Locus 3529

Sequence ID 3R_DroMel_CAF1
Location 9,545,106 – 9,545,197
Length 91
Max. P 0.785376
window5673

overview

Window 3

Location 9,545,106 – 9,545,197
Length 91
Sequences 6
Columns 93
Reading direction forward
Mean pairwise identity 83.33
Mean single sequence MFE -25.78
Consensus MFE -17.91
Energy contribution -18.69
Covariance contribution 0.78
Combinations/Pair 1.19
Mean z-score -2.69
Structure conservation index 0.69
SVM decision value 0.57
SVM RNA-class probability 0.785376
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9545106 91 + 27905053
AGCGAAACUCGAUUUUCCAUUCUCUACACUCGAGCGAAAAACGCCCACCACAAUUUAGAUUAGUUGGCG--CUGGGAAAUUGAGUGCUAAGCA
.((...((((((((((((((((.((.......)).)))...((((.((..............)).))))--.))))))))))))).....)). ( -25.54)
>DroSec_CAF1 21843 91 + 1
AGCGAAACUCGAUUUUCCAUUCUCUACACUCGAGCGAAAAACGCCCACCACAAUUUAGAUUAGUUGGCG--CUGGGAAAUUGAGCGCUAAGCA
((((...(((((((((((((((.((.......)).)))...((((.((..............)).))))--.))))))))))))))))..... ( -24.74)
>DroSim_CAF1 21925 90 + 1
-GCGAAACUCGAUUUUCCAUUCUCUACACUCGAGCGAAAAACGCCCACUACAAUUUAGAUUAGUUGGCG--CUGGGAAAUUGAGUGCUAAGCA
-((...((((((((((((((((.((.......)).)))...((((.((((..........)))).))))--.))))))))))))).....)). ( -28.30)
>DroEre_CAF1 21991 90 + 1
AGCAAAACUCGAUUUUCCAUUCUCUACACUCGAG-GAAAAACGCCCACUACAAUUAGGAAAAGUUAGCG--CUGGGAAAUCGGGUGCUAAGCA
.((...((((((((((((((((((.......)))-))....(((..(((............)))..)))--.))))))))))))).....)). ( -26.00)
>DroYak_CAF1 22059 90 + 1
AGCAAAACUCGAUUUUCCAUUCUCUACACUCGGG-GAAAAACGCCCACUACAAUUAAGAUUAGUUGGCG--CUGGGAAAUUGGGUGCGAAGCA
.((...(((((((((((((((((((......)))-)))...((((.((((..........)))).))))--.))))))))))))).....)). ( -30.30)
>DroAna_CAF1 32342 87 + 1
AACAAAACUCCAAUUUCCAUUUACUACACA-GAGCGAAACACGCCCUCCUAAAUCGAGAUUAUAAGGGGCUUUGUGUAAUAGAGUGAU-----
.................(((((..((((((-(((((.....).((((..(((.......)))..))))))))))))))...)))))..----- ( -19.80)
>consensus
AGCAAAACUCGAUUUUCCAUUCUCUACACUCGAGCGAAAAACGCCCACCACAAUUUAGAUUAGUUGGCG__CUGGGAAAUUGAGUGCUAAGCA
.((...((((((((((((((((.((.......)).)))...((((.((..............)).))))...))))))))))))).....)). (-17.91 = -18.69 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:28 2006