Locus 1990

Sequence ID X_DroMel_CAF1
Location 5,470,532 – 5,470,635
Length 103
Max. P 0.879562
window3243

overview

Window 3

Location 5,470,532 – 5,470,635
Length 103
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 66.58
Mean single sequence MFE -32.52
Consensus MFE -21.38
Energy contribution -19.30
Covariance contribution -2.08
Combinations/Pair 1.50
Mean z-score -1.42
Structure conservation index 0.66
SVM decision value 0.91
SVM RNA-class probability 0.879562
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5470532 103 - 22224390
-------------AACUAAGUAACUACUGACUACU--AACUAAAG--UCGAUCAAAAGGUUGGACUAGCCACAUUCAGGUUGACCUGAAAGCUGGCCCAGCGAUAGUCGCGGCUAUCCGC
-------------..............(((((...--......))--)))........(((((.(((((....((((((....)))))).))))).)))))((((((....))))))... ( -30.70)
>DroPse_CAF1 8435 118 - 1
GAUAUAUAUUAGGCACUAUACAUACAUUGGCUAUC--AGCUAAUCCUCGGAUCAGAAGGUCUGGGCGGCCACAUUUAGAUUCACUUGGACGGUAGCCCAGCGAUAGUCGCGGCUGUCGGG
...........(((...........((((((....--.))))))(((((((((....)))))))).))))...................((..((((..(((.....)))))))..)).. ( -34.10)
>DroSec_CAF1 10287 96 - 1
-------------AACUAAAUAACUACUGAC---------UAAAA--UCAAUCAAAAGGCUGGACUAGCCACAUUCAGGUUGACCUGGAAGCUGGCCCAGCGGUAGUCGCGGCUAUCCGC
-------------.........((((((((.---------.....--)).........(((((.(((((....((((((....)))))).))))).))))))))))).((((....)))) ( -32.20)
>DroYak_CAF1 9258 100 - 1
-------------AACUA-GUAACUAC-AAUUACUCGACCUACGG-----GCUAAAAGGCUGGACUGGCCACAUUCAGAUUGAUCUGGAAGCUGGCCCAGCGGUAGUCGCGGCUAUCCGG
-------------.....-(..(((((-........(.((....)-----))......(((((.(..((....((((((....)))))).))..).))))).)))))..)((....)).. ( -31.50)
>DroPer_CAF1 8497 118 - 1
GAUAUAUAUUAGGCACUAUACAUACAUUGGCUAUC--AGCUAAUCCUCGGAUCAAAAGGUCUGGGCGGCCACAUUUAGAUUCACUUGGACGGUAGCCCAGCGAUAGUCGCGGCUGUCGGG
...........(((...........((((((....--.))))))(((((((((....)))))))).))))...................((..((((..(((.....)))))))..)).. ( -34.10)
>consensus
_____________AACUAAAUAACUACUGACUACC__AGCUAAAC__CCGAUCAAAAGGUUGGACUGGCCACAUUCAGAUUGACCUGGAAGCUGGCCCAGCGAUAGUCGCGGCUAUCCGG
............................................................((((.(((((...((((((....))))))..........(((.....)))))))))))). (-21.38 = -19.30 +  -2.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:40 2006