Locus 5572

Sequence ID X_DroMel_CAF1
Location 14,403,596 – 14,403,707
Length 111
Max. P 0.773319
window9042

overview

Window 2

Location 14,403,596 – 14,403,707
Length 111
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 82.58
Mean single sequence MFE -28.90
Consensus MFE -22.74
Energy contribution -23.66
Covariance contribution 0.92
Combinations/Pair 1.17
Mean z-score -1.76
Structure conservation index 0.79
SVM decision value 0.54
SVM RNA-class probability 0.773319
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14403596 111 + 22224390
AAGGAAAUGGAGGGAUUUAAAGCACAUCCCCACGGCGGCACUCAACAAAUUAACCUUUAAUGAGCCGCAGAGGAAACAUUUUUGUGGGUUGUGCACUUUUUAGUUGAUUUA
....((((.((..((......(((((..(((((((((((..(((..(((......)))..))))))))...(....).....)))))).))))).....))..)).)))). ( -28.90)
>DroSec_CAF1 113609 111 + 1
AAGGAAAUGGGGGGAAUUAAAGCACAUCCCCACGGCGGCACUCAACAAAUUAACCUUUAAUGAGCCGCAGAGGAAACAUUUUUGUGGGUUGUGCACGUUUUAGUUGAUUUA
.............((((((..(((((..(((((((((((..(((..(((......)))..))))))))...(....).....)))))).)))))((......)))))))). ( -29.40)
>DroEre_CAF1 99012 93 + 1
-----------------CGAAGCGCAGC-CCGCGGCGGCACUCAACAAAUUAACCUUUAAUGAGCCGCAGAGGAAACAUUUUUGUGGGUUGUGCACUUUUUAGCUGAUUUA
-----------------....(((((((-((((((((((..(((..(((......)))..))))))))...(....).....))))))))))))................. ( -33.20)
>DroYak_CAF1 113257 107 + 1
----AAAUGGGGGGAAUUAAAGCACAACCCCACGGCGGCACUCAACAAAUUAACCUUUAAUGAGCCGCAGAGGAAACAUUUUUGUGGGUUGUGCACUUUUUAGUCGAUUUA
----((((.((..(((.....(((((((((.((((((((..(((..(((......)))..))))))))...(....).....))))))))))))....)))..)).)))). ( -32.20)
>DroAna_CAF1 179602 91 + 1
--------------------GUCUCUACCCCUUGGCGGCACUCAACAAAUUAAGCUUUAAUGAGCCGCAGAGGAAACAUUUUUGUGUGUUGUGCACUUUUUAGAUGAUUUA
--------------------(((((((..((((.(((((..(((..(((......)))..)))))))).))))..........((((.....))))....)))).)))... ( -20.80)
>consensus
____AAAUGG_GGGA_UUAAAGCACAACCCCACGGCGGCACUCAACAAAUUAACCUUUAAUGAGCCGCAGAGGAAACAUUUUUGUGGGUUGUGCACUUUUUAGUUGAUUUA
.....................(((((((.((((((((((..(((..(((......)))..))))))))...(....).....))))))))))))................. (-22.74 = -23.66 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:12 2006