Locus 2535

Sequence ID X_DroMel_CAF1
Location 6,766,140 – 6,766,258
Length 118
Max. P 0.816479
window4140 window4141

overview

Window 0

Location 6,766,140 – 6,766,258
Length 118
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 91.06
Mean single sequence MFE -29.90
Consensus MFE -23.35
Energy contribution -23.13
Covariance contribution -0.21
Combinations/Pair 1.13
Mean z-score -2.85
Structure conservation index 0.78
SVM decision value 0.67
SVM RNA-class probability 0.816479
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6766140 118 + 22224390
GGCAGGAAAACCCCGUUGAGACGCCGUGUCAGUCAGUGGCAAAGCUGAAAAUCGCUAAAGAUUAAUGAUGCAAAAAAUUGAGCAUCAUUAAAGAAAGUGAAAAUGGAAUUAAGUGCAG--
.(((((....))(((((.....((..(((((.....)))))..))......(((((.....((((((((((..........))))))))))....))))).))))).......)))..-- ( -29.20)
>DroEre_CAF1 54806 118 + 1
CGCGGGAAAACCCAGUUGAGACGCCGUGUCAGUCAGUGGCAAAGCUGAAAAUCGCUAAAGAUUAAUGAUGCAAAAAAUUGAGCAUCAUUAAAGAAAGUGAAAAUGGAAUUAAGUGCAG--
.(((((....)))(.((((....((((.....(((((......)))))...(((((.....((((((((((..........))))))))))....)))))..))))..)))).)))..-- ( -31.20)
>DroAna_CAF1 70684 118 + 1
GCUGGG--AACCCCGUUGAGACGUUAUGUCAGUCAACGGCAAAGCUGAAAAUCGCUUAAGAUUAAUGAUGCAAAAAAUUGAGCAUCAUUAAAGAAAGUGAAAAUGGAAUUAAGUGCAAAG
(((..(--....((((((((((.....)))..))))))))..)))......((((((....((((((((((..........))))))))))...)))))).................... ( -29.30)
>consensus
GGCGGGAAAACCCCGUUGAGACGCCGUGUCAGUCAGUGGCAAAGCUGAAAAUCGCUAAAGAUUAAUGAUGCAAAAAAUUGAGCAUCAUUAAAGAAAGUGAAAAUGGAAUUAAGUGCAG__
...(((....)))..((((....((((.....(((((......)))))...(((((.....((((((((((..........))))))))))....)))))..))))..))))........ (-23.35 = -23.13 +  -0.21)

alignment

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secondary structure

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dotplot

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Window 1

Location 6,766,140 – 6,766,258
Length 118
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 91.06
Mean single sequence MFE -25.30
Consensus MFE -20.45
Energy contribution -20.23
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -2.63
Structure conservation index 0.81
SVM decision value 0.66
SVM RNA-class probability 0.815957
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6766140 118 - 22224390
--CUGCACUUAAUUCCAUUUUCACUUUCUUUAAUGAUGCUCAAUUUUUUGCAUCAUUAAUCUUUAGCGAUUUUCAGCUUUGCCACUGACUGACACGGCGUCUCAACGGGGUUUUCCUGCC
--..(((...((((((....((.((....((((((((((..........)))))))))).....)).))......(((.((.((.....)).)).)))........))))))....))). ( -25.10)
>DroEre_CAF1 54806 118 - 1
--CUGCACUUAAUUCCAUUUUCACUUUCUUUAAUGAUGCUCAAUUUUUUGCAUCAUUAAUCUUUAGCGAUUUUCAGCUUUGCCACUGACUGACACGGCGUCUCAACUGGGUUUUCCCGCG
--..((..............((.((....((((((((((..........)))))))))).....)).))......(((.((.((.....)).)).))).........(((....))))). ( -23.50)
>DroAna_CAF1 70684 118 - 1
CUUUGCACUUAAUUCCAUUUUCACUUUCUUUAAUGAUGCUCAAUUUUUUGCAUCAUUAAUCUUAAGCGAUUUUCAGCUUUGCCGUUGACUGACAUAACGUCUCAACGGGGUU--CCCAGC
..............((....((.(((...((((((((((..........))))))))))....))).))............(((((((..(((.....))))))))))))..--...... ( -27.30)
>consensus
__CUGCACUUAAUUCCAUUUUCACUUUCUUUAAUGAUGCUCAAUUUUUUGCAUCAUUAAUCUUUAGCGAUUUUCAGCUUUGCCACUGACUGACACGGCGUCUCAACGGGGUUUUCCCGCC
....(((......................((((((((((..........)))))))))).....(((........))).)))...(((..(((.....))))))...(((....)))... (-20.45 = -20.23 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:07 2006