Locus 5339

Sequence ID 3R_DroMel_CAF1
Location 14,014,349 – 14,014,465
Length 116
Max. P 0.548643
window8703

overview

Window 3

Location 14,014,349 – 14,014,465
Length 116
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 90.43
Mean single sequence MFE -30.98
Consensus MFE -22.60
Energy contribution -25.60
Covariance contribution 3.00
Combinations/Pair 1.10
Mean z-score -1.73
Structure conservation index 0.73
SVM decision value 0.03
SVM RNA-class probability 0.548643
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14014349 116 + 27905053
UCCGGAAUGAGUUGAAGAUGCUAAUUCAAGUCAAGUCAAAAAUAUGAAAGUAAUGAUUCCAGUGUUGGUGUGUUUACCAAUUGACACUGGGUGGCAACUCUGGCAAGGAGCUUAAU
.(((((.(((.(((((........))))).))).((((....(((....))).....(((((((((((((....)))))....))))))))))))...)))))............. ( -32.50)
>DroSec_CAF1 290582 116 + 1
UCCGGAAUGAGUUGAAGAUGCUAAUUCAAGUCAAGUCAGAAAUAUGAAAGUAAUGAUUCCAGUGUUGGUGUGUUUACCAAUUGACACUGGGUGGCAACUCUGGCAAGGAGCACAAU
(((....(((.(((((........))))).))).((((((..(((....))).((..(((((((((((((....)))))....))))))))...))..))))))..)))....... ( -35.90)
>DroSim_CAF1 296011 116 + 1
UCCGGAAUGAGUUGAAGAUGCUAGUUCAAGUCAAGUCAAAAAUAUGAAAGUAAUGAUUCCAGUGUUGGUGUGUUUACCAAUUGACACUGGGUGGCAACUCUGGCAAGGAGCACAAU
.(((((.(((.(((((........))))).))).((((....(((....))).....(((((((((((((....)))))....))))))))))))...)))))............. ( -31.60)
>DroEre_CAF1 277164 112 + 1
----GAAUGAGUUGGAGAUGUUAAUUCAAGUCAAGUCAAAAAUAUGAAAGUAAUGAUUCCAGUGUUGGUGUGUUUUCGAACUGGCACUAGGUGGCAACUCUGAUGAGGUGCUUGCU
----((.(((.(((((........))))).)))..))...........((((......(((((((..((.((....)).))..))))).)).((((.(((....))).)))))))) ( -28.20)
>DroYak_CAF1 302861 116 + 1
UCCGGAAAGAGUUUGAGAUGUUAAUUCAAGUCAAGUCAAAAAUAUGAAAGUAAUGAUUCCAGUGUUGGUGUGUUUACCAAGUGGCACUAGGUGGCAACUCUGGCGAGGAGCUUGAU
(((.(..(((((((((..((......))..))).((((....(((....)))......((((((((((((....)))))....))))).))))))))))))..)..)))....... ( -26.70)
>consensus
UCCGGAAUGAGUUGAAGAUGCUAAUUCAAGUCAAGUCAAAAAUAUGAAAGUAAUGAUUCCAGUGUUGGUGUGUUUACCAAUUGACACUGGGUGGCAACUCUGGCAAGGAGCUUAAU
.(((((.(((.(((((........))))).))).((((....(((....))).....((((((((..((..........))..))))))))))))...)))))............. (-22.60 = -25.60 +   3.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:20 2006