Locus 6291

Sequence ID 3R_DroMel_CAF1
Location 16,414,539 – 16,414,658
Length 119
Max. P 0.871166
window10262

overview

Window 2

Location 16,414,539 – 16,414,658
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.26
Mean single sequence MFE -34.32
Consensus MFE -21.56
Energy contribution -20.90
Covariance contribution -0.66
Combinations/Pair 1.52
Mean z-score -1.75
Structure conservation index 0.63
SVM decision value 0.87
SVM RNA-class probability 0.871166
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16414539 119 + 27905053
AA-ACAGGAUGUCAAAGGACGCUAAUCCCAAGGAGGCGCUCAUAAAGGCGGCUUACGCUGAUGUGAAUAAGUUCGGCAAUAACCAGGAGUUUGACAAGGCUGUCAAGGCAGUGAAUCGCA
..-....((((((((((((((((..(((...))))))..(((((..((((.....))))..)))))....))))((......)).....))))))...(((((....)))))..)))... ( -32.30)
>DroVir_CAF1 9800 119 + 1
UA-UUAUUAUGUCGAAAGAUGCAAAUCCCAAGGAGGCGCUGAUUAAAGCGGCCUAUGCUGAUGUUCAUAAGUUCGGCACCAAUCAGGAGUUUGACAAGGCGGUAAAAGCCGUCAACCGCA
..-.......(((....))).((((..((....(((((((......))).)))).((((((...........)))))).......))..))))....((((((....))))))....... ( -34.90)
>DroGri_CAF1 11793 119 + 1
CA-UCGUUAUGUCGAAAGACACAAACCCGAAAGAGGCGCUUAUAAAAGCGGCUUAUGCUGAUGUGCAUAAGUUUGGCAGCAAUCAGGAAUACGACAAGGCGGUCAAAGCCGUUAAUCGCA
..-((((..((((....))))....((.((..(((.(((((....))))).))).(((((....((....))....))))).)).))...))))...((((((....))))))....... ( -35.50)
>DroWil_CAF1 11960 120 + 1
AAACGAAAAUGUCGAAAGACACAAAUCCCAAGGAUGCGUUGAUUAGCGCUGCUUAUGCCGAUGUCAACAAAUUUGCCAAUAAUCGUGAAUUCGAUAAGGCAGUCAAAGCUGUAAAUCGCA
.((((....((((....))))...((((...)))).))))((((.(((((.....((((..((((....((((..(........)..)))).)))).)))).....))).)).))))... ( -30.10)
>DroMoj_CAF1 10140 119 + 1
UA-UUAUAAUGUCGAAAGACACAACUGCCAAGGAGGCGCUUAUAAAAGCGGCGUACGCCGACGUUCACAAGUUUGGCAGCAAUCAGGAGUAUGAUAAGGCGGUUAAAGCUGUUAAUCGCA
((-(((((.((((....))))...((((((((..(.(((((....))))).)(.(((....))).).....))))))))..........)))))))..((((((((.....)))))))). ( -38.10)
>DroAna_CAF1 8503 119 + 1
AA-CAAGGAUGUCAAAGGACGCCAAUCCGAAAGAGGCGCUGAUCAAGGCGGCCUACGCCGAUGUUCACAAGUUUGGCAACAACCGAGAGUUCGACAAGGCCGUCAAGGCGGUUAAUCGCA
..-...((.((((....))))))....(((...((.((((......((((((((..(((((...........)))))......((......))...))))))))..)))).))..))).. ( -35.00)
>consensus
AA_UCAUAAUGUCGAAAGACACAAAUCCCAAGGAGGCGCUGAUAAAAGCGGCUUACGCCGAUGUUCACAAGUUUGGCAACAAUCAGGAGUUCGACAAGGCGGUCAAAGCCGUUAAUCGCA
.........(((((((.................(((((((......))).))))..(((((...........)))))............))))))).((((((....))))))....... (-21.56 = -20.90 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:51 2006