Locus 6490

Sequence ID 3L_DroMel_CAF1
Location 17,256,066 – 17,256,291
Length 225
Max. P 0.626960
window10469 window10470

overview

Window 9

Location 17,256,066 – 17,256,183
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.39
Mean single sequence MFE -24.62
Consensus MFE -20.20
Energy contribution -19.84
Covariance contribution -0.36
Combinations/Pair 1.16
Mean z-score -1.39
Structure conservation index 0.82
SVM decision value 0.19
SVM RNA-class probability 0.626960
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17256066 117 - 23771897
ACAGGACCCAUGUCGAGCAUUGUCCAAAUACGAAAAGUAGCAAAAAGUUAUUUAUUAUAUUUGCCCGACUGCAAACACAAAGGGCAGUAUUC---UCCGCCGCAUCCUUCACAUCUUCCA
...(((...((((.((((((((..((((((..(.(((((((.....))))))).)..))))))..))).)))..........(((.(.....---.).))).......))))))..))). ( -25.50)
>DroSec_CAF1 139781 117 - 1
ACAGGACCCAUGUCGAGCAUUGUCCAAAUUCGAAAAGUAGCAAAAAGUUAUUUAUUAUAUUUGCCCGACUGCAAACACAAAGGGCAGUAUCC---UCCGCCGCAUCCUCCGCAUCCUUCA
..((((.....((.(((.(((((((.........(((((((.....)))))))......(((((......)))))......)))))))...)---)).)).((.......)).))))... ( -23.10)
>DroSim_CAF1 134617 117 - 1
ACAGGACCCAUGUCGAGCAUUGUCCAAAUACGAAAAGUAGCAAAAAGUUAUUUAUUAUAUUUGCCCGACUGCAAACACAAAGGGAAGUAUCC---UCCGCCGCAUCCUCCACAUCUUCCA
...(((...((((.((((((((..((((((..(.(((((((.....))))))).)..))))))..))).))).........((((....)))---)...........)).))))..))). ( -24.30)
>DroEre_CAF1 142906 117 - 1
ACAGGACCCAUGUCGAGCAUUGACCAAAUACGGAAAGUAGCAAAAAGUUAUUUAUUAUAUUUGCCCGACUGCAAACACAAAGGGCAGUAUCC---UUCGCCGUAUCCUCCGCAUCCUCCG
...(((...((((.(((..........((((((.(((((((.....))))))).......((((((...((......))..)))))).....---....)))))).))).))))..))). ( -26.30)
>DroYak_CAF1 146886 120 - 1
ACAGGACCCAUGUCGAGCAUUGACCAAAUACGAAAAGUAGCAAAAAGUUAUUUAUUAUAUUUGCCCGACUGCAAACACAAAGGGCAUCCUCCACAUCCUCCGCAUCCUCCACAUCCUUUG
...(((...((((.(((...((...(((((..(.(((((((.....))))))).)..)))))((((...((......))..))))........))..))).))))..))).......... ( -23.90)
>consensus
ACAGGACCCAUGUCGAGCAUUGUCCAAAUACGAAAAGUAGCAAAAAGUUAUUUAUUAUAUUUGCCCGACUGCAAACACAAAGGGCAGUAUCC___UCCGCCGCAUCCUCCACAUCCUCCA
...(((...((((.((((((((..((((((..(.(((((((.....))))))).)..))))))..))).)))..........(((.............)))......)).))))..))). (-20.20 = -19.84 +  -0.36)

alignment

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secondary structure

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dotplot

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Window 0

Location 17,256,183 – 17,256,291
Length 108
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 86.14
Mean single sequence MFE -25.36
Consensus MFE -20.58
Energy contribution -20.58
Covariance contribution 0.00
Combinations/Pair 1.11
Mean z-score -1.53
Structure conservation index 0.81
SVM decision value 0.13
SVM RNA-class probability 0.597760
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17256183 108 - 23771897
AAAGUA--------GUAUAUAGUAUAUUGAUUUUCCGUUCGCAUUCGG----AUGAGUGCAGAAAAGUAGCCGAGAGGCAAUCGAAAUGCCAUUAGAGAGACAAAGUUUAAAGCGGAGGA
....((--------(((((...))))))).(((((((((.((((((..----..)))))).........(((....)))................................))))))))) ( -24.30)
>DroSec_CAF1 139898 112 - 1
AAAGUA--------GUAUAUAGUAUAUUGAUUUUCCGUUCGCAGUCGGACGGAUGAGUGCAGAAAAGUAGCCGAGAGGCUAUCGAAAUGCCAUUAGAGAGACAAAGUUUAAAGCGGAGGA
....((--------(((((...))))))).(((((((((.((.(((.....((((...(((.....((((((....)))))).....))))))).....)))...))....))))))))) ( -27.20)
>DroSim_CAF1 134734 112 - 1
AAAGUA--------GUAUAUAGUAUAUUGAUUUUCCGUUCGCAGUCGGAUGGAUGAGUGCAGAAAAGUAGCCGAGAGGCAAUCGAAAUGCCAUUAGAGAGACAAAGUUUAAAGCGGAGGA
....((--------(((((...))))))).(((((((((.(((.(((......))).))).........(((....)))................................))))))))) ( -24.10)
>DroEre_CAF1 143023 97 - 1
-------------------UAGUGUAUUGAUUUUCCGCUCGCAGUCGG----AUGAGUGCGGAAAAGUCGCCGAGAGGCAAUCGAAAUGCCAUUAGAGAGACAAAGUUUAAAGCGCAGAA
-------------------..((((.((((((((((((.(.((.....----.)).).))))))))((((((....)))..((............))..))).....)))).)))).... ( -28.10)
>DroYak_CAF1 147006 116 - 1
GAAGUAUAUAUAGUAUAUAUAAUGUAUUGAUUUUCCGUUCGGAAUCGG----AUGAGUGCAGAAAAGUAGCCGAGAGGCAAUCGAAAAGCCAUUAGAGAGACAAAGUUUAAAGCGGAGAA
..((((((((((.....))).)))))))..(((((((((.((..((((----.....(((......)))(((....)))..))))....)).......((((...))))..))))))))) ( -23.10)
>consensus
AAAGUA________GUAUAUAGUAUAUUGAUUUUCCGUUCGCAGUCGG____AUGAGUGCAGAAAAGUAGCCGAGAGGCAAUCGAAAUGCCAUUAGAGAGACAAAGUUUAAAGCGGAGGA
..............................(((((((((.(((.(((......))).))).........(((....)))................................))))))))) (-20.58 = -20.58 +   0.00)

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 12:21:01 2006