Locus 9016

Sequence ID 3R_DroMel_CAF1
Location 24,164,263 – 24,164,423
Length 160
Max. P 0.993579
window14445 window14446

overview

Window 5

Location 24,164,263 – 24,164,383
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.33
Mean single sequence MFE -36.97
Consensus MFE -32.98
Energy contribution -33.18
Covariance contribution 0.20
Combinations/Pair 1.15
Mean z-score -1.91
Structure conservation index 0.89
SVM decision value 2.41
SVM RNA-class probability 0.993579
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24164263 120 - 27905053
CUAAACAAAUCAUCCGAUGAUCCGCACGCCCGCGAGAUCAUCACGCUGAAAAUGGAGAUCCAGCAGAUCAUGAAGGGCAACUACGACUACUUUAUGCUGAAGGAGAUCUUCGAGCAGCCG
...............((((((((((......))).)))))))..((((....(((((((((..(((..(((((((..............))))))))))...).))))))))..)))).. ( -38.04)
>DroSim_CAF1 4938 120 - 1
CUAAACAAAUCCUCCGAUGAUCCGCACGCCCGCGAGAUCAUCACGCUGAAGAUGGAGAUCCAGCAGAUCAUGAAGGGCAACUACGACUACUUCAUGCUGAAGGAGAUCUUCGAGCAGCCG
...............((((((((((......))).)))))))..((((....(((((((((..(((..(((((((..............))))))))))...).))))))))..)))).. ( -40.24)
>DroEre_CAF1 18433 120 - 1
CUAAACAAAUCCUCCGAUGAUCCGCACGCCCGCGAGAUCAUCACCUUGAAGAUGGAGAUCCAGCAGAUCAUGAAGGGCAAUUACGAUUACUUCAUGCUCAAGGAGAUCUUCGAGCAGCCG
...............((((((((((......))).)))))))..(((((((((((....))....((.(((((((..............))))))).))......)))))))))...... ( -36.24)
>DroYak_CAF1 21704 120 - 1
CUAAACAAAUCCUCGGAUGAUCCGCACGCCCGCGAGAUCAUCACGCUGAAGAUGGAGAUCCAGCAGAUCAUGAAGGGCAACUACGACUAUUUCAUGCUGAAGGAGAUCUUCGAGCAGCCG
...............((((((((((......))).)))))))..((((....(((((((((..(((..((((((((....))........)))))))))...).))))))))..)))).. ( -38.00)
>DroAna_CAF1 16640 120 - 1
CUGAACAAGUCCUCCGACGAUCCACAUGCCAGGGAGAUCAUUACCCUGAAAAUGGAGAUCCAGCAGAUCAUGAAGGGCAACUACGACUACUUCAUGCUGAAGGAGAUUUUCGAGCAGCCG
(((..((((..((((...((((..(((..(((((.........)))))...)))..))))(((((.....(((((..............))))))))))..))))..))).)..)))... ( -32.34)
>consensus
CUAAACAAAUCCUCCGAUGAUCCGCACGCCCGCGAGAUCAUCACGCUGAAGAUGGAGAUCCAGCAGAUCAUGAAGGGCAACUACGACUACUUCAUGCUGAAGGAGAUCUUCGAGCAGCCG
...............((((((((((......))).)))))))..((((....(((((((((..(((..(((((((..............))))))))))...).))))))))..)))).. (-32.98 = -33.18 +   0.20)

alignment

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secondary structure

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dotplot

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Window 6

Location 24,164,303 – 24,164,423
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.08
Mean single sequence MFE -39.76
Consensus MFE -32.34
Energy contribution -32.62
Covariance contribution 0.28
Combinations/Pair 1.17
Mean z-score -1.94
Structure conservation index 0.81
SVM decision value 1.31
SVM RNA-class probability 0.940743
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24164303 120 - 27905053
GGCCGCCGUCAAGAGCGAUGGCACGCUCAGCAUUCAUCGCCUAAACAAAUCAUCCGAUGAUCCGCACGCCCGCGAGAUCAUCACGCUGAAAAUGGAGAUCCAGCAGAUCAUGAAGGGCAA
.(((((((((......))))))..(((((((.......(......).........((((((((((......))).)))))))..)))))...(((....)))))...........))).. ( -40.60)
>DroSim_CAF1 4978 120 - 1
GGCCGCCUUCAAGAGCGAUGGCACGCUCAGCAUUCAUCGCCUAAACAAAUCCUCCGAUGAUCCGCACGCCCGCGAGAUCAUCACGCUGAAGAUGGAGAUCCAGCAGAUCAUGAAGGGCAA
.(((..(((((.(((((((((...((...))..)))))))...............((((((((((......))).)))))))...(((....(((....))).))).)).)))))))).. ( -39.10)
>DroEre_CAF1 18473 120 - 1
GGCCGCCGUCAAGAACGAUGGCACCCUCAGCAUUCAUCGCCUAAACAAAUCCUCCGAUGAUCCGCACGCCCGCGAGAUCAUCACCUUGAAGAUGGAGAUCCAGCAGAUCAUGAAGGGCAA
.(((((((((......))))))..(.(((...(((((((......).........((((((((((......))).)))))))........))))))((((.....)))).))).)))).. ( -38.60)
>DroYak_CAF1 21744 120 - 1
GGCUGCCGUCAAGAGCGAUGGCACCCUCAGCAUUCAUCGCCUAAACAAAUCCUCGGAUGAUCCGCACGCCCGCGAGAUCAUCACGCUGAAGAUGGAGAUCCAGCAGAUCAUGAAGGGCAA
((.(((((((......))))))).))............((((...........((((((((((((......))).))))))).))(((....(((....))).)))........)))).. ( -41.10)
>DroAna_CAF1 16680 120 - 1
GGCGGCCGUUAAGCAGGACGGCACCCUCAGUAUCCAUCGGCUGAACAAGUCCUCCGACGAUCCACAUGCCAGGGAGAUCAUUACCCUGAAAAUGGAGAUCCAGCAGAUCAUGAAGGGCAA
.((.((((((......)))))).((.(((......(((.((((.....(((....)))((((..(((..(((((.........)))))...)))..)))))))).)))..))).)))).. ( -39.40)
>consensus
GGCCGCCGUCAAGAGCGAUGGCACCCUCAGCAUUCAUCGCCUAAACAAAUCCUCCGAUGAUCCGCACGCCCGCGAGAUCAUCACGCUGAAGAUGGAGAUCCAGCAGAUCAUGAAGGGCAA
.(((((((((......))))))..........(((((..................((((((((((......))).)))))))...(((....(((....))).)))...))))).))).. (-32.34 = -32.62 +   0.28)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:24:51 2006