Locus 4262

Sequence ID X_DroMel_CAF1
Location 11,197,718 – 11,197,812
Length 94
Max. P 0.770553
window7004

overview

Window 4

Location 11,197,718 – 11,197,812
Length 94
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 75.22
Mean single sequence MFE -44.18
Consensus MFE -22.86
Energy contribution -22.50
Covariance contribution -0.36
Combinations/Pair 1.19
Mean z-score -1.84
Structure conservation index 0.52
SVM decision value 0.53
SVM RNA-class probability 0.770553
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11197718 94 - 22224390
GCUGGAAGUCAGAUUGCC-AGC-----GCUGGUCGCGCUGGCAUUGGCAUUGACAUUUUUCGCCUUCGGUGGACGUCCACGUCCACGCUUGACGGGCGGC
.......(((((..((((-(((-----((.....))))))))))))))...........((((((((((((((((....)))))))...))).)))))). ( -43.50)
>DroPse_CAF1 4566 97 - 1
ACUGGAGGCGAGCUUGGGCUGGGGCGUGCUGGUGGCGGCAGCCGCUGCU---GCGUUCGCCGAUUUGGGUGGACGUCCACGUCCACGCUUCACUGGCGGC
.(..(.(((((((...(((.(.(((.(((((....)))))))).).)))---..)))))))((...(.(((((((....))))))).).)).)..).... ( -47.20)
>DroSec_CAF1 6251 94 - 1
GGUGGAAGUCAGAUUGCC-GGC-----ACUGGUCGCGCUGGCAUUGGCAUUGACAUUUUUCGCCUUCGGUGGACGUCCACGUCCACGCUUGACGGGCGGC
.((.((.(((((..((((-(((-----.(.....).)))))))))))).)).)).....((((((((((((((((....)))))))...))).)))))). ( -40.00)
>DroSim_CAF1 7280 94 - 1
GUUGGAAGUCAGAUUGCC-GGC-----GCUGGUCGCGCUGGCAUUGGCAUUGACAUUUUUCGCCUUCGGUGGACGUCCACGUCCACGCUUGACGGGCGGC
((..(..(((((..((((-(((-----((.....)))))))))))))).)..)).....((((((((((((((((....)))))))...))).)))))). ( -44.50)
>DroYak_CAF1 7403 85 - 1
---GGAAGUCAGAUUGCC-GGC-----GCUGGUCGCGUUGGCAUUGGCAU------AGCUCGCCUUCGGUGGACGUCCACGUCCACGCUUGACGGGCGGC
---....(((((..((((-(((-----((.....))))))))))))))..------.((.(((((((((((((((....)))))))...))).))))))) ( -41.70)
>DroPer_CAF1 4443 97 - 1
ACUAGAGGCGAGCUUGGGCUGGGGCGUGCUGGUGGCGGCAGCCGCUGCU---GCGUUCGCCGAUUUGGGUGGACGUCCACGUCCACGCUUCACUGGCGGC
.((((.(((((((...(((.(.(((.(((((....)))))))).).)))---..)))))))((...(.(((((((....))))))).).)).)))).... ( -48.20)
>consensus
GCUGGAAGUCAGAUUGCC_GGC_____GCUGGUCGCGCUGGCAUUGGCAU__ACAUUUUUCGCCUUCGGUGGACGUCCACGUCCACGCUUGACGGGCGGC
...........................((((.(((..(.(((...(((.............)))....(((((((....)))))))))).).))).)))) (-22.86 = -22.50 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:35 2006