Locus 2089

Sequence ID X_DroMel_CAF1
Location 5,693,729 – 5,693,820
Length 91
Max. P 0.999599
window3397

overview

Window 7

Location 5,693,729 – 5,693,820
Length 91
Sequences 4
Columns 114
Reading direction reverse
Mean pairwise identity 76.80
Mean single sequence MFE -42.20
Consensus MFE -29.36
Energy contribution -31.05
Covariance contribution 1.69
Combinations/Pair 1.14
Mean z-score -2.93
Structure conservation index 0.70
SVM decision value 3.77
SVM RNA-class probability 0.999599
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5693729 91 - 22224390
-UCACCUCGGUUAGCUGGACGCGAGAUGGCCAUAUAACUGGCCA---------------------CUGGCCACUGG-CCACUGGAUUGUGGUCAACCGUUGGCCGGCUGAUUGG
-......(((((((((((.(((.((.((((((......))))))---------------------)).))...(((-((((......))))))).......)))))))))))). ( -41.80)
>DroSec_CAF1 14492 90 - 1
-UCACCUCGGUUAGCUGGACGCGAGAUGGCCAUAUAA-UGGUCA---------------------CUGUCCACUGG-CCACUGGAUUGUGGUCAGCCGCUGGCCGGCUGAUUGG
-(((.(.(((((((((((((...((.(((((((...)-))))))---------------------)))))))((((-((((......))))))))..))))))))).))).... ( -41.70)
>DroSim_CAF1 17519 91 - 1
-UCACCUCGGUUAGCUGGUCGCGAGAUGGCCAUAUAA-UGGUCA---------------------CUGUCCACUGGACCACUGGAUUGUGGUCAGCCGCUGGCCGGCUGAUUGG
-......((((((((((((((((((.(((((((...)-))))))---------------------))........((((((......))))))...))).))))))))))))). ( -42.50)
>DroYak_CAF1 17191 107 - 1
AUUGCG---G--CGCGAGUUGCGAAAGGGCCAUAUAA-UGGUCACUAUGCCCAGUUCAAUGGCUACUGCUCACUGG-CCACCGGAUUGUGGUCAGCUGUUGGCCGGCUGAUUGG
.(((((---(--(....))))))).((((((((...)-))))).))....((((((...((((((..((...((((-((((......))))))))..))))))))...)))))) ( -42.80)
>consensus
_UCACCUCGGUUAGCUGGACGCGAGAUGGCCAUAUAA_UGGUCA_____________________CUGUCCACUGG_CCACUGGAUUGUGGUCAGCCGCUGGCCGGCUGAUUGG
.......((((((((((((((((....(((((......))))).............................((((.((((......)))))))).))).))))))))))))). (-29.36 = -31.05 +   1.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:58 2006