Locus 1423

Sequence ID 2R_DroMel_CAF1
Location 5,488,098 – 5,488,209
Length 111
Max. P 0.717401
window2433

overview

Window 3

Location 5,488,098 – 5,488,209
Length 111
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 90.84
Mean single sequence MFE -39.80
Consensus MFE -27.64
Energy contribution -28.72
Covariance contribution 1.08
Combinations/Pair 1.06
Mean z-score -2.63
Structure conservation index 0.69
SVM decision value 0.39
SVM RNA-class probability 0.717401
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5488098 111 + 20766785
UUGCCAUUCAUACAUCC--CCUCACAUUUUAUGGCCAUUUGAGU--GCGGGGUGCACAGUUCUGUCUUAAGUGGCGGAUGGAAACCACCACAUUUACUCGAGGGAUGAUGUGCUC
..........(((((((--((((..........((((((((((.--((((..(.....)..))))))))))))))((.(((...)))))..........)))))..))))))... ( -38.00)
>DroSec_CAF1 6834 115 + 1
UUGCCAUUCAUACAUCCCCCCUCACAUUUUAUGGCCAUUUGAGUGUGCGGGGUGCAAAGUUCUGUCUUAAGUGGCGGCUGGAAACCACCACAUUUACUCGAGGGAUGAUGUGCUC
..........((((((..(((((..........((((((((((...((((..(.....)..))))))))))))))((..(....)..))..........)))))..))))))... ( -38.80)
>DroSim_CAF1 6841 112 + 1
UUGCCAUUCAUACAUCCC-CCUCACAUUUUAUGGCCAUUUGAGU--GCGGGGUGCAAAGUUCUGUCUUAAGUGGCGGAUGGAAACCACCACAUUUACUCGAGGGAUGAUGUGCUC
..........((((((.(-((((..........((((((((((.--((((..(.....)..))))))))))))))((.(((...)))))..........)))))..))))))... ( -38.60)
>DroEre_CAF1 6819 106 + 1
UUGCCA----UACAUCC--CCAGGCAUUUUAUGGCCAUUUGAGU--GCGGGGUGCGCAGUUCUG-CUUAAGUGGCGGAUGGAAACCACCACAUUUAUUCGAGGGAUGAUGUGCUC
..((((----(.(((((--((.(((........)))...(((((--(.(((((...(...((((-((.....))))))..)..))).)).))))))...).))))))))).)).. ( -39.40)
>DroYak_CAF1 6807 107 + 1
UUGCCA----UACAUCC--CCAGACAUUUUAUGGCCAUUUGAGU--GCGGGGUGCGCAGCUCUGGCUCAAGUGGAGGAUGGAAACCACCACAUUUAUUCGGGGGAUGAUGUGCUC
..((((----(.(((((--((.((.((...(((.((((((((((--.((((((.....)))))))))))))))).((.(((...))))).)))..)))).)))))))))).)).. ( -44.20)
>consensus
UUGCCAUUCAUACAUCC__CCUCACAUUUUAUGGCCAUUUGAGU__GCGGGGUGCACAGUUCUGUCUUAAGUGGCGGAUGGAAACCACCACAUUUACUCGAGGGAUGAUGUGCUC
..........((((((...((((.......(((((((((((((...((((((.......))))))))))))))))((.(((...))))).)))......))))...))))))... (-27.64 = -28.72 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:27 2006