Locus 3433

Sequence ID X_DroMel_CAF1
Location 9,173,342 – 9,173,462
Length 120
Max. P 0.874466
window5622

overview

Window 2

Location 9,173,342 – 9,173,462
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 73.15
Mean single sequence MFE -56.38
Consensus MFE -33.68
Energy contribution -34.08
Covariance contribution 0.40
Combinations/Pair 1.14
Mean z-score -1.77
Structure conservation index 0.60
SVM decision value 0.89
SVM RNA-class probability 0.874466
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9173342 120 - 22224390
CGGCACAUCCGCAACAUGCCGCUUUAGCGCAGGCGGCGUACGGUGGCAGCCCACAGAGACGCUUCCUCUCCGAGGGCGAACUGGUGCGCCAGGGUGCUGGAGGAGGCGUUGCCGGCGGAG
.......(((((...(((((((((......))))))))).((((((....)).....((((((((((((.....((((..((((....))))..))))))))))))))))))))))))). ( -60.20)
>DroVir_CAF1 1257 93 - 1
------AGCA---GCA-AU--CGCUAGCGCAGGCUGCCUAUGGCGGCAGCCCACAGCGUCGCUUUCUGUCUGAGGGCGAGCUGGUGCGACAGGGCGCU---------------GGCGGGG
------....---...-.(--(((((((((.(((((((......)))))))..((((.((((((((.....))))))))))))..........)))))---------------))))).. ( -51.90)
>DroSec_CAF1 1218 120 - 1
CGGCACAUCCGCAACACGCCGCUCUGUCGCAGGCUGCAUACGGUGGCAGCCCACAGAGGCGCUUCCUCUCCGAGGGCGAACUGGUGCGCCAGGGUGCCGGAGGAGGCGUUUCCGGCGGAG
((((.............))))((((((((..((((((........))))))....((((((((((((((.....((((..((((....))))..)))))))))))))))))))))))))) ( -62.62)
>DroSim_CAF1 1218 120 - 1
CGGCACAUCCGCAACACGCCGCUCUGGCGCAGGCUGCAUACGGCGGCAGCCCACAGAGGCGCUUCCUCUCCGAGGGCGAACUGGUGCGCCAGGGUGCCGGAGGAGGCGUUGCCGGCGGAG
.......(((((..((((((.(((((((((..(((((.....))))).((((.((((((.....)))))..).))))...((((....)))).)))))))))..)))).))...))))). ( -61.70)
>DroMoj_CAF1 1283 90 - 1
------A------GCA-GU--CGCUGGCGCAGGCUGCUUAUGGCGGCAGUCCGCAGCGUCGCUUCCUGUCUGAGGGCGAGCUGGUGCGGCAGGGCGCU---------------GGCGGUG
------.------...-.(--(((..((((..(((((.....((((....))))(((.(((((..(.....)..))))))))...)))))...)))).---------------.)))).. ( -45.50)
>consensus
CGGCACAUCCGCAACA_GCCGCUCUGGCGCAGGCUGCAUACGGCGGCAGCCCACAGAGGCGCUUCCUCUCCGAGGGCGAACUGGUGCGCCAGGGUGCUGGAGGAGGCGUU_CCGGCGGAG
.....................(((((.((((((((((........))))))..(((...((((..(.....)..))))..))).)))).)))))((((((...........))))))... (-33.68 = -34.08 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:20 2006