Locus 1134

Sequence ID 3L_DroMel_CAF1
Location 3,308,947 – 3,309,067
Length 120
Max. P 0.656537
window1766

overview

Window 6

Location 3,308,947 – 3,309,067
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 83.00
Mean single sequence MFE -33.22
Consensus MFE -24.40
Energy contribution -23.60
Covariance contribution -0.80
Combinations/Pair 1.42
Mean z-score -1.81
Structure conservation index 0.73
SVM decision value 0.26
SVM RNA-class probability 0.656537
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3308947 120 - 23771897
GGCUAUCAGAACGAGAUCGCUGAACUGUAUAGCUACACGGAGUUCAGCGAGUUUCAGAUGAACGUGAAGGCCUUCGAGGACCAGAUGGAGCUGUACGACCUGCCGCCCAACUGGCAGAAG
((((.(((........((((((((((.(..........).))))))))))((((.....)))).))).))))(((...(.((((.(((.((.(((.....))).))))).))))).))). ( -39.40)
>DroVir_CAF1 4324 120 - 1
AGCUAUCAAAAUGAAAUUGCCGAACUCUACAGUUACACGGAAUUCAGUGAAUUCCAAAUGAAUGUCAAGGCAUUUGAGGACCAAAUGGAUCUAUAUGAUCUGCCGCCAAAUUGGCAGAAG
................(((((((...............(((((((...))))))).............((((((((.....)))))(((((.....)))))...)))...)))))))... ( -28.20)
>DroGri_CAF1 6357 120 - 1
AGCUAUCAGAAUGAAAUCGCCGAACUCUACAGUUACACAGAGUUCAGUGAAUUCCAAAUGAAUGUGAAAGCGUUCGAAGAUCAAAUGGAACUGUACGAUUUGCCACCGAAUUGGCAGAAA
......(((.......((((.(((((((..........))))))).)))).(((((...((((((....))))))(.....)...)))))))).....(((((((......))))))).. ( -33.50)
>DroWil_CAF1 8927 120 - 1
ACCUAUCAGAAUGAAAUUGCCGAGCUUUAUAGCUACACGGAAUACAGUGAAUUCCAAAUGAAUGUCAAGGCAUUCGAGGAUCAAAUGGAAUUAUACAAUCUGCCGCCCAAUUGGCAGAAG
...................(((((((....))))...)))......((((((((((...((((((....))))))(.....)...))))))).)))..(((((((......))))))).. ( -30.80)
>DroMoj_CAF1 4999 120 - 1
AGCUAUCAAAAUGAGAUCGCCGAACUUUACAGCUACACGGAGUUCAGUGAAUUCCAAAUGAAUGUUAAGGCAUUUGAGGACCAAAUGGAACUAUAUGAUUUGCCACCGAAUUGGCAGAAA
.....(((....(((.((((.(((((((..........))))))).)))).)))((((((..(....)..))))))((..((....))..))...)))(((((((......))))))).. ( -27.40)
>DroAna_CAF1 5574 120 - 1
GGCUACCAGAACGAGAUCGCAGAACUCUACAGCUACACGGAGUUCGUCGAGUUCCAAAUGAACGUGAAAGCGUUCGAGGAUCAGAUGGAGCUCUACGACCUGCCUCCCAAUUGGCAGAAA
((((.(((...(..((((...((((((.((((((......)))).)).))))))....(((((((....)))))))..)))).).))))))).......(((((........)))))... ( -40.00)
>consensus
AGCUAUCAGAAUGAAAUCGCCGAACUCUACAGCUACACGGAGUUCAGUGAAUUCCAAAUGAAUGUGAAGGCAUUCGAGGACCAAAUGGAACUAUACGAUCUGCCGCCCAAUUGGCAGAAA
.....(((....(((.((((.(((((((..........))))))).)))).)))....(((((((....))))))).........)))..........(((((((......))))))).. (-24.40 = -23.60 +  -0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:02 2006