80)
>DroEre_CAF1 28609 105 + 1
ACAACAAACACUUCGAAAAAGUUUGAAGCCCACUCUCAAAUAUUAU---------------CUUAAAGUCCAACUUAUACGACUCUGCUAAGUCCAGCUCGUAUACAAAACUCUUAUACC
..........(((((((....)))))))..................---------------....(((.......(((((((....(((......)))))))))).......)))..... ( -12.24)
>DroYak_CAF1 26663 105 + 1
ACAACAAACACUUCGACAAAGUUUGAAGCCCACCCUCAAAUAUUAU---------------CUUAAAGUCCAACUUAUACGACUCUGCUAACUCCAGCUCGUAUACAAAACUCUGAUACA
..........((((((......))))))...............(((---------------(....(((......(((((((....(((......))))))))))....)))..)))).. ( -12.20)
>consensus
ACAACAAACACUUCGAAAAAGUUUGAAGCCCACUCUUAAAUAUUAU_UA_GGAGU_CAACUCUUAAAAUCCAACUUAUACGACUCUGCUAAGUCCAGCUCGUAUACAAAACUCUUAUACA
..........(((((((....)))))))...............................................(((((((..(((.......))).)))))))............... (-11.12 = -11.32 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:21 2006