Locus 9616

Sequence ID 3R_DroMel_CAF1
Location 25,403,287 – 25,403,396
Length 109
Max. P 0.612812
window15367

overview

Window 7

Location 25,403,287 – 25,403,396
Length 109
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.44
Mean single sequence MFE -25.12
Consensus MFE -6.46
Energy contribution -7.74
Covariance contribution 1.28
Combinations/Pair 1.14
Mean z-score -1.68
Structure conservation index 0.26
SVM decision value 0.16
SVM RNA-class probability 0.612812
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25403287 109 + 27905053
GUUCAAAAUCAC---AGGAUAAUUGAAUGAAACCCCAGUUGCUCAUGCUAAC----UUGCUUUAAACUGGAGUGUUUCAGCUGCUUUUAGGCACAAUCUUG---CUUUUU-CAGCUCCAC
............---.(((........(((((((((((((......((....----..))....)))))).).))))))((((.....(((((......))---)))...-))))))).. ( -28.20)
>DroSec_CAF1 87219 110 + 1
GCUUAAAAUCGC---AGGAUAAUUGAAUGAAACCUAAGUUGCUCAUGCUAAC----UUGCUUUAAACUGGAGUGUUUCAACUGCUUUUAGACACAGUCUUG---CUUUUUGCAGCUCCAC
((((((((..((---(((((.......((((((((.((((......((....----..))....))))..)).)))))).(((....))).....))))))---).))))).)))..... ( -24.20)
>DroSim_CAF1 87586 114 + 1
GCUUUAAAUCGC---AGGAUAAUUAAAUGAAACCCCAGUUGCUUAUGCCAAGAGUGCUGCUUUAAACUGGAGUGUUUCAACUGCUUUUGGACACAAUCUUG---CUUUUUGCAGCUCCAC
(((.((((..((---(((((.......(((((((((((((((....))..((((.....)))).)))))).).))))))........((....))))))))---)..)))).)))..... ( -30.10)
>DroEre_CAF1 91218 116 + 1
UUACAAAAUCUCCCUUAUGUUGUUGAAUGAAAGCCCAGUUGUUCAGGCAAAC----UUGCAUUAAACUGAAGCACUUCAGCUGCCUUUAACCACAAUCCUUCCUCUUUUUUGAGCUCCAC
.................(((.((((((.(..(((..(((..((((((((...----.)))......)))))..)))...)))..))))))).))).......(((......)))...... ( -16.80)
>DroYak_CAF1 94621 115 + 1
UUAUCGAAUCUAUUUUGUAUUGUUGAAGGUAGCGCCAGUUGUUCAGGCAAAC----UUGCUUUAAACUGAAAUACUUCAGCUGCCUUUAACCACAAUCUUUGCAU-UUUUUUAGCUCCAC
..............((((...((((((((((((...(((..((((((((...----.)))......)))))..)))...)))))))))))).)))).........-.............. ( -26.30)
>consensus
GUUUAAAAUCGC___AGGAUAAUUGAAUGAAACCCCAGUUGCUCAUGCAAAC____UUGCUUUAAACUGGAGUGUUUCAGCUGCUUUUAGACACAAUCUUG___CUUUUUGCAGCUCCAC
...........................((((((.((((((......((..........))....))))))...))))))......................................... ( -6.46 =  -7.74 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:38:18 2006