Locus 4811

Sequence ID 3L_DroMel_CAF1
Location 13,478,982 – 13,479,087
Length 105
Max. P 0.616415
window7584

overview

Window 4

Location 13,478,982 – 13,479,087
Length 105
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.27
Mean single sequence MFE -44.43
Consensus MFE -29.30
Energy contribution -27.58
Covariance contribution -1.72
Combinations/Pair 1.38
Mean z-score -1.36
Structure conservation index 0.66
SVM decision value 0.17
SVM RNA-class probability 0.616415
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13478982 105 + 23771897
UGCAGCAAAUGGGCAGCCAGUUG-------CCGG--------CGGAGGACAAGCUCGCCCUGGAGAGCCAGCUGGUGUUGGCCACGGCGGAGCCGCUGUGUCUGGAGCCGGAUCCCAGCA
....((....((((.(((.....-------..))--------).(((......)))))))(((.((((((((....))))))(((((((....)))))))((((....))))))))))). ( -45.50)
>DroVir_CAF1 18464 120 + 1
UGCAGCAGCUGGGCAGCUCGUUGGGCUUGGCCGGCGCAACGCCAGAGGAUAGACUGGCGAUCGAGAGUCAACUGGUGCUGGCCACGGCCGAGCCGCUGUGUCUGGAGCCUGAUCCGAGUA
.(((((.(((.(((((((.....))))((((((((((...(((((........)))))((.(....))).....))))))))))..))).))).)))))...((((......)))).... ( -57.20)
>DroPse_CAF1 19680 105 + 1
UGCAGCAAAUGGGCAGCCAACUG-------CAGG--------CGGAGGAUAAGCUUGCACUGGAGAGCCAGUUGGUGUUGGCCACGGCGGAGCCGUUGUGUCUGGAACCGGAUCCAAGCA
....((...((((..((((((.(-------((((--------(.........))))))(((((....)))))....))))))(((((((....)))))))((((....)))))))).)). ( -40.80)
>DroWil_CAF1 24683 105 + 1
UGCAACAAAUGGGCAGCCAAUUG-------UCCU--------CGGAGGAUAAACUCGUGCUCGAAAGUCAAUUGGUAUUGGCCACGGCGGAGCCGUUGUGCCUGGAGCCAGAUCCACGGA
.(((((...(((.((((((((((-------.(.(--------((.((.((......)).)))))..).))))))))..)).))).(((...)))))))).((((((......)))).)). ( -34.30)
>DroAna_CAF1 16686 105 + 1
UGCAGCAAAUGGGCAGCCAGCUG-------CAGG--------CGGACGAAAAGCUGGCUUUGGAGAGCCAGCUGGUGUUGGCCACGGCUGAGCCGCUUUGCCUGGAGCCGGAUCCUAGUA
(((.((((...(((.((((((((-------..((--------(.((((...(((((((((....)))))))))..)))).))).)))))).)).)))))))..(((......)))..))) ( -49.00)
>DroPer_CAF1 23593 105 + 1
UGCAGCAAAUAGGCAGCCAACUG-------CAGG--------CGGAGGAUAAGCUUGCACUGGAGAGCCAGUUGGUGUUGGCCACGGCGGAGCCGUUGUGUCUGGAACCGGAUCCAAGCA
.(((((.....(((.((((((((-------((((--------(.........))))))).(((....)))))))))....)))..(((...))))))))(..((((......))))..). ( -39.80)
>consensus
UGCAGCAAAUGGGCAGCCAACUG_______CAGG________CGGAGGAUAAGCUCGCACUGGAGAGCCAGCUGGUGUUGGCCACGGCGGAGCCGCUGUGUCUGGAGCCGGAUCCAAGCA
.(((((.....(((.((((((((.............................(((..(....)..)))))))))))....)))..(((...))))))))((.((((......)))).)). (-29.30 = -27.58 +  -1.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:02 2006