Locus 9180

Sequence ID 3R_DroMel_CAF1
Location 24,490,452 – 24,490,549
Length 97
Max. P 0.999962
window14683 window14684

overview

Window 3

Location 24,490,452 – 24,490,549
Length 97
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 97.29
Mean single sequence MFE -35.65
Consensus MFE -32.45
Energy contribution -32.62
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.93
Structure conservation index 0.91
SVM decision value 3.77
SVM RNA-class probability 0.999601
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24490452 97 + 27905053
UGAUUUCGCCUGGAAGGC----AGGCAGCCUCAAGUGCAAAUUGCUUCAUUUGUAUGCAAUUUGCGGGUUUGCCUGUGCGUUUCGGCUUUUGGGUUGCUUC
.......(((..((((((----(((((((((.....(((((((((...........)))))))))))).)))))))).((...)).))))..)))...... ( -35.10)
>DroSec_CAF1 33414 97 + 1
UGAUUUCGCCUGGAAGGC----AGGCAGCCUCAAGUGCAAAUUGCUUCAUUUGUAUGCAAUUUGCGGGUUUGCCUGUGCGUUUCGGCUUUUGGGUUGCUUC
.......(((..((((((----(((((((((.....(((((((((...........)))))))))))).)))))))).((...)).))))..)))...... ( -35.10)
>DroSim_CAF1 45249 97 + 1
UGAUUUCGCCUGGAAGGC----AGGCAGCCUCAAGUGCAAAUUGCUUCAUUUGUAUGCAAUUUGCGGGUUUGCCUGUGCGUUUCGGCUUUUGGGUUGCUUC
.......(((..((((((----(((((((((.....(((((((((...........)))))))))))).)))))))).((...)).))))..)))...... ( -35.10)
>DroEre_CAF1 38290 97 + 1
UGAUUUCGCCUGGAAGGC----AGGCAGCCUCAAGUGCAAAUUGCUUCAUUUGUAUGCAAUUUGCGGGUUUGCCUGUGCGUUUCGGCUUUUGGGUUGCUUC
.......(((..((((((----(((((((((.....(((((((((...........)))))))))))).)))))))).((...)).))))..)))...... ( -35.10)
>DroYak_CAF1 43753 97 + 1
UGAUUUCGCCUGGAAGGC----AGGCAGCCUCAAGUGCAAAUUGCUUCAUUUGUAUGCAAUUUGCGGGUUUGCCUGUGCGUUUCGGCUUUUGGGUUGCUUC
.......(((..((((((----(((((((((.....(((((((((...........)))))))))))).)))))))).((...)).))))..)))...... ( -35.10)
>DroAna_CAF1 30685 100 + 1
UGAUUUCGCCUGUAAGGCAGCCAGGCAGCCUCAAGUGCAAAUUGCUUCAUUUGUAUGCAAUUUGCGGGUUUGCCUGUGCGUUUCGGCUU-UGGGUUGCCUU
.......(((.....)))....(((((((((.(((((((((((((...........))))))))).((..(((....)))..)).))))-.))))))))). ( -38.40)
>consensus
UGAUUUCGCCUGGAAGGC____AGGCAGCCUCAAGUGCAAAUUGCUUCAUUUGUAUGCAAUUUGCGGGUUUGCCUGUGCGUUUCGGCUUUUGGGUUGCUUC
.......(((.((((.((....(((((((((.....(((((((((...........)))))))))))).))))))..)).))))))).............. (-32.45 = -32.62 +   0.17)

alignment

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secondary structure

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dotplot

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Window 4

Location 24,490,452 – 24,490,549
Length 97
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 97.29
Mean single sequence MFE -28.55
Consensus MFE -27.00
Energy contribution -27.17
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -3.30
Structure conservation index 0.95
SVM decision value 4.92
SVM RNA-class probability 0.999962
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24490452 97 - 27905053
GAAGCAACCCAAAAGCCGAAACGCACAGGCAAACCCGCAAAUUGCAUACAAAUGAAGCAAUUUGCACUUGAGGCUGCCU----GCCUUCCAGGCGAAAUCA
((.(((.(((((..(((..........)))......(((((((((...........)))))))))..))).)).))).(----(((.....))))...)). ( -27.70)
>DroSec_CAF1 33414 97 - 1
GAAGCAACCCAAAAGCCGAAACGCACAGGCAAACCCGCAAAUUGCAUACAAAUGAAGCAAUUUGCACUUGAGGCUGCCU----GCCUUCCAGGCGAAAUCA
((.(((.(((((..(((..........)))......(((((((((...........)))))))))..))).)).))).(----(((.....))))...)). ( -27.70)
>DroSim_CAF1 45249 97 - 1
GAAGCAACCCAAAAGCCGAAACGCACAGGCAAACCCGCAAAUUGCAUACAAAUGAAGCAAUUUGCACUUGAGGCUGCCU----GCCUUCCAGGCGAAAUCA
((.(((.(((((..(((..........)))......(((((((((...........)))))))))..))).)).))).(----(((.....))))...)). ( -27.70)
>DroEre_CAF1 38290 97 - 1
GAAGCAACCCAAAAGCCGAAACGCACAGGCAAACCCGCAAAUUGCAUACAAAUGAAGCAAUUUGCACUUGAGGCUGCCU----GCCUUCCAGGCGAAAUCA
((.(((.(((((..(((..........)))......(((((((((...........)))))))))..))).)).))).(----(((.....))))...)). ( -27.70)
>DroYak_CAF1 43753 97 - 1
GAAGCAACCCAAAAGCCGAAACGCACAGGCAAACCCGCAAAUUGCAUACAAAUGAAGCAAUUUGCACUUGAGGCUGCCU----GCCUUCCAGGCGAAAUCA
((.(((.(((((..(((..........)))......(((((((((...........)))))))))..))).)).))).(----(((.....))))...)). ( -27.70)
>DroAna_CAF1 30685 100 - 1
AAGGCAACCCA-AAGCCGAAACGCACAGGCAAACCCGCAAAUUGCAUACAAAUGAAGCAAUUUGCACUUGAGGCUGCCUGGCUGCCUUACAGGCGAAAUCA
..(((......-..)))((...((.((((((..((.(((((((((...........)))))))))....).)..))))))))((((.....))))...)). ( -32.80)
>consensus
GAAGCAACCCAAAAGCCGAAACGCACAGGCAAACCCGCAAAUUGCAUACAAAUGAAGCAAUUUGCACUUGAGGCUGCCU____GCCUUCCAGGCGAAAUCA
...(((.(((((..(((..........)))......(((((((((...........)))))))))..))).)).)))......(((.....)))....... (-27.00 = -27.17 +   0.17)

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 13:28:20 2006