Locus 3549

Sequence ID 2R_DroMel_CAF1
Location 11,861,686 – 11,861,790
Length 104
Max. P 0.603212
window5776

overview

Window 6

Location 11,861,686 – 11,861,790
Length 104
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 78.74
Mean single sequence MFE -36.07
Consensus MFE -19.57
Energy contribution -19.55
Covariance contribution -0.02
Combinations/Pair 1.33
Mean z-score -1.82
Structure conservation index 0.54
SVM decision value 0.14
SVM RNA-class probability 0.603212
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11861686 104 + 20766785
UUCAGAGUCUUCUGGGGCAGAUCACUGUUCCGGGCUUUACGAUCGAUAAAGCCAACCGUCCGCAGCAGUUCUUCGUCGGAGGAUACGUCCUCGUCGUCCUCAUU
....(((...((((((((((....))))))))))....((((((((..(((..(((.((.....)).))))))..)))(((((....)))))))))).)))... ( -31.60)
>DroPse_CAF1 2208 101 + 1
UUUAGUGUCUUCGGACGCAGCUCGCGUUUCUUGGCCUUGUGAUCGAUAAAGCCAACUGUUUUAAGAAGCUCUUCAUCCGAUGAGGAGCC---AGAGUCCUCGUU
....(((((....))))).((((.......(((((.((((.....)))).)))))............(((((((((...))))))))).---.))))....... ( -31.90)
>DroSim_CAF1 1646 104 + 1
UUCAGAGUCUUCUGGGGCAGAUCACUGUUCCGGGCUUUGCGAUCGAUGAAGCCAACCGUCCGCAGCAGUUCCUCGUCGGAGGAUUCGUCCUCGUCGUCCUCGUU
....(((...((((((((((....))))))))))....(((((((((((.(..(((.((.....)).)))).))))))(((((....)))))))))).)))... ( -32.90)
>DroEre_CAF1 2253 104 + 1
UUUAGAGUCUUCUGGGGCAGAUCACUGCUCCGGGCUUUGCGGUCGAUGAAGCCUACUGUCUGCAGCAGCUCUUCGUCGGAGGAUGCGUCCUCGUCGUCCUCGUU
..((((((((...(((((((....)))))))))))))))....((((((((.((.(((....))).))..))))))))(((((((((....)).)))))))... ( -44.20)
>DroYak_CAF1 2264 104 + 1
UUUAGAGUCUUCUGGGGCAGACUACUGCUCCGGGCUUUGCGAUCGAUGAAGCCUACAGUCUUUAGUAGUUCUUCGUCGGAGGAUGCGUCCUCGUCGUCCUCGUU
..((((((((...(((((((....)))))))))))))))....((((((((.((((........))))..))))))))(((((((((....)).)))))))... ( -43.90)
>DroPer_CAF1 2208 101 + 1
UUUAGUGUCUUCGGACGCAGCUCGCGUUUCUUGGCCUUGUGAUCGAUAAAGCCAACUGUUUUAAGAAGCUCUUCAUCCGAUGAGGAGCC---AGAGUCCUCGUU
....(((((....))))).((((.......(((((.((((.....)))).)))))............(((((((((...))))))))).---.))))....... ( -31.90)
>consensus
UUUAGAGUCUUCUGGGGCAGAUCACUGUUCCGGGCUUUGCGAUCGAUAAAGCCAACUGUCUGCAGCAGCUCUUCGUCGGAGGAUGCGUCCUCGUCGUCCUCGUU
......(((((((((.(.(((..((((((..((((((((.......)))))))).........))))))))).).))))))))).................... (-19.57 = -19.55 +  -0.02)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:12 2006