Locus 4011

Sequence ID 3R_DroMel_CAF1
Location 10,935,531 – 10,935,640
Length 109
Max. P 0.680969
window6428

overview

Window 8

Location 10,935,531 – 10,935,640
Length 109
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 73.05
Mean single sequence MFE -19.61
Consensus MFE -2.65
Energy contribution -2.33
Covariance contribution -0.32
Combinations/Pair 1.62
Mean z-score -1.58
Structure conservation index 0.14
SVM decision value 0.31
SVM RNA-class probability 0.680969
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10935531 109 + 27905053
AAGCUUCAAACUUUUUAAUCGUUGUUUAGGUACAAUA----AACACUUUUUGUGCUGCUAAUCAACUACUUUUUUGUUACCCCAAUUGAAUAGCUCCUGGUUGUUUUCCAUAC
.((((((((...........((((.((((((((((..----........))))))..)))).)))).......(((......)))))))..))))..(((.......)))... ( -15.70)
>DroSec_CAF1 4979 94 + 1
AAGCUUCAAACUUUUUGAUGGAUGUUUAGGUAUAAUA----AACACUU---------------AGCUACUUUUUUGUUACCCCAAUUGAAUAGCUCCUGCUUGUAUCCCAUAC
((((.((((.....)))).(((((((((.......))----))))...---------------.((((.((..(((......)))..)).))))))).))))........... ( -14.60)
>DroSim_CAF1 12434 94 + 1
AAGCUUCAAACUUUUUGAUGGAUGCUUAGGUAUAAUA----AACACUU---------------AGCUACUUUUUUGUUACCCCAAUUGAAUAGCUUCUGCUUGUAUCCCAUAC
.....((((.....)))).((((((.(((((......----...))))---------------)((((.((..(((......)))..)).))))........))))))..... ( -14.30)
>DroEre_CAF1 4997 102 + 1
AAGUUUCAAACUAUUUAAAGGAUGUGUAGGUACAACA----ACCAUCU----UG-UGGUAAGUAGCUACAUU--GCUUUCCCCAAUUGAAUAGCUCCUGGUUGUAACCUACAC
.......................((((((((...(((----((((...----((-((((.....))))))..--((((((.......))).)))...))))))).)))))))) ( -26.80)
>DroYak_CAF1 12745 107 + 1
UAGUUUCAAACUAUCCAAAGGAUGUGUAGGUGCAGCAAAUAACUUUUU----UG-UGCCAUUUAGUUACUUUC-UCUUUCCCCAAUUGAAUAGCUCCUGGCUGCAUCCUACAC
............((((...))))(((((((((((((.....((.....----.)-)((.((((((((......-.........)))))))).)).....)))))).))))))) ( -26.66)
>consensus
AAGCUUCAAACUUUUUAAUGGAUGUUUAGGUACAAUA____AACACUU____UG_UG__A___AGCUACUUUUUUGUUACCCCAAUUGAAUAGCUCCUGGUUGUAUCCCAUAC
............................((((((((...............................................................))))))))...... ( -2.65 =  -2.33 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:48 2006