Locus 5242

Sequence ID 2L_DroMel_CAF1
Location 14,792,376 – 14,792,496
Length 120
Max. P 0.979810
window8345 window8346

overview

Window 5

Location 14,792,376 – 14,792,496
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 77.58
Mean single sequence MFE -33.26
Consensus MFE -17.30
Energy contribution -17.78
Covariance contribution 0.48
Combinations/Pair 1.28
Mean z-score -2.01
Structure conservation index 0.52
SVM decision value 0.66
SVM RNA-class probability 0.814410
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14792376 120 + 22407834
UUCCGAAUCAAGAAAUUGCGUUGAUCCAAGGAGAGGAAAAACUGUCAAUAGCAGCAGAAUGGAUGCCAUUCCGAUUACAACGAUCUCCAUUGACGGAAUGCCAACGGAUCAGUUGGGUAA
.(((((..(((....)))..(((((((..(((((.......((((.....))))..((((((...))))))............)))))......((....))...))))))))))))... ( -30.70)
>DroSec_CAF1 38967 120 + 1
UUCCGAAUCAAGAAAUUGCGUUGACCCCAGUAGGGGAAAAAGUGCCAAUAGCAGCAGAAUGAAUGCCAUUCCGAUUACAACGAUCUCCAUUGACGGAAUGCCAACUGAUCAGUUGGGUAA
(((((..((((.......(((((.((((....))))......(((.....)))...(((((.....)))))......))))).......)))))))))..((((((....)))))).... ( -33.94)
>DroSim_CAF1 39556 120 + 1
UUCCGAAUCAAGAAAUUGCGUUGACCCCAGAAGGGGAAAAACUGCCAAUAGCAGCAGAAUGAAUGCCAUUCCGAUUACAACGAUCUCCAUUGACGGAAUGCCAACUGAUCAGUUGGGAAA
(((((..((((.......(((((.((((....)))).....((((.....))))..(((((.....)))))......))))).......)))))))))(.((((((....)))))).).. ( -36.54)
>DroEre_CAF1 31938 120 + 1
UUCCGGAUCAAGGAAUUGGGUUGAUCCCAGGAGAGGAAAAACUGCCAAUAGCAGUAGAAUGGAUGACAUUCCGUUUACAGCGAACUCCAUUGCCGGAAUGCCUGCUGAUCAGUAGGAUGA
((((((..........((((.....))))((((.......(((((.....))))).(((((((......)))))))........))))....))))))..((((((....)))))).... ( -41.40)
>DroYak_CAF1 34870 90 + 1
------------------------------GAGGGCAAAAACUGCCAGUUGCAGCCAAAUGAUUUGCAUUCCGAUCACAACGAUCUCCAUUGCUGGAAUUUCGACUGAUCAGUUGGGUGA
------------------------------...((((.....)))).....((.((((.(((((..(.....((((.....))))((((....)))).....)...))))).)))).)). ( -23.70)
>consensus
UUCCGAAUCAAGAAAUUGCGUUGACCCCAGGAGGGGAAAAACUGCCAAUAGCAGCAGAAUGAAUGCCAUUCCGAUUACAACGAUCUCCAUUGACGGAAUGCCAACUGAUCAGUUGGGUAA
(((((...................((......))(((....((((.....))))..(((((.....))))).((((.....))))))).....)))))..((((((....)))))).... (-17.30 = -17.78 +   0.48)

alignment

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secondary structure

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dotplot

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Window 6

Location 14,792,376 – 14,792,496
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 77.58
Mean single sequence MFE -33.88
Consensus MFE -20.51
Energy contribution -22.42
Covariance contribution 1.91
Combinations/Pair 1.15
Mean z-score -2.35
Structure conservation index 0.61
SVM decision value 1.85
SVM RNA-class probability 0.979810
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14792376 120 - 22407834
UUACCCAACUGAUCCGUUGGCAUUCCGUCAAUGGAGAUCGUUGUAAUCGGAAUGGCAUCCAUUCUGCUGCUAUUGACAGUUUUUCCUCUCCUUGGAUCAACGCAAUUUCUUGAUUCGGAA
....(((((((.(((((((((.....)))))))))..(((..(((..((((((((...)))))))).)))...))))))))............(((((((.........))))))))).. ( -33.70)
>DroSec_CAF1 38967 120 - 1
UUACCCAACUGAUCAGUUGGCAUUCCGUCAAUGGAGAUCGUUGUAAUCGGAAUGGCAUUCAUUCUGCUGCUAUUGGCACUUUUUCCCCUACUGGGGUCAACGCAAUUUCUUGAUUCGGAA
....((((((....))))))..(((((.....(((((((((((....(((((((.....))))))).(((.....)))......((((....)))).)))))..)))))).....))))) ( -36.30)
>DroSim_CAF1 39556 120 - 1
UUUCCCAACUGAUCAGUUGGCAUUCCGUCAAUGGAGAUCGUUGUAAUCGGAAUGGCAUUCAUUCUGCUGCUAUUGGCAGUUUUUCCCCUUCUGGGGUCAACGCAAUUUCUUGAUUCGGAA
....((((((....))))))..(((((.....(((((((((((.....((((((.....))))))(((((.....)))))....((((....)))).)))))..)))))).....))))) ( -39.20)
>DroEre_CAF1 31938 120 - 1
UCAUCCUACUGAUCAGCAGGCAUUCCGGCAAUGGAGUUCGCUGUAAACGGAAUGUCAUCCAUUCUACUGCUAUUGGCAGUUUUUCCUCUCCUGGGAUCAACCCAAUUCCUUGAUCCGGAA
...(((.......(((..(((((((((...((((......))))...))))))))).........(((((.....)))))..........)))(((((((.........)))))))))). ( -34.00)
>DroYak_CAF1 34870 90 - 1
UCACCCAACUGAUCAGUCGAAAUUCCAGCAAUGGAGAUCGUUGUGAUCGGAAUGCAAAUCAUUUGGCUGCAACUGGCAGUUUUUGCCCUC------------------------------
........(((((((..(((..(((((....))))).)))...)))))))...(((((......((((((.....)))))))))))....------------------------------ ( -26.20)
>consensus
UUACCCAACUGAUCAGUUGGCAUUCCGUCAAUGGAGAUCGUUGUAAUCGGAAUGGCAUUCAUUCUGCUGCUAUUGGCAGUUUUUCCCCUCCUGGGAUCAACGCAAUUUCUUGAUUCGGAA
....((((((....))))))(((((((.(((((.....)))))....)))))))...(((.....(((((.....))))).............(((((((.........)))))))))). (-20.51 = -22.42 +   1.91)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:33 2006