Locus 1489

Sequence ID 3R_DroMel_CAF1
Location 4,298,883 – 4,298,978
Length 95
Max. P 0.790644
window2473

overview

Window 3

Location 4,298,883 – 4,298,978
Length 95
Sequences 5
Columns 102
Reading direction reverse
Mean pairwise identity 93.05
Mean single sequence MFE -37.86
Consensus MFE -31.24
Energy contribution -31.04
Covariance contribution -0.20
Combinations/Pair 1.07
Mean z-score -1.55
Structure conservation index 0.83
SVM decision value 0.59
SVM RNA-class probability 0.790644
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4298883 95 - 27905053
AGGAGGAGG-------CCAGCGGCCCAAAGAGGCUUUAAUUGAGCGACUCCGCCCCGCCUUCAAUGAGAUGGAGGUGUGCUGUCCAAAUGGUUUCUUCCGCG
.((((((((-------((((((((.....(((((((.....))))..))).....((((((((......)))))))).))))).....)))))))))))... ( -37.00)
>DroSec_CAF1 100085 95 - 1
AGGAGGUGG-------CCAGCGGCCCAAAGAGGCUUUAAUUGAGCGACUCCGCCCCGCCUCCAAGGAGUUGGAGGUGUGCUGUCCAAAUGGUUUCUUCCGCG
.(((((..(-------((((((((.....(((((((.....))))..))).....(((((((((....))))))))).))))).....))))..)))))... ( -36.90)
>DroSim_CAF1 100707 95 - 1
AGGAGGUGG-------CCAGCGGCCCAAAGAGGCUUUAAUUGAGCGACUCCGCCCCGCCUCCAAGGAGAUGGAGGUGUGCUGUCCAAAUGGUUUCUUCCGCG
.(((((..(-------((((((((.....(((((((.....))))..)))(((((((.(((....))).))).)))).))))).....))))..)))))... ( -36.40)
>DroEre_CAF1 103382 95 - 1
AGGAGGAGG-------CCAGCGGCCCAAAGAAGCUUUAAUUGAGCGACUCCGCCCCGCCUCCAAGAAGAUGGAGGUGUGCUGUCCAAAUGGUUUCUUCCGCG
.((((((((-------(((((((.....((..((((.....))))..))))))..((((((((......))))))))...........)))))))))))... ( -40.50)
>DroYak_CAF1 103575 102 - 1
AGGAGGCGGCCAGUGGCCAGCGGCCCAAAGAAGCUUUAAUUAAGCGACUCCGCCCCGCCUUCAAGGAGAUGGAGGUGUGCUGUCCAAAUGGUUUCUACCGCG
.((.((..((((.(((.(((((((....((..((((.....))))..))..))).((((((((......)))))))).)))).)))..))))..)).))... ( -38.50)
>consensus
AGGAGGAGG_______CCAGCGGCCCAAAGAGGCUUUAAUUGAGCGACUCCGCCCCGCCUCCAAGGAGAUGGAGGUGUGCUGUCCAAAUGGUUUCUUCCGCG
.(((((...........(((((((....((..((((.....))))..))..))).((((((((......)))))))).)))).((....))...)))))... (-31.24 = -31.04 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:50 2006