Locus 1766

Sequence ID X_DroMel_CAF1
Location 4,881,649 – 4,881,767
Length 118
Max. P 0.993656
window2888 window2889

overview

Window 8

Location 4,881,649 – 4,881,767
Length 118
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 97.75
Mean single sequence MFE -31.02
Consensus MFE -29.88
Energy contribution -29.77
Covariance contribution -0.11
Combinations/Pair 1.07
Mean z-score -0.84
Structure conservation index 0.96
SVM decision value 0.37
SVM RNA-class probability 0.708634
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4881649 118 + 22224390
AGAACUGUAUUGGCAUUCGGCCAUAUGCCAUUUCUGGCCAUACUUAUAUCAA-ACAGGAGCAGC-AGCCGCAUCAGUUGAAGCGGUUAAGUGACUAAUUUAUGGCCUUUUAUGUAAGCCA
..........((((....(((((((.((((....))))..............-..((..((...-((((((.((....)).))))))..))..))....)))))))((......)))))) ( -31.20)
>DroSec_CAF1 32940 119 + 1
AGAACUGUAUUGGCAUUCGGCCAUAUGCCAUUUCUGGCCAUACUUAUAUCAA-ACAGGAGCAGCCAGCCGCAUCAGUUGGAGCGGUUAAGUGACUAAUUUAUGGCCUUUUAUGUAAGCCA
..........((((....(((.....)))......(((((((......(((.-...((.....))((((((..(....)..))))))...)))......)))))))..........)))) ( -32.00)
>DroSim_CAF1 34123 118 + 1
AGAACUGUAUUGGCAUUCGGCCAUAUGCCAUUUCUGGCCAUACUUAUAUCAA-ACAGGAGCAGC-AGCCGCAUCAGUUGGAGCGGUUAAGUGACUAAUUUAUGGCCUUUUAUGUAAGCCA
..........((((....(((((((.((((....))))..............-..((..((...-((((((..(....)..))))))..))..))....)))))))((......)))))) ( -30.40)
>DroEre_CAF1 35814 118 + 1
AGAACUGUAUUGGCAUUCGGCCAUAUGCCAUUUCUGGCCAUACUUAUAUCAA-ACAGGAGCAGC-AGCCGCAUCAGUUGGAGCGGUUAAGUGACUAAUUUAUGGCCUUUUAUGUAAGCCA
..........((((....(((((((.((((....))))..............-..((..((...-((((((..(....)..))))))..))..))....)))))))((......)))))) ( -30.40)
>DroYak_CAF1 33668 118 + 1
AGAACAGUAUUGGCAUUCGGCCAUAUGCCAUUUCUGGCCAUACUUAUAUCAA-ACAGGAGCAGC-AGCCGCAUCAGUUGGAGCGGUUAAGUGACUAAUUUAUGGCCUUUUAUGUAAGCCA
..........((((....(((((((.((((....))))..............-..((..((...-((((((..(....)..))))))..))..))....)))))))((......)))))) ( -30.40)
>DroAna_CAF1 89753 118 + 1
AGAACUGUAUUGGCAUUCGGCCAUAUGCCAUUUCUGGCCAUACUUAUAUCAAAACAGGAGCA-C-GGCCGCAUCAGUUCGAGCGGUUAAGUGACUAAUUUAUGGCCUUUUGUGUAAGCCA
..........((((....(((.....)))......(((((((......((......))((((-(-.(((((.((.....)))))))...))).))....)))))))..........)))) ( -31.70)
>consensus
AGAACUGUAUUGGCAUUCGGCCAUAUGCCAUUUCUGGCCAUACUUAUAUCAA_ACAGGAGCAGC_AGCCGCAUCAGUUGGAGCGGUUAAGUGACUAAUUUAUGGCCUUUUAUGUAAGCCA
..........((((....(((((((.((((....)))).................((..((....((((((.((....)).))))))..))..))....)))))))((......)))))) (-29.88 = -29.77 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 9

Location 4,881,649 – 4,881,767
Length 118
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 97.75
Mean single sequence MFE -32.83
Consensus MFE -30.93
Energy contribution -30.79
Covariance contribution -0.14
Combinations/Pair 1.04
Mean z-score -1.73
Structure conservation index 0.94
SVM decision value 2.41
SVM RNA-class probability 0.993656
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4881649 118 - 22224390
UGGCUUACAUAAAAGGCCAUAAAUUAGUCACUUAACCGCUUCAACUGAUGCGGCU-GCUGCUCCUGU-UUGAUAUAAGUAUGGCCAGAAAUGGCAUAUGGCCGAAUGCCAAUACAGUUCU
((((..........(((((((........(((((.((((.((....)).))))..-...((....))-......)))))...((((....)))).)))))))....)))).......... ( -32.74)
>DroSec_CAF1 32940 119 - 1
UGGCUUACAUAAAAGGCCAUAAAUUAGUCACUUAACCGCUCCAACUGAUGCGGCUGGCUGCUCCUGU-UUGAUAUAAGUAUGGCCAGAAAUGGCAUAUGGCCGAAUGCCAAUACAGUUCU
((((..........(((((((...((((((.....((((((.....)).)))).)))))).......-..............((((....)))).)))))))....)))).......... ( -33.24)
>DroSim_CAF1 34123 118 - 1
UGGCUUACAUAAAAGGCCAUAAAUUAGUCACUUAACCGCUCCAACUGAUGCGGCU-GCUGCUCCUGU-UUGAUAUAAGUAUGGCCAGAAAUGGCAUAUGGCCGAAUGCCAAUACAGUUCU
((((..........(((((((........(((((.((((((.....)).))))..-...((....))-......)))))...((((....)))).)))))))....)))).......... ( -31.14)
>DroEre_CAF1 35814 118 - 1
UGGCUUACAUAAAAGGCCAUAAAUUAGUCACUUAACCGCUCCAACUGAUGCGGCU-GCUGCUCCUGU-UUGAUAUAAGUAUGGCCAGAAAUGGCAUAUGGCCGAAUGCCAAUACAGUUCU
((((..........(((((((........(((((.((((((.....)).))))..-...((....))-......)))))...((((....)))).)))))))....)))).......... ( -31.14)
>DroYak_CAF1 33668 118 - 1
UGGCUUACAUAAAAGGCCAUAAAUUAGUCACUUAACCGCUCCAACUGAUGCGGCU-GCUGCUCCUGU-UUGAUAUAAGUAUGGCCAGAAAUGGCAUAUGGCCGAAUGCCAAUACUGUUCU
((((..........(((((((........(((((.((((((.....)).))))..-...((....))-......)))))...((((....)))).)))))))....)))).......... ( -31.14)
>DroAna_CAF1 89753 118 - 1
UGGCUUACACAAAAGGCCAUAAAUUAGUCACUUAACCGCUCGAACUGAUGCGGCC-G-UGCUCCUGUUUUGAUAUAAGUAUGGCCAGAAAUGGCAUAUGGCCGAAUGCCAAUACAGUUCU
((((((.......))))))......................((((((....((((-(-((((..(((....)))..))))))))).....((((((........))))))...)))))). ( -37.60)
>consensus
UGGCUUACAUAAAAGGCCAUAAAUUAGUCACUUAACCGCUCCAACUGAUGCGGCU_GCUGCUCCUGU_UUGAUAUAAGUAUGGCCAGAAAUGGCAUAUGGCCGAAUGCCAAUACAGUUCU
((((..........(((((((........(((((.((((((.....)).))))......((....)).......)))))...((((....)))).)))))))....)))).......... (-30.93 = -30.79 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:26 2006