Locus 1215

Sequence ID 3L_DroMel_CAF1
Location 3,462,065 – 3,462,213
Length 148
Max. P 0.689982
window1910 window1911

overview

Window 0

Location 3,462,065 – 3,462,180
Length 115
Sequences 4
Columns 115
Reading direction forward
Mean pairwise identity 94.35
Mean single sequence MFE -25.02
Consensus MFE -19.80
Energy contribution -21.37
Covariance contribution 1.56
Combinations/Pair 1.04
Mean z-score -2.16
Structure conservation index 0.79
SVM decision value 0.33
SVM RNA-class probability 0.689982
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3462065 115 + 23771897
CUACAACCCGUGGCGACACAAUUUGCAUAGUAAAUAUUUUAAAUGCCAAUUAAAAUUAUUAGAAAAGUUGGCUGUCUUGUUUGCAGCAUUAUUAUGAGUAAACAAAAGUGCAACA
.........(((....)))...((((((................(((((((..............)))))))....((((((((..(((....))).))))))))..)))))).. ( -24.34)
>DroSec_CAF1 9379 115 + 1
CUACAACCCGUGGCGACACAAUUAGCAUAGUAAAUAUUUUAAAUGCCAAUUAAAAUUAUUAGAAAAGUUGGCUGUCUUGUUUGCAGCAUUAUUAUGCGUAAACAAAAGUGCAACA
.........(((....))).....((((................(((((((..............)))))))....((((((((.((((....))))))))))))..)))).... ( -27.14)
>DroSim_CAF1 9402 112 + 1
CUACA-CCCGUGGCGACACAAUUUGCAUAGUAAAUAUUUUAAAUGCCAAUUAAAAUUAUUAGAAAAGUUGGCUGUCUUGUU-GC-GCAUUAUUAUGCGUAAACAAAAGUGCAACA
.....-...(((....)))...((((((................(((((((..............)))))))....(((((-((-((((....)))))).)))))..)))))).. ( -27.54)
>DroYak_CAF1 9646 115 + 1
CUACAACCCAUGGCGACACAAUUUGCAUAGUAAAUAUUUUAAAUGCCAAUUAAAAUUAUUAGAAAAGUUGGAUGUUUUGUUUGCAGCAUUAUCGUGCGUCAACAAAUGUACAACA
.((((.....(((((.(((.((.(((...(((((((....((...((((((..............))))))...)).))))))).)))..)).)))))))).....))))..... ( -21.04)
>consensus
CUACAACCCGUGGCGACACAAUUUGCAUAGUAAAUAUUUUAAAUGCCAAUUAAAAUUAUUAGAAAAGUUGGCUGUCUUGUUUGCAGCAUUAUUAUGCGUAAACAAAAGUGCAACA
.........(((....)))...((((((................(((((((..............)))))))....((((((((.((((....))))))))))))..)))))).. (-19.80 = -21.37 +   1.56)

alignment

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secondary structure

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dotplot

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Window 1

Location 3,462,102 – 3,462,213
Length 111
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 87.39
Mean single sequence MFE -25.04
Consensus MFE -16.04
Energy contribution -16.54
Covariance contribution 0.50
Combinations/Pair 1.13
Mean z-score -2.32
Structure conservation index 0.64
SVM decision value 0.33
SVM RNA-class probability 0.689698
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3462102 111 + 23771897
UUUAAAUGCCAAUUAAAAUUAUUAGAAAAGUUGGCUGUCUUGUUUGCAGCAUUAUUAUGAGUAAACAAAAGUGCAACAAAUUGUUGUUUACUCCACAAACUAGGUAUUUGU
..((((((((.......................(((((.......)))))........((((((((((.(((.......))).)))))))))).........)))))))). ( -25.80)
>DroSec_CAF1 9416 111 + 1
UUUAAAUGCCAAUUAAAAUUAUUAGAAAAGUUGGCUGUCUUGUUUGCAGCAUUAUUAUGCGUAAACAAAAGUGCAACAAAUUGUUGUUUACUCUCCAAGCCAGGUAUUUGU
..((((((((..((((.....))))......(((((...((((((((.((((....)))))))))))).((((((((.....)))))..))).....))))))))))))). ( -29.30)
>DroSim_CAF1 9438 108 + 1
UUUAAAUGCCAAUUAAAAUUAUUAGAAAAGUUGGCUGUCUUGUU-GC-GCAUUAUUAUGCGUAAACAAAAGUGCAACA-AUUGUUGUUUACUUUCCAAGCCAGGUAUUUGU
..((((((((..((((.....))))......(((((....((((-((-((((....)))))).))))((((((((((.-...)))))..)))))...))))))))))))). ( -29.40)
>DroYak_CAF1 9683 104 + 1
UUUAAAUGCCAAUUAAAAUUAUUAGAAAAGUUGGAUGUUUUGUUUGCAGCAUUAUCGUGCGUCAACAAAUGUACAACAAAUUGUUAUUUGCUACACAAACUAAG-------
...(((((((((((..............)))))).))))).(((((.((((.....((((((......))))))(((.....)))...))))...)))))....------- ( -15.64)
>consensus
UUUAAAUGCCAAUUAAAAUUAUUAGAAAAGUUGGCUGUCUUGUUUGCAGCAUUAUUAUGCGUAAACAAAAGUGCAACAAAUUGUUGUUUACUCCACAAACCAGGUAUUUGU
.......(((((((..............)))))))..(((.(((((..((((....))))((((((((.(((.......))).))))))))....))))).)))....... (-16.04 = -16.54 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:20 2006