Locus 3663

Sequence ID 2L_DroMel_CAF1
Location 10,650,434 – 10,650,536
Length 102
Max. P 0.961356
window5782

overview

Window 2

Location 10,650,434 – 10,650,536
Length 102
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 88.47
Mean single sequence MFE -36.82
Consensus MFE -27.38
Energy contribution -28.52
Covariance contribution 1.14
Combinations/Pair 1.16
Mean z-score -4.40
Structure conservation index 0.74
SVM decision value 1.53
SVM RNA-class probability 0.961356
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10650434 102 + 22407834
UAAAUUGCUCACGUGUGUGACACAUUUCUUUCGGCG---GA-GUCAC---GACAAUGGCGACAAGCGGAAGCGGAAACGCGAAAUGUGAAAAAUGCGCAGAGCAAACAA-
....((((((..((((((..((((((((.(((.(((---..-((((.---.....))))..)..)).)))(((....)))))))))))....)))))).))))))....- ( -38.60)
>DroVir_CAF1 14329 96 + 1
UAAAUUGCUCACGUGUGUGACACAAUUU---GGGAGCAC-GGGCAGC---GACAAUGA-------CGGAAGCGGAAGCGAGAAAUGUGAAAAAUGCGCACGCUGAACAAA
.....(((((...((((...))))....---..))))).-(..((((---(.......-------.....((....))......((((.......)))))))))..)... ( -26.00)
>DroSec_CAF1 3555 102 + 1
UAAAUUGCUCACGUGUGUGACACAUUUCUUUCGGCG---GA-GUCAC---GACAAUGGCGACAAGCGGAAGCGGAAACGCGAAAUGUGAAAAAUGCGCAGAGCAAACAA-
....((((((..((((((..((((((((.(((.(((---..-((((.---.....))))..)..)).)))(((....)))))))))))....)))))).))))))....- ( -38.60)
>DroSim_CAF1 3530 102 + 1
UAAAUUGCUCACGUGUGUGACACAUUUCUUUCGGCG---GA-GUCAC---GACAAUGGCGACAAGCGGAAGCGGAAACGCGAAAUGUGAAAAAUGCGCAGAGCAAACAA-
....((((((..((((((..((((((((.(((.(((---..-((((.---.....))))..)..)).)))(((....)))))))))))....)))))).))))))....- ( -38.60)
>DroEre_CAF1 5891 105 + 1
UAAAUUGCUCACGUGUGUGACACAUUUCUUUCGGCG---GA-GUCACAGCGACAAUGGCGAAAAGCGGAAGCGGAAACGCGAAAUGUGAAAAAUGCGCAGAGCAAACAA-
....((((((..((((((..(((((((((((((.((---..-(((.....)))..)).))))).......(((....)))))))))))....)))))).))))))....- ( -40.50)
>DroYak_CAF1 4202 102 + 1
UAAAUUGCUCACGUGUGUGACACAUUUCUUUCGGCG---GA-GUCAC---GACAAUGGCGAAAAGCGGAAGCGGAAACGCGAAAUGUGAAAAAUGCGCAGAGCAAACAA-
....((((((..((((((..((((((((.(((.((.---..-((((.---.....)))).....)).)))(((....)))))))))))....)))))).))))))....- ( -38.60)
>consensus
UAAAUUGCUCACGUGUGUGACACAUUUCUUUCGGCG___GA_GUCAC___GACAAUGGCGACAAGCGGAAGCGGAAACGCGAAAUGUGAAAAAUGCGCAGAGCAAACAA_
....((((((..((((((..((((((((.(((.((.......((((.........)))).....)).)))(((....)))))))))))....)))))).))))))..... (-27.38 = -28.52 +   1.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:08 2006