Locus 3420

Sequence ID 3R_DroMel_CAF1
Location 9,296,408 – 9,296,505
Length 97
Max. P 0.914150
window5487

overview

Window 7

Location 9,296,408 – 9,296,505
Length 97
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 78.75
Mean single sequence MFE -25.12
Consensus MFE -12.95
Energy contribution -14.40
Covariance contribution 1.45
Combinations/Pair 1.15
Mean z-score -2.50
Structure conservation index 0.52
SVM decision value 1.09
SVM RNA-class probability 0.914150
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9296408 97 - 27905053
GCCACAAAGAAAAACGCCCAUUUUUCCUGUAGGGUAAUAUAUA----UGCCC-GGCAUAUGCGAGUUUCCUUAUGUUUAUUUGCAUAAGUAGCUCAACUCGC
((((((..((((((......)))))).))).(((((.......----)))))-)))....(((((((..(((((((......)))))))......))))))) ( -28.40)
>DroPse_CAF1 66007 91 - 1
----CCA--UGAAACGCCCA-----CCAGCAUGUACAUACAUAUGUACACACUUAGGUAUGUGUGUACCCUUAUGUUUAUUUGCAUAAGUAGCUCAGCUCGC
----...--......((...-----..(((..((((((((((((.((......)).)))))))))))).(((((((......)))))))..)))..)).... ( -25.20)
>DroSec_CAF1 67641 97 - 1
----CAAAGAAAAACGCCCAUUUUUCCGGGAGGGUAAUAUAUAUGUAUGCCC-GGCAUAUGCGAGUUUCCUUAUGUUUAUUUGCAUAAGUAGCUCAACUCGC
----....((((((......))))))((((.(((((.(((....))))))))-.((....))(((((..(((((((......))))))).)))))..)))). ( -25.70)
>DroSim_CAF1 68903 97 - 1
----CAAAGAAAAACGCCCAUUUUUCCGGGAGGGUAAUAUAUAUGUAUGCCC-GGCAUAUGCGAGUUUCCUUAUGUUUAUUUGCAUAAGUAGCUCAACUCGC
----....((((((......))))))((((.(((((.(((....))))))))-.((....))(((((..(((((((......))))))).)))))..)))). ( -25.70)
>DroYak_CAF1 68380 92 - 1
----AA-AGAAAAACGCCCAUUUUUCCGGGAGGAUAAUAUAUA----UGCCC-GGCAUAUGCGAGUUUCCUUAUGUUUAUUUGCAUAAGUAGCUCAACUCGC
----..-.((((((......))))))((((.........((((----(((..-.))))))).(((((..(((((((......))))))).)))))..)))). ( -22.50)
>DroPer_CAF1 69006 91 - 1
----CCA--AGAAACGCCCA-----CCAACAUGUACAUACAUAUGUACACACUUAGGUAUGUGUGUACCCUUAUGUUUAUUUGCAUAAGUAGCUCAGCUCGC
----...--......((...-----.......((((((((((((.((......)).)))))))))))).(((((((......)))))))..))......... ( -23.20)
>consensus
____CAAAGAAAAACGCCCAUUUUUCCGGGAGGGUAAUAUAUAUGUAUGCCC_GGCAUAUGCGAGUUUCCUUAUGUUUAUUUGCAUAAGUAGCUCAACUCGC
............................................((((((....))))))(((((((..(((((((......)))))))......))))))) (-12.95 = -14.40 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:32 2006