Locus 4447

Sequence ID 2R_DroMel_CAF1
Location 14,622,466 – 14,622,586
Length 120
Max. P 0.846866
window7105 window7106

overview

Window 5

Location 14,622,466 – 14,622,586
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 93.33
Mean single sequence MFE -26.95
Consensus MFE -23.93
Energy contribution -23.16
Covariance contribution -0.77
Combinations/Pair 1.10
Mean z-score -2.28
Structure conservation index 0.89
SVM decision value 0.77
SVM RNA-class probability 0.846866
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14622466 120 + 20766785
CUCUUUAAGGGAUUCUACUAAAUCACGUAGAAGCGAGCUGGCUUUAAGUACAAGAAGAGAUAUAAAAGAGAUUUAGUAGAAGCUUUUACUUUAAAAUAAUAAGCAGGUUACUCAAAAGGG
((((((..(((.((((((((((((((...(((((......)))))..)).(.....)............))))))))))))((((...............))))......))).)))))) ( -24.76)
>DroSec_CAF1 261327 120 + 1
CUCUUUAAGGGAGUCCACUAAAUCAUAUAGAAGUGAGCUGGCUUUAAGUACAAGAAAAUAUAUGAAAGAGAUUUAGUGGAAGCUUUUACUUUUAAAGAAUAAGCAGGUUACUUAAAAGGG
.....((((((..((((((((((((((((....((.(((.......))).))......)))))))......)))))))))..))))))(((((((..(((......)))..))))))).. ( -28.30)
>DroSim_CAF1 258223 120 + 1
CUCUUUAAGGGAUUCCACUAAAUCAUAUAGAAGUGAGCUGGCUUUAAGUACAAGAAAAUAUAUGAAAGAGAUUUAGUGGAAGCUUUUACUUUUAAAGAAUAAGCAGGUUACUUAAAAGGG
((((((.(((..(((((((((((((((((....((.(((.......))).))......)))))))......))))))))))((((...((.....))...))))......))).)))))) ( -27.80)
>consensus
CUCUUUAAGGGAUUCCACUAAAUCAUAUAGAAGUGAGCUGGCUUUAAGUACAAGAAAAUAUAUGAAAGAGAUUUAGUGGAAGCUUUUACUUUUAAAGAAUAAGCAGGUUACUUAAAAGGG
((((((.(((...(((((((((((.(((....))).(((.......)))....................))))))))))).((((...............))))......))).)))))) (-23.93 = -23.16 +  -0.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 14,622,466 – 14,622,586
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 93.33
Mean single sequence MFE -21.40
Consensus MFE -17.88
Energy contribution -17.22
Covariance contribution -0.66
Combinations/Pair 1.08
Mean z-score -2.60
Structure conservation index 0.84
SVM decision value 0.69
SVM RNA-class probability 0.823290
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14622466 120 - 20766785
CCCUUUUGAGUAACCUGCUUAUUAUUUUAAAGUAAAAGCUUCUACUAAAUCUCUUUUAUAUCUCUUCUUGUACUUAAAGCCAGCUCGCUUCUACGUGAUUUAGUAGAAUCCCUUAAAGAG
...(((((((......((((.(((((....)))))))))((((((((((((.(...((((........))))....((((......))))....).))))))))))))...))))))).. ( -23.30)
>DroSec_CAF1 261327 120 - 1
CCCUUUUAAGUAACCUGCUUAUUCUUUAAAAGUAAAAGCUUCCACUAAAUCUCUUUCAUAUAUUUUCUUGUACUUAAAGCCAGCUCACUUCUAUAUGAUUUAGUGGACUCCCUUAAAGAG
......(((((.....))))).(((((((.(((....)))(((((((((((.......((((......)))).....((....))...........))))))))))).....))))))). ( -20.20)
>DroSim_CAF1 258223 120 - 1
CCCUUUUAAGUAACCUGCUUAUUCUUUAAAAGUAAAAGCUUCCACUAAAUCUCUUUCAUAUAUUUUCUUGUACUUAAAGCCAGCUCACUUCUAUAUGAUUUAGUGGAAUCCCUUAAAGAG
...(((((((......((((...((.....))...))))((((((((((((.......((((......)))).....((....))...........))))))))))))...))))))).. ( -20.70)
>consensus
CCCUUUUAAGUAACCUGCUUAUUCUUUAAAAGUAAAAGCUUCCACUAAAUCUCUUUCAUAUAUUUUCUUGUACUUAAAGCCAGCUCACUUCUAUAUGAUUUAGUGGAAUCCCUUAAAGAG
...(((((((......((((...............)))).(((((((((((...............((.((.......)).)).............)))))))))))....))))))).. (-17.88 = -17.22 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:50 2006