Locus 3474

Sequence ID 2L_DroMel_CAF1
Location 10,110,117 – 10,110,230
Length 113
Max. P 0.826743
window5492 window5493

overview

Window 2

Location 10,110,117 – 10,110,230
Length 113
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 83.09
Mean single sequence MFE -31.32
Consensus MFE -23.55
Energy contribution -24.26
Covariance contribution 0.71
Combinations/Pair 1.21
Mean z-score -1.92
Structure conservation index 0.75
SVM decision value 0.70
SVM RNA-class probability 0.826743
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10110117 113 + 22407834
UUGCGCAUUACGCAUACGCAGUGUGGGCGCAAUUGCAUUGGGGUGGCUCACAUUUGUAUGCAAAUUUUAAAGCUGCCAUUUUCAAAUGCUUAUGAGGAGCACUGAUGUUUUUU
((((((.((((((.......))))))))))))..((((..(((..(((...(((((....))))).....)))..)).........(((((.....))))))..))))..... ( -36.00)
>DroSec_CAF1 36415 108 + 1
UUGCGCAUUACGCAUACGCAGUGUGGGCGCAACUGCAUUGGGGUGGCUCACAUUUGUAUGCUAAUUUUAAAGCAGUCAUUUUCAAAUGCUUAUGAGAAGCACUUAUAU-----
.(((.......(((((((.(((((((((((..(......)..)).))))))))))))))))...((((((((((............))))).))))).))).......----- ( -32.00)
>DroSim_CAF1 39876 108 + 1
UUGCGCAUUACGCAUACGCAGUGUGGGCGCAAAUGCAUUGGGGUGGCUCACAUUUGUAUGCUAAUUUUAAAGCAGCCAUUCUCAAAUGCUUAUGAGAAGCACUUAUAU-----
((((((.((((((.......))))))))))))..(((((((((((((..((....)).((((........))))))))))))..))))).((((((.....)))))).----- ( -34.60)
>DroEre_CAF1 35058 91 + 1
UUGCGCAUUACGCAUACGCAGCGUGGGUGCAUCUGCAUUGGGGUGGCUCACAUUCGUAUGCAAAUUUUAAAGCUUCCAUUU-----------------GCACUCCCAC-----
...........(((((((.((.((((((.(((((......))))))))))).)))))))))..........((........-----------------))........----- ( -24.40)
>DroYak_CAF1 36574 108 + 1
UUGCGCAUUACGCAUACGCAGUGUGGGUGCAGCUGCAUUGGGGUGCUUCACAUUUGUAUGCUAAUUUUAAAGCUUCCACUUUCAAAUGCUCAUGAGGAGCACUUACAU-----
..((..((((.(((((((.((((((((.(((.((......)).))))))))))))))))))))))......)).............(((((.....))))).......----- ( -29.60)
>consensus
UUGCGCAUUACGCAUACGCAGUGUGGGCGCAACUGCAUUGGGGUGGCUCACAUUUGUAUGCUAAUUUUAAAGCUGCCAUUUUCAAAUGCUUAUGAGAAGCACUUAUAU_____
.(((.......(((((((.(((((((((.((.((......)).)))))))))))))))))).................((((((........)))))))))............ (-23.55 = -24.26 +   0.71)

alignment

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secondary structure

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dotplot

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Window 3

Location 10,110,117 – 10,110,230
Length 113
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 83.09
Mean single sequence MFE -28.34
Consensus MFE -16.69
Energy contribution -17.08
Covariance contribution 0.39
Combinations/Pair 1.05
Mean z-score -2.15
Structure conservation index 0.59
SVM decision value 0.34
SVM RNA-class probability 0.693844
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10110117 113 - 22407834
AAAAAACAUCAGUGCUCCUCAUAAGCAUUUGAAAAUGGCAGCUUUAAAAUUUGCAUACAAAUGUGAGCCACCCCAAUGCAAUUGCGCCCACACUGCGUAUGCGUAAUGCGCAA
........((((((((.......)))).))))....(((.((((....(((((....)))))..)))).........((....))))).....(((((((.....))))))). ( -25.80)
>DroSec_CAF1 36415 108 - 1
-----AUAUAAGUGCUUCUCAUAAGCAUUUGAAAAUGACUGCUUUAAAAUUAGCAUACAAAUGUGAGCCACCCCAAUGCAGUUGCGCCCACACUGCGUAUGCGUAAUGCGCAA
-----...(((((((((.....))))))))).....((((((..........((.(((....))).)).........))))))((((.......)))).((((.....)))). ( -26.31)
>DroSim_CAF1 39876 108 - 1
-----AUAUAAGUGCUUCUCAUAAGCAUUUGAGAAUGGCUGCUUUAAAAUUAGCAUACAAAUGUGAGCCACCCCAAUGCAUUUGCGCCCACACUGCGUAUGCGUAAUGCGCAA
-----...(((((((((((((........))))))((((((((........))).(((....)))))))).......))))))).........(((((((.....))))))). ( -30.20)
>DroEre_CAF1 35058 91 - 1
-----GUGGGAGUGC-----------------AAAUGGAAGCUUUAAAAUUUGCAUACGAAUGUGAGCCACCCCAAUGCAGAUGCACCCACGCUGCGUAUGCGUAAUGCGCAA
-----(((((.((((-----------------(...((..((((....(((((....)))))..))))..))....)))....)).)))))..(((((((.....))))))). ( -27.80)
>DroYak_CAF1 36574 108 - 1
-----AUGUAAGUGCUCCUCAUGAGCAUUUGAAAGUGGAAGCUUUAAAAUUAGCAUACAAAUGUGAAGCACCCCAAUGCAGCUGCACCCACACUGCGUAUGCGUAAUGCGCAA
-----...(((((((((.....)))))))))...((((..(((........)))........(((.(((...........))).)))))))..(((((((.....))))))). ( -31.60)
>consensus
_____AUAUAAGUGCUCCUCAUAAGCAUUUGAAAAUGGCAGCUUUAAAAUUAGCAUACAAAUGUGAGCCACCCCAAUGCAGUUGCGCCCACACUGCGUAUGCGUAAUGCGCAA
...........((((...(((........)))....................((((((....(((...)))......((((.((......)))))))))))).....)))).. (-16.69 = -17.08 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:21 2006