Locus 1309

Sequence ID 3L_DroMel_CAF1
Location 3,806,097 – 3,806,205
Length 108
Max. P 0.999071
window2049

overview

Window 9

Location 3,806,097 – 3,806,205
Length 108
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 94.88
Mean single sequence MFE -35.76
Consensus MFE -32.40
Energy contribution -32.56
Covariance contribution 0.16
Combinations/Pair 1.03
Mean z-score -2.25
Structure conservation index 0.91
SVM decision value 3.36
SVM RNA-class probability 0.999071
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3806097 108 + 23771897
A--GUCACCGGGGGGAAUGCAGGUAUUAUAGAAUUUAAAUUGAAUUUCCAGCAGGAAAUCAGUGCAGUUGCAUCUGCAUAUCUCUGCCCUGUGGGCCAACUAAACUGGGC
.--....(((((((((((((((((..............(((((.(((((....))))))))))((....)))))))))).)))))((((...))))........)))).. ( -35.30)
>DroSec_CAF1 5982 110 + 1
AGAGUCUCCGGGGGGAAUGCAGGUAUUACAGAAUUUAAAUUGAAUUUCCAGCAGGAAAUCAGUGCAGUUGCAUCUGCAUAUCUCUGCCCUGUGGGCCAACUAAACUGGGC
......((((((((((((((((((..............(((((.(((((....))))))))))((....)))))))))).)))))((((...))))........))))). ( -35.10)
>DroSim_CAF1 5922 110 + 1
AGAGUCACCGGGGGGAAUGCAGGUAUUACAGAAUUUAAAUUGAAUUUCCAGCAGGAAAUCAGUGCAGUUGCAUCUGCAUAUCUCUGCCCUGUGGGCCAACUAAACUGGGC
.......(((((((((((((((((..............(((((.(((((....))))))))))((....)))))))))).)))))((((...))))........)))).. ( -35.30)
>DroEre_CAF1 6345 108 + 1
A--UUCACCGGGGGGAAUGCAGGUGUUACAAAAUUUAAAUUGAAUUUCCAGCAGGAAAUCGGUGCAGUUGCAUCUGCAUAUCUCUGCCCUGUGGGCCAACUAAACUGGGC
.--....(((((((((((((((((((.....((((...(((((.(((((....))))))))))..)))))))))))))).)))))((((...))))........)))).. ( -36.70)
>DroYak_CAF1 6449 108 + 1
A--GUCACGGGGGGGAUUGCAGGUAUUACAACAUUUAAAUUGAAUUUCCAGCAGGAAAUCGGUGCAGUUGCAUCUGCAUAUCUCUGCCCUGUGGACCAACUAAACUGGGC
.--.((((((((.(((.(((((((....((((......(((((.(((((....))))))))))...)))).)))))))....))).)))))))).(((.......))).. ( -36.40)
>consensus
A__GUCACCGGGGGGAAUGCAGGUAUUACAGAAUUUAAAUUGAAUUUCCAGCAGGAAAUCAGUGCAGUUGCAUCUGCAUAUCUCUGCCCUGUGGGCCAACUAAACUGGGC
....((((.(((.(((((((((((..............(((((.(((((....))))))))))((....))))))))))...))).))).)))).(((.......))).. (-32.40 = -32.56 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:30 2006