Locus 4685

Sequence ID 3R_DroMel_CAF1
Location 12,337,022 – 12,337,115
Length 93
Max. P 0.910819
window7694

overview

Window 4

Location 12,337,022 – 12,337,115
Length 93
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 82.96
Mean single sequence MFE -32.60
Consensus MFE -20.83
Energy contribution -21.57
Covariance contribution 0.75
Combinations/Pair 1.03
Mean z-score -2.39
Structure conservation index 0.64
SVM decision value 1.07
SVM RNA-class probability 0.910819
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12337022 93 + 27905053
AUAGCAUUAACCUUUGGCAGCUACAUUGUGU--UAAAUCGAAAUCGAUAUGGCAGAGAUGCUGGGC---------------------UGGGUUAUUCCAGUAGCCAGCCAAUUGCA
...(((...........((((....((.(((--((.((((....)))).))))).))..))))(((---------------------(((.((((....))))))))))...))). ( -29.90)
>DroSec_CAF1 5859 95 + 1
AUAGCAUUAACCUUUGCCAGCUACAUUGUGUGUAAAAUCGAAAUCGAUAUGGCAGAGAUGCUGGGC---------------------UGGGUUAUUUCACUAGCCAGCCAAUUGCA
.((((((....((((((((..(((((...)))))..((((....)))).))))))))))))))(((---------------------(((.(((......)))))))))....... ( -32.60)
>DroEre_CAF1 5239 114 + 1
AUAGCAUUAACCUUUGCCAGCUACAUUGUGU--AAAAUCGAAAUCGAUAUGGCAGAGAUGCUGGGUAUUCGACGUCCGCCAAGGGAAUGGGUUAUUUCAGUAGCCAGCCAAUUGCA
...(((.....((((((((..(((.....))--)..((((....)))).))))))))..(((((.((((.((.((...(((......)))...)).)))))).)))))....))). ( -32.40)
>DroYak_CAF1 1340 114 + 1
AUAGCAUUAACCUUUGGCAGCUACAUUGUGU--AAAAUCGAAAUCGAUAUGGCAGAGAAGCUGGGUGUUCGGCGUUGGCCAAGGGAAUGGGUUAUUUCAGUAGCCAGCCAAUUGCA
...(((....(((((((((((....((.(((--...((((....))))...))).))..(((((....)))))))).))))))))....((((((....)))))).......))). ( -35.50)
>consensus
AUAGCAUUAACCUUUGCCAGCUACAUUGUGU__AAAAUCGAAAUCGAUAUGGCAGAGAUGCUGGGC_____________________UGGGUUAUUUCAGUAGCCAGCCAAUUGCA
.((((((....((((((((((......)).......((((....)))).))))))))))))))(((.......................((((((....)))))).)))....... (-20.83 = -21.57 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:25 2006