Locus 2567

Sequence ID 2R_DroMel_CAF1
Location 9,082,642 – 9,082,802
Length 160
Max. P 0.993672
window4231 window4232

overview

Window 1

Location 9,082,642 – 9,082,762
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.75
Mean single sequence MFE -31.74
Consensus MFE -25.10
Energy contribution -24.74
Covariance contribution -0.36
Combinations/Pair 1.17
Mean z-score -1.42
Structure conservation index 0.79
SVM decision value -0.04
SVM RNA-class probability 0.515489
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9082642 120 - 20766785
AGAAAAUAAGAAGUCGUGCCAAGUCUUGGCUUCCAUUAGGGGAACAGCAGAUUCAUACGUUUCCCAAAGAGCAUCUUCAACUGGAUUGAAUCCAAAAGAGGGUUGAAACUGUCACCUUCU
.........((((..((((((.....))))........(((((((.............))))))).....))..))))...(((((...)))))..(((((((.((.....))))))))) ( -30.52)
>DroSec_CAF1 47421 120 - 1
AGAAAGUAAGAAGUCGUGCCAAGUCUUGGCUUCCAUUAGGGGAACAGCAGAUUCAUACGUUUCCCAAAGAGCAUCUUCAACUGGAUUAAAUCCAAAAGAGGGUUGAAACUGUCACCUUCU
.........((((..((((((.....))))........(((((((.............))))))).....))..))))...(((((...)))))..(((((((.((.....))))))))) ( -30.52)
>DroSim_CAF1 49679 120 - 1
AGAAAGUAAGAAGUCGUGCCAUUUCUUGGCUUUCAUUAGGGGAACAGCAGAUUCAUAUGUUUCCCAGAGAGCAUCUUCAACUGGAUUGAAUCCAAAAGAGGGUUGAAACUGUCACCUUCU
.(((..((((((((......))))))))((((((....((((((((...........)))))))).))))))...)))...(((((...)))))..(((((((.((.....))))))))) ( -33.80)
>DroEre_CAF1 54873 120 - 1
AGAAAGUAAGAAGUCGUGCGAAGUCUUGGCUUCCAUUAGGGAAACAGCAGAUUCAUAGGUUUCCCAAUGACCAUCUUCAACUGGUUUGAAAGCAAAAGAGGGUUGAAACUGUCACCUUCU
......(((((..((....))..)))))((((.((...(((((((.............)))))))...(((((........))))))).))))...(((((((.((.....))))))))) ( -31.02)
>DroYak_CAF1 52729 120 - 1
AGAAAGUAAGAAGUCGUGCCAAGUUUUGACUUCCAUUAGGGAAACAGCAGAUUCACAGGUUUCCCAGCGAGCAUCUUCAACUGGAUUGAAAGCGAAAGAGGGUUGAAACUGUCACCUUCU
........(((((..(((...(((((..(((..(....(((((((.............))))))).((...(((((......))).))...))....)..)))..)))))..)))))))) ( -32.82)
>consensus
AGAAAGUAAGAAGUCGUGCCAAGUCUUGGCUUCCAUUAGGGGAACAGCAGAUUCAUACGUUUCCCAAAGAGCAUCUUCAACUGGAUUGAAUCCAAAAGAGGGUUGAAACUGUCACCUUCU
.(((.....(((((((..........))))))).....(((((((.............)))))))..........)))...((((.....))))..(((((((.((.....))))))))) (-25.10 = -24.74 +  -0.36)

alignment

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secondary structure

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dotplot

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Window 2

Location 9,082,682 – 9,082,802
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.25
Mean single sequence MFE -32.56
Consensus MFE -26.72
Energy contribution -27.92
Covariance contribution 1.20
Combinations/Pair 1.06
Mean z-score -2.49
Structure conservation index 0.82
SVM decision value 2.42
SVM RNA-class probability 0.993672
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9082682 120 - 20766785
CAACACCUUAUAAAUGAGGGUUGAACUGCUUUCAUUCAUAAGAAAAUAAGAAGUCGUGCCAAGUCUUGGCUUCCAUUAGGGGAACAGCAGAUUCAUACGUUUCCCAAAGAGCAUCUUCAA
......(((((.(((((((((......))))))))).))))).......((((..((((((.....))))........(((((((.............))))))).....))..)))).. ( -32.22)
>DroSec_CAF1 47461 120 - 1
CAACACCUUAUAAAUGAGGGUUGAAUUGCUUUCAUUCAUAAGAAAGUAAGAAGUCGUGCCAAGUCUUGGCUUCCAUUAGGGGAACAGCAGAUUCAUACGUUUCCCAAAGAGCAUCUUCAA
((((.(((((....)))))))))..((((((((........))))))))((((..((((((.....))))........(((((((.............))))))).....))..)))).. ( -34.92)
>DroSim_CAF1 49719 120 - 1
CAACACCUUAUAAAUGAGGGUUGAAUUGCUUUCAUUCAUAAGAAAGUAAGAAGUCGUGCCAUUUCUUGGCUUUCAUUAGGGGAACAGCAGAUUCAUAUGUUUCCCAGAGAGCAUCUUCAA
((((.(((((....)))))))))...(((((((........(((((((((((((......))))))).))))))....((((((((...........)))))))).)))))))....... ( -39.60)
>DroEre_CAF1 54913 120 - 1
CAACACCUUAUAUAUGAGGGUUGGAUUGUAUUCAUUCAUAAGAAAGUAAGAAGUCGUGCGAAGUCUUGGCUUCCAUUAGGGAAACAGCAGAUUCAUAGGUUUCCCAAUGACCAUCUUCAA
((((.(((((....)))))))))((.((....)).))........(.((((.((((((.(((((....))))))))..(((((((.............)))))))...)))..))))).. ( -30.42)
>DroYak_CAF1 52769 120 - 1
CAACACCUUAUAUACGAGGGUUGAAUUGUAUUCAUUCAUAAGAAAGUAAGAAGUCGUGCCAAGUUUUGACUUCCAUUAGGGAAACAGCAGAUUCACAGGUUUCCCAGCGAGCAUCUUCAA
((((.((((......))))))))..((((....................(((((((..........))))))).....(((((((.............))))))).)))).......... ( -25.62)
>consensus
CAACACCUUAUAAAUGAGGGUUGAAUUGCUUUCAUUCAUAAGAAAGUAAGAAGUCGUGCCAAGUCUUGGCUUCCAUUAGGGGAACAGCAGAUUCAUACGUUUCCCAAAGAGCAUCUUCAA
((((.(((((....)))))))))..((((((((........))))))))((((..((((((.....))))........(((((((.............))))))).....))..)))).. (-26.72 = -27.92 +   1.20)

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 10:33:20 2006