Locus 8083

Sequence ID 3R_DroMel_CAF1
Location 21,707,213 – 21,707,332
Length 119
Max. P 0.665137
window13013

overview

Window 3

Location 21,707,213 – 21,707,332
Length 119
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 74.16
Mean single sequence MFE -23.70
Consensus MFE -15.21
Energy contribution -16.40
Covariance contribution 1.19
Combinations/Pair 1.10
Mean z-score -1.58
Structure conservation index 0.64
SVM decision value 0.28
SVM RNA-class probability 0.665137
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21707213 119 - 27905053
UAUUUUAUUGGGAAAAUUGGCAAUAGAACUUAUCCAAAAUAUCGAUAGGCCACUUUGGUUUGCGUAUAGGCUGCAAAUCCAAGCAGGUUGCAAGCCAUGCUAAGCCUCAUCAAAGUUAU
.(((((..((((....((((((......((((((.........))))))......(((((((((....(.((((........)))).))))))))))))))))..))))..)))))... ( -29.90)
>DroSec_CAF1 34814 99 - 1
--------------------UAAUAGAAGUUAUCUAAUAUAUCGAUAGGCAAUUUUGGUUUGUGUAAAGGCUGCACAUACAAGAAGGUUGCAAGCCAUGCUAAGCCUCAUCAAAGUUAU
--------------------...((((.....)))).......(((((((..(((((...((((((.....))))))..))))).(((.....))).......)))).)))........ ( -22.00)
>DroSim_CAF1 46292 99 - 1
--------------------UUAUAGAAGUUAUCUAAUAUAUCGAUAGGCAAUUUUGGUUUGUGUAUAGGCUGCACAUACAAGCAGGUUGCACGCCAUGCUAAGCCUAAUCAAAGUUAU
--------------------...((((.....)))).......(((((((.......((.((((((.....)))))).)).(((((((.....))).))))..)))).)))........ ( -23.90)
>DroYak_CAF1 31574 90 - 1
----------------------------AUUAUCUAAACUAUCGAUAAGCAAUUUUGGUUUGUGUAUAGGAUACAAUUA-AAGCCGGUUGCAAGCAAUGUUACGCUUUAGCAAUGUUAU
----------------------------.(((((.........)))))(((((..((((((.(((((...)))))....-))))))))))).((((.(((((.....))))).)))).. ( -19.00)
>consensus
____________________UAAUAGAAGUUAUCUAAAAUAUCGAUAGGCAAUUUUGGUUUGUGUAUAGGCUGCAAAUACAAGCAGGUUGCAAGCCAUGCUAAGCCUCAUCAAAGUUAU
...........................................(((((((.....((((((((....((.((((........)))).))))))))))......)))).)))........ (-15.21 = -16.40 +   1.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:12 2006