Locus 4105

Sequence ID X_DroMel_CAF1
Location 10,841,291 – 10,841,410
Length 119
Max. P 0.513501
window6747

overview

Window 7

Location 10,841,291 – 10,841,410
Length 119
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 88.24
Mean single sequence MFE -34.33
Consensus MFE -22.11
Energy contribution -22.48
Covariance contribution 0.37
Combinations/Pair 1.09
Mean z-score -1.91
Structure conservation index 0.64
SVM decision value -0.04
SVM RNA-class probability 0.513501
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10841291 119 + 22224390
GUUUAAUGUAUCGCAAUAAUCGAGCAAUCAAUCAAUCAGGCAAGUAUUUGCCAGUUCUACUUGCUGGGUAUUCGGCAAGUCGACUCGUUGCUCGAAAAAAG-GUCAAAUCCUUUGGCCGG
...................(((((((((..........(((((....)))))((((..(((((((((....))))))))).)))).))))))))).....(-(((((.....)))))).. ( -37.60)
>DroSec_CAF1 20092 118 + 1
GGUUAAUGUAUCGCAAUAAUCGAGCAAUCAAUCAAUCAGGCCAGUCCUUGCCAGUCCUACUUGCUGGGUAUUUGGCAAGUCGACUCGUUGCUCGAAA-AAG-GUCAAAUCCUUUGGCCGG
((((...............(((((((((..........(((........)))((((..((((((..(....)..)))))).)))).))))))))).(-(((-(......))))))))).. ( -36.60)
>DroSim_CAF1 964 108 + 1
GGUUAAUGUAUCGCAAUAAUCGAGCAAUCAAUCAAUCAGGCCAG----------UCCUACUUGCUGGGUAUUCGGCAAGUCGACUCGUUGCACGAAA-AAG-GUCAAAUCCUUUGGCCGG
(((((.((.....)).)))))((....)).........((((.(----------((..(((((((((....))))))))).)))(((.....))).(-(((-(......))))))))).. ( -32.20)
>DroYak_CAF1 9105 110 + 1
GGUUAAUGUAUCGCAAUAAUCGAGCAAUCAAUCAAUCAGGUCAG----------CUCUACUUGCUGGGUAUUCAGCAAGUCGACUCGCUGCUCCAAAAAAGGCUCAAAUCCUUUGGCCGG
(((((.((.....)).)))))((....)).........((.(((----------(((.(((((((((....))))))))).))...))))..))......(((.(((.....)))))).. ( -30.90)
>consensus
GGUUAAUGUAUCGCAAUAAUCGAGCAAUCAAUCAAUCAGGCCAG__________UCCUACUUGCUGGGUAUUCGGCAAGUCGACUCGUUGCUCGAAA_AAG_GUCAAAUCCUUUGGCCGG
((((((((.....))....(((((((((.(.((....(((...............)))(((((((((....))))))))).)).).))))))))).................)))))).. (-22.11 = -22.48 +   0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:28 2006