Locus 227

Sequence ID 2R_DroMel_CAF1
Location 1,563,788 – 1,563,908
Length 120
Max. P 0.938826
window504

overview

Window 4

Location 1,563,788 – 1,563,908
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.23
Mean single sequence MFE -30.34
Consensus MFE -26.82
Energy contribution -27.02
Covariance contribution 0.20
Combinations/Pair 1.06
Mean z-score -1.64
Structure conservation index 0.88
SVM decision value 1.30
SVM RNA-class probability 0.938826
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1563788 120 + 20766785
UCCUGGCCAAAUGGCUGGCGUGGACCACAUGAAAUCAAUUAAAAUAUUUAGCCAACUGCUUCCAGCACAUAAAAAUGCGUUGAGGGGGGAACGUGGACCUGAUAAUAAAAAGUAAUUGAA
..(..(((....)))..)((((.....))))...(((((((......(((((((.((.((..((((.(((....))).))))..)).))....)))..))))..........))))))). ( -29.49)
>DroSec_CAF1 13559 119 + 1
UCCUGGCCAAAUGGCUGGCAUGGACCACAUGAAAUCAAUUAAAAUAUUUGGCCAACUGCUUCCAGCACAUACAAAUGCGUUGAGGG-GGAACGUGGACCUGAUAAUAAAAAGUAAUUGAA
..(..(((....)))..)((((.....))))...(((((((...((((.(((((..(.((((((((.(((....))).)))).)))-).)...))).)).))))........))))))). ( -31.70)
>DroSim_CAF1 15082 118 + 1
UCCUGGCCAAAUGGCUGGCGUGGACCACAUGAAAUCAAUUAAAAUAUUUGGCCAACUGCUUCCAGCACAUA-AAAUGCGUUGAGGG-GGAGCGUGGACCUGAUAAUAAAAAGUAAUUGAA
..(..(((....)))..)((((.....))))...(((((((...((((.(((((.((.((((((((.(((.-..))).)))).)))-).))..))).)).))))........))))))). ( -32.50)
>DroEre_CAF1 13682 119 + 1
UCCUGGCCAAAUGGCUGGCGUGGACCACAUGAAAUCAAUUAAAAUAUUCGGCCAACUGUUUCCAGCACAUAAAAAUGCGUUGAGUG-GGAACGUGGACCUGAUAAUAAAAAGUAAUUGAA
..(..(((....)))..)((((.....))))...(((((((...((((.(((((...(((((((((.(((....))).))....))-))))).))).)).))))........))))))). ( -31.00)
>DroYak_CAF1 19578 119 + 1
UCCUGGCCAAAUGGCUGGCGUCGACCACAUGAAAUCAAUUAAAAUAUUUGGCCAACUGUUUCCAGCACAUAAAAAUGCGUUGAGGG-GGAACGUGGACCUUAUAAUAAAAAGUAAUUGAA
..(..(((....)))..)................(((((((...((((.(((((..(.(..(((((.(((....))).)))).)..-).)...))).))....)))).....))))))). ( -27.00)
>consensus
UCCUGGCCAAAUGGCUGGCGUGGACCACAUGAAAUCAAUUAAAAUAUUUGGCCAACUGCUUCCAGCACAUAAAAAUGCGUUGAGGG_GGAACGUGGACCUGAUAAUAAAAAGUAAUUGAA
..(..(((....)))..)((((.....))))...(((((((...((((.(((((.((.((..((((.(((....))).))))..)).))....))).))....)))).....))))))). (-26.82 = -27.02 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:00 2006