Locus 9329

Sequence ID 3R_DroMel_CAF1
Location 24,793,164 – 24,793,256
Length 92
Max. P 0.868629
window14926 window14927

overview

Window 6

Location 24,793,164 – 24,793,256
Length 92
Sequences 6
Columns 92
Reading direction forward
Mean pairwise identity 80.35
Mean single sequence MFE -26.21
Consensus MFE -17.31
Energy contribution -18.20
Covariance contribution 0.89
Combinations/Pair 1.10
Mean z-score -2.10
Structure conservation index 0.66
SVM decision value 0.86
SVM RNA-class probability 0.868629
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24793164 92 + 27905053
CCUUGGCCAACAACUGGGACGCUUGCUGCGGUUUGCCGCAGGACUUUCGUCCUUCUUCUUGCUACCCCUGCCCCAGACAACUCAACUAUUAC
...((((.((.((..((((((..(.((((((....)))))).)....))))))..)).))))))............................ ( -23.10)
>DroSec_CAF1 9464 91 + 1
CCUUGGCCAACAACUGGGACGCUUGCUGCGGUUAGCCGCAGGACUUUCGUCCUUCUUCUUGCUACCCCUGCC-CAGCCAACUCAACUAUUAC
..(((((........((((((..(.((((((....)))))).)....)))))).......((.......)).-..)))))............ ( -25.90)
>DroSim_CAF1 9515 92 + 1
CCUUGGCCAACAACUGGGACGCUUGCUGCGGUUAGCCGCAGGACUUUCGUCCUUCUUCUUGCUACCCCUGCCCCAGCCAACUCAACUAUUAC
..(((((........((((((..(.((((((....)))))).)....)))))).......((.......))....)))))............ ( -25.90)
>DroEre_CAF1 4237 89 + 1
CCUUGGCCAGCAACUGGGACGCUUGCUGCGGUUAGCCGCAGGACUUUCGUCCUUCUUGUUG---CCCCUGCCCCGAGCGACGCCACUAUUAC
...((((((((((..((((((..(.((((((....)))))).)....))))))..))))))---....(((.....)))..))))....... ( -33.00)
>DroYak_CAF1 4356 89 + 1
CCUUGGCCAACAACUGGGACGCUUGCUGCGGUUAGCCGCAGGACUUUCGUCCUUCUUGUUG---CCCCCGCCCCGAGAAACUCAACUAUUAC
....(((.(((((..((((((..(.((((((....)))))).)....))))))..))))))---))........(((...)))......... ( -30.70)
>DroAna_CAF1 2212 69 + 1
CCUGGGCCAACAUCAAGGACCCUAGCUGCGGUUAGCCGCAGGACUUUCACCCGUUUUCUUC-UGUCUCU----------------------U
...(((((........)).)))...((((((....))))))(((.................-.)))...----------------------. ( -18.67)
>consensus
CCUUGGCCAACAACUGGGACGCUUGCUGCGGUUAGCCGCAGGACUUUCGUCCUUCUUCUUG_UACCCCUGCCCCAGCCAACUCAACUAUUAC
....((.(((.((..((((((..(.((((((....)))))).)....))))))..)).)))...)).......................... (-17.31 = -18.20 +   0.89)

alignment

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secondary structure

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dotplot

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Window 7

Location 24,793,164 – 24,793,256
Length 92
Sequences 6
Columns 92
Reading direction reverse
Mean pairwise identity 80.35
Mean single sequence MFE -32.07
Consensus MFE -20.31
Energy contribution -21.03
Covariance contribution 0.72
Combinations/Pair 1.14
Mean z-score -2.19
Structure conservation index 0.63
SVM decision value 0.85
SVM RNA-class probability 0.865135
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24793164 92 - 27905053
GUAAUAGUUGAGUUGUCUGGGGCAGGGGUAGCAAGAAGAAGGACGAAAGUCCUGCGGCAAACCGCAGCAAGCGUCCCAGUUGUUGGCCAAGG
......((..(.....(((((((...(.(.((.......(((((....)))))((((....)))).)).).))))))))...)..))..... ( -31.70)
>DroSec_CAF1 9464 91 - 1
GUAAUAGUUGAGUUGGCUG-GGCAGGGGUAGCAAGAAGAAGGACGAAAGUCCUGCGGCUAACCGCAGCAAGCGUCCCAGUUGUUGGCCAAGG
............(((((..-(.((.(((..((.......(((((....)))))((((....)))).....))..)))...)))..))))).. ( -35.00)
>DroSim_CAF1 9515 92 - 1
GUAAUAGUUGAGUUGGCUGGGGCAGGGGUAGCAAGAAGAAGGACGAAAGUCCUGCGGCUAACCGCAGCAAGCGUCCCAGUUGUUGGCCAAGG
......((..(..((((((((((.((..((((.....(.(((((....))))).).)))).))((.....)))))))))))))..))..... ( -36.30)
>DroEre_CAF1 4237 89 - 1
GUAAUAGUGGCGUCGCUCGGGGCAGGGG---CAACAAGAAGGACGAAAGUCCUGCGGCUAACCGCAGCAAGCGUCCCAGUUGCUGGCCAAGG
.......((((((.(((.(((((....(---(.......(((((....)))))((((....)))).))....)))))))).))..))))... ( -36.70)
>DroYak_CAF1 4356 89 - 1
GUAAUAGUUGAGUUUCUCGGGGCGGGGG---CAACAAGAAGGACGAAAGUCCUGCGGCUAACCGCAGCAAGCGUCCCAGUUGUUGGCCAAGG
......((..(.(..((.((((((...(---(.......(((((....)))))((((....)))).))...))))))))..))..))..... ( -33.30)
>DroAna_CAF1 2212 69 - 1
A----------------------AGAGACA-GAAGAAAACGGGUGAAAGUCCUGCGGCUAACCGCAGCUAGGGUCCUUGAUGUUGGCCCAGG
.----------------------.......-.........((((.((.(((((((((....))))))..((....)).))).)).))))... ( -19.40)
>consensus
GUAAUAGUUGAGUUGCCUGGGGCAGGGGUA_CAAGAAGAAGGACGAAAGUCCUGCGGCUAACCGCAGCAAGCGUCCCAGUUGUUGGCCAAGG
..................(((((.................((((....))))(((((....)))))......)))))............... (-20.31 = -21.03 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:31:53 2006