Locus 9465

Sequence ID 3R_DroMel_CAF1
Location 25,053,918 – 25,054,038
Length 120
Max. P 0.814283
window15160 window15161

overview

Window 0

Location 25,053,918 – 25,054,038
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 94.44
Mean single sequence MFE -40.30
Consensus MFE -36.62
Energy contribution -37.40
Covariance contribution 0.78
Combinations/Pair 1.03
Mean z-score -2.10
Structure conservation index 0.91
SVM decision value 0.66
SVM RNA-class probability 0.814283
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25053918 120 + 27905053
GGGGCUGGUGGGUGGCCAAAACGGUGGCACAAAUUUGAAGCCACUUUAUGGUGACUAUUCACUUGGGCAAAACUUUAAGUUUGAGAGUUAAGGCGAAGGUCGGGCCCUAGAAGCCAUUGA
..(((((((((((.((((.((.((((((...........)))))))).)))).)))...)))).((((..((((((.......))))))..(((....)))..))))....))))..... ( -40.50)
>DroSim_CAF1 8080 120 + 1
GGGGCUGGUGGGUGGCCAAAACGGUGGCACAAAUUCGAAGCCACUUUAUGGUGACUAUUCACUUGGCCAAAACUUCAAGUUUGAGAGUUAAGGCGAAGGUCGGGCCCUAGAAGCCAUUGA
..((((...((((((((((...((((((...........)))))).....((((....))))))))))..(((((((....))).))))..(((....)))..))))....))))..... ( -40.90)
>DroYak_CAF1 8113 120 + 1
GGGGCAGGUGGGUGGCCAAAACGGUGGCACAAAUUCGAAGCCACUUUAUGGUGACCAUUCAUUUGGCCAAAACUUUGAGUUUAAGAGUUAAGGCGAAGGUCGAGCCCUAAAAGCCAUUGA
(((((.....(((.((((.((.((((((...........)))))))).)))).))).....(((.(((..((((((.......))))))..))).))).....)))))............ ( -39.50)
>consensus
GGGGCUGGUGGGUGGCCAAAACGGUGGCACAAAUUCGAAGCCACUUUAUGGUGACUAUUCACUUGGCCAAAACUUUAAGUUUGAGAGUUAAGGCGAAGGUCGGGCCCUAGAAGCCAUUGA
..((((...((((((((((...((((((...........)))))).....((((....))))))))))..((((((.......))))))..(((....)))..))))....))))..... (-36.62 = -37.40 +   0.78)

alignment

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secondary structure

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dotplot

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Window 1

Location 25,053,918 – 25,054,038
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 94.44
Mean single sequence MFE -31.12
Consensus MFE -29.94
Energy contribution -29.84
Covariance contribution -0.11
Combinations/Pair 1.07
Mean z-score -1.80
Structure conservation index 0.96
SVM decision value 0.66
SVM RNA-class probability 0.813237
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25053918 120 - 27905053
UCAAUGGCUUCUAGGGCCCGACCUUCGCCUUAACUCUCAAACUUAAAGUUUUGCCCAAGUGAAUAGUCACCAUAAAGUGGCUUCAAAUUUGUGCCACCGUUUUGGCCACCCACCAGCCCC
.....((((....(((...(.....)(((..(((....((((.....)))).((.(((((....((((((......))))))....))))).))....)))..)))..)))...)))).. ( -27.90)
>DroSim_CAF1 8080 120 - 1
UCAAUGGCUUCUAGGGCCCGACCUUCGCCUUAACUCUCAAACUUGAAGUUUUGGCCAAGUGAAUAGUCACCAUAAAGUGGCUUCGAAUUUGUGCCACCGUUUUGGCCACCCACCAGCCCC
.....((((....(((..(((((((.(((..((((.(((....)))))))..))).))).)...((((((......)))))))))....((.((((......)))))))))...)))).. ( -33.00)
>DroYak_CAF1 8113 120 - 1
UCAAUGGCUUUUAGGGCUCGACCUUCGCCUUAACUCUUAAACUCAAAGUUUUGGCCAAAUGAAUGGUCACCAUAAAGUGGCUUCGAAUUUGUGCCACCGUUUUGGCCACCCACCUGCCCC
.............((((.........(((..(((....((((.....))))(((((((((....((((((......))))))....))))).))))..)))..))).........)))). ( -32.47)
>consensus
UCAAUGGCUUCUAGGGCCCGACCUUCGCCUUAACUCUCAAACUUAAAGUUUUGGCCAAGUGAAUAGUCACCAUAAAGUGGCUUCGAAUUUGUGCCACCGUUUUGGCCACCCACCAGCCCC
.............((((.........(((..(((....((((.....))))(((((((((....((((((......))))))....))))).))))..)))..))).........)))). (-29.94 = -29.84 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:35:18 2006