Locus 6075

Sequence ID 3L_DroMel_CAF1
Location 16,155,448 – 16,155,608
Length 160
Max. P 0.973478
window9751 window9752

overview

Window 1

Location 16,155,448 – 16,155,568
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 89.58
Mean single sequence MFE -38.04
Consensus MFE -32.19
Energy contribution -32.44
Covariance contribution 0.25
Combinations/Pair 1.10
Mean z-score -1.60
Structure conservation index 0.85
SVM decision value 0.41
SVM RNA-class probability 0.726713
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16155448 120 + 23771897
GCGAGUGGCAAGCGGAUCGGCCGGACUCUCUGACCCGUCUGCGAUUGCGAAUCCAGCUGUGGGACUGUACUUGGAUAAAUAAGAACUAAAGUACAUACUUUAGCAGCAAGAAAGAUAAUU
((((.(.(((.((((((.((.(((.....))).)).))))))...))).).))..((((.((...(((((((................)))))))..)).)))).))............. ( -32.99)
>DroSec_CAF1 12793 120 + 1
GCGAGUGGCAAGCGGAUCGGCCGGACUCGCUGACCCGUCUGCGAUUGCAGAUCCAGCUGUGGGACUGUACUUGGAUAAAUAAGAACUAAAGUACAUACUAAAGCAGCAAGAAAGAUAAUU
((.(((.(((..(((.(((((.......))))).)))..))).))))).......(((((.((..(((((((................)))))))..))...)))))............. ( -36.99)
>DroSim_CAF1 14162 120 + 1
GCGAGUGGCAAGCGGAUCGGCCGGACUCGCUGACCCGUCGGCGAUUGCGGAUCCAGCUGUGGGACUGUACUUGGAUAAAUAAGAACUAAAGUACAUACUUAAGCAGCAAGAAAGAUAAUU
((.....))....(((((.((.....(((((((....)))))))..)).))))).(((((.((..(((((((................)))))))..))...)))))............. ( -36.59)
>DroEre_CAF1 12471 116 + 1
GCGAGUGGCAAGCGGAUCGGCCGGACUCGCUGACCCGUCUGCGAUUGCGAAUCCAGCUCCGUGACUGUACUUGGGUAAAUAAAAACUAAAGUG----CUUCAGGAGCAGGAAAUGCGUUC
...(((.(((..(((.(((((.......))))).)))..))).)))(((..(((.(((((.(((..((((((.(((........))).)))))----).)))))))).)))..))).... ( -45.60)
>consensus
GCGAGUGGCAAGCGGAUCGGCCGGACUCGCUGACCCGUCUGCGAUUGCGAAUCCAGCUGUGGGACUGUACUUGGAUAAAUAAGAACUAAAGUACAUACUUAAGCAGCAAGAAAGAUAAUU
((.(((.(((.((((.(((((.......))))).)))).))).))))).......(((((.....(((((((................))))))).......)))))............. (-32.19 = -32.44 +   0.25)

alignment

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secondary structure

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dotplot

Postscript

Window 2

Location 16,155,488 – 16,155,608
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 71.67
Mean single sequence MFE -24.19
Consensus MFE -13.43
Energy contribution -12.89
Covariance contribution -0.54
Combinations/Pair 1.32
Mean z-score -2.11
Structure conservation index 0.56
SVM decision value 1.71
SVM RNA-class probability 0.973478
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16155488 120 + 23771897
GCGAUUGCGAAUCCAGCUGUGGGACUGUACUUGGAUAAAUAAGAACUAAAGUACAUACUUUAGCAGCAAGAAAGAUAAUUAUGUGAAAUCAAGUUAAAUAUCAUCAAUCAUAAAUAUAUA
..(((((........(((((.((..(((((((................)))))))..))...)))))......((((.(((..((....))...))).))))..)))))........... ( -22.19)
>DroSec_CAF1 12833 120 + 1
GCGAUUGCAGAUCCAGCUGUGGGACUGUACUUGGAUAAAUAAGAACUAAAGUACAUACUAAAGCAGCAAGAAAGAUAAUUAUGUGAAAUCAAGUUUAAUAUCAUCAAUCAUAAAUAUAUA
..(((((........(((((.((..(((((((................)))))))..))...)))))......((((.(((..((....))....)))))))..)))))........... ( -21.59)
>DroEre_CAF1 12511 96 + 1
GCGAUUGCGAAUCCAGCUCCGUGACUGUACUUGGGUAAAUAAAAACUAAAGUG----CUUCAGGAGCAGGAAAUGCGUUCAUUUA-CAUC-------------------UAAAAUAUUAU
..((.((((..(((.(((((.(((..((((((.(((........))).)))))----).)))))))).)))..)))).)).....-....-------------------........... ( -28.80)
>consensus
GCGAUUGCGAAUCCAGCUGUGGGACUGUACUUGGAUAAAUAAGAACUAAAGUACAUACUUAAGCAGCAAGAAAGAUAAUUAUGUGAAAUCAAGUU_AAUAUCAUCAAUCAUAAAUAUAUA
..(((((....((..(((((.....(((((((................))))))).......)))))..))....)))))........................................ (-13.43 = -12.89 +  -0.54)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:16 2006