Locus 6445

Sequence ID 3L_DroMel_CAF1
Location 17,225,031 – 17,225,151
Length 120
Max. P 0.994442
window10347

overview

Window 7

Location 17,225,031 – 17,225,151
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.97
Mean single sequence MFE -42.04
Consensus MFE -40.16
Energy contribution -40.04
Covariance contribution -0.12
Combinations/Pair 1.05
Mean z-score -1.70
Structure conservation index 0.96
SVM decision value 2.48
SVM RNA-class probability 0.994442
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17225031 120 - 23771897
GGGCCACCUGUGAGUGAAUUGUAACAAAACGUUUUCCCCAUUUUUCUCGCCUCGUGCUGCUCGCACAUUGUCAGCGCUUUGUGCUCUAAAUGUGUGGAAAGGUGGGCGUGGCCGCAGUCC
.((((((........(((.(((......)))..)))((((((((((..((.....))....((((((((...(((((...)))))...)))))))))))))))))).))))))....... ( -40.50)
>DroSec_CAF1 108477 120 - 1
GGGCCACCUGUGAGUGAAUUGUAACAAAACGUUUUCCCCAUUUUUCCCGCCUCCUGCUGCUCGCACAUUGUCAGCGCUUUGUGCUCUAAAUGUGUGGAAAGGUGGGCGUGGCCGCAGUCC
.((((((........(((.(((......)))..)))(((((((((((.((.....)).....(((((((...(((((...)))))...)))))))))))))))))).))))))....... ( -41.10)
>DroSim_CAF1 102198 119 - 1
GGGCCACCUGUGAGUGAAUUGUAACAAAACGUUUUCCCCAUUUUUCCCGCCUCCUGCUGCUCGCACAUUGUCAGCGCUUUGUGCUCUAAAUGUGUGGAAAGGUGGGCGUGGCCGCAGU-C
.((((((........(((.(((......)))..)))(((((((((((.((.....)).....(((((((...(((((...)))))...)))))))))))))))))).)))))).....-. ( -41.10)
>DroEre_CAF1 112245 114 - 1
GGGCCACCUGUGAGUGAAUUGUAACAAAACGUUUUCCCCAUUUUUCCCGCC------UGCUCGCACAUUGUCAGCGCUUUGUGCUCUAAAUGUGUGGAAAGGUGGGCGUGGCCGUAGUCC
.((((((..(((.(.(((.(((......)))..)))).)))....((((((------(..(((((((((...(((((...)))))...)))))))))..))))))).))))))....... ( -44.30)
>DroYak_CAF1 114960 114 - 1
GGGCCACCUGUGAGUGAAUUGUAACAAAACGUUUUCCCCACUUUUCCCGCC------UGCUCGCACAUUGUCAGCGCUUUGUGCUCUAAAUGUGUGGAAAGGUGGGCGUGGCAGUAGUCC
..(((((..(((.(.(((.(((......)))..)))).)))....((((((------(..(((((((((...(((((...)))))...)))))))))..))))))).)))))........ ( -43.20)
>consensus
GGGCCACCUGUGAGUGAAUUGUAACAAAACGUUUUCCCCAUUUUUCCCGCCUC_UGCUGCUCGCACAUUGUCAGCGCUUUGUGCUCUAAAUGUGUGGAAAGGUGGGCGUGGCCGCAGUCC
.((((((........(((.(((......)))..)))(((((((((((.((........))..(((((((...(((((...)))))...)))))))))))))))))).))))))....... (-40.16 = -40.04 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:02 2006