Locus 2794

Sequence ID 2R_DroMel_CAF1
Location 9,735,864 – 9,735,968
Length 104
Max. P 0.945809
window4624

overview

Window 4

Location 9,735,864 – 9,735,968
Length 104
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 77.92
Mean single sequence MFE -25.32
Consensus MFE -24.56
Energy contribution -24.38
Covariance contribution -0.19
Combinations/Pair 1.04
Mean z-score -1.11
Structure conservation index 0.97
SVM decision value 1.36
SVM RNA-class probability 0.945809
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9735864 104 + 20766785
UGAGCC---CCCUCUUC-----UUGCUGGCAAUACCAGGAAAAAAAAAGAAAGAAAGAAGGCAGCGCCAAACGGCUUUCGAGUCGCAAUUUGCAGCCGUCUUUGUUGCUUUG
.(((..---..)))...-----((.((((.....)))).))....((((.((.(((((.(((.(((.....(((((....))))).....))).))).))))).)).)))). ( -26.50)
>DroSec_CAF1 4823 83 + 1
------------------------GCUGGCAAUACCAGGAAAA---A--AAAGAAAGAAGGCAGCGCCAAACGGCUUUCGAGUCGCAAUUUGCAGCCGUCUUUGUUGCUUUG
------------------------.((((.....)))).....---.--........(((((((((....((((((..(((((....))))).))))))...))))))))). ( -24.30)
>DroSim_CAF1 4910 86 + 1
------------------------GCUGGCAAUACCAGGAAAAAAAA--AAAGAAAGAAGGCAGCGCCAAACGGCUUUCGAGUCGCAAUUUGCAGCCGUCUUUGUUGCUUUG
------------------------.((((.....)))).........--........(((((((((....((((((..(((((....))))).))))))...))))))))). ( -24.30)
>DroYak_CAF1 4593 100 + 1
UGAGCCAACCCCUCUUCCCCCCUCGCUGGCGAUACCAGGAAAAAA------------AAGGCAGCACCAAACGGCUUUCGAGUCGCAAUUUGCAGCCGUCUUUGUUGCUUUG
.(((.......)))........((.((((.....)))))).....------------(((((((((....((((((..(((((....))))).))))))...))))))))). ( -26.20)
>consensus
________________________GCUGGCAAUACCAGGAAAAAA_A__AAAGAAAGAAGGCAGCGCCAAACGGCUUUCGAGUCGCAAUUUGCAGCCGUCUUUGUUGCUUUG
.........................((((.....))))...................(((((((((....((((((..(((((....))))).))))))...))))))))). (-24.56 = -24.38 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:38 2006