Locus 4388

Sequence ID 3L_DroMel_CAF1
Location 12,861,549 – 12,861,667
Length 118
Max. P 0.931078
window6799

overview

Window 9

Location 12,861,549 – 12,861,667
Length 118
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 82.71
Mean single sequence MFE -41.04
Consensus MFE -31.97
Energy contribution -33.11
Covariance contribution 1.14
Combinations/Pair 1.29
Mean z-score -3.03
Structure conservation index 0.78
SVM decision value 1.21
SVM RNA-class probability 0.931078
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12861549 118 - 23771897
UUAGCUACUGGCAGUUGUUUGGUCUCGGCAUUCAGAUACAGAGGUGUCUGGACACCUUGUGAAUUGGGUAGAGUUGAGAUAUCAUAGCUGCCGGCAUGUACACUCACAUUAAGUGCCU
.........(((((((((...((((((((.(((((((((....))))))))).((((........))))...))))))))...)))))))))(((((...............))))). ( -44.76)
>DroSec_CAF1 99951 118 - 1
UUAGCUACUGGCAGUUGUUUGGUCUCAGCAUUCAGAUACAAAGGUGUCUGGACACCUUGUGAAUUGGGUAGAGUUGAGAUAUCAUAGCUGCCGGCAUGUACACUCACAUUUAGUGCCU
.........(((((((((...((((((((.(((((((((....))))))))).((((........))))...))))))))...)))))))))(((((...............))))). ( -45.56)
>DroSim_CAF1 101312 118 - 1
UUAGCUACUGGCAGUUGUUUGGUCUCAGCAUUCAGAUACAAAGGUGUCUGGACACCUUGUGAAUUGGGUAGAGUUGAGAUAUCAUAGCUGCCGGCAUGUACACUCACAUUUAGUGCCU
.........(((((((((...((((((((.(((((((((....))))))))).((((........))))...))))))))...)))))))))(((((...............))))). ( -45.56)
>DroEre_CAF1 105340 118 - 1
UUAGCUACUGGCAGUUGUUUGGUCUCGGCAUUUAGAUAAAGAGGUGUCUGGACACCUUGUGAAUUGGGCAGAGUUGAAACGUCAUAGCUGCCGGCAUGUACACUCAAAUUUAGAGCCU
...((..(((((((((((((.(.(((.((...........(((((((....))))))).........)).))).).))))).....))))))))...))...(((.......)))... ( -32.55)
>DroWil_CAF1 135447 117 - 1
GUGG-CACUGGUAAUUGAUCAGUAUUAUGAUUUAAAUAUAGUUCCACUUGUUCACCAGCUGCAUUCGGUAGGGUGGAAACACCCCAAGCUCCUGCAUAGACACUUACAUUCAGUGCUU
((((-.((((......(((((......)))))......)))).)))).............(((((..((((((((....)))))...((....)).........)))....))))).. ( -32.20)
>DroYak_CAF1 111339 118 - 1
UUAGCUACCGGCAGUUGUUUGGUCUCGGCAUUCAGGUAAAGAGGUGUCUGAACACCUUGUGAAUUGGGUAGAGUUGAGACAUCAUAGCUGCCGGCAUGUACACUCACAUUUAGUGCCU
...(((((((((((((((...((((((((((((((.....(((((((....))))))).....))))))...))))))))...))))))))))).((((......)))).)))).... ( -45.60)
>consensus
UUAGCUACUGGCAGUUGUUUGGUCUCAGCAUUCAGAUACAGAGGUGUCUGGACACCUUGUGAAUUGGGUAGAGUUGAGACAUCAUAGCUGCCGGCAUGUACACUCACAUUUAGUGCCU
.........(((((((((...((((((((.((((((((......)))))))).((((........))))...))))))))...)))))))))(((((...............))))). (-31.97 = -33.11 +   1.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:20 2006