Locus 6363

Sequence ID 3L_DroMel_CAF1
Location 17,034,629 – 17,034,761
Length 132
Max. P 0.940417
window10192 window10193 window10194

overview

Window 2

Location 17,034,629 – 17,034,731
Length 102
Sequences 3
Columns 102
Reading direction reverse
Mean pairwise identity 98.69
Mean single sequence MFE -33.10
Consensus MFE -29.07
Energy contribution -29.40
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.13
Structure conservation index 0.88
SVM decision value 0.28
SVM RNA-class probability 0.666514
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17034629 102 - 23771897
CCGUUGCCGCCAUUGCGAUUGCGAUUGCUAUUGCUAUUGCAACUGCUGCUGCUUUUACUGACUCUUUAUGUCGGUCCGUAUAAGCAUCCGGGGUUUUUCGGG
(((..(((.((...(((.(((((((.((....)).))))))).)))...(((((.(((.((((.........)))).))).)))))...)))))....))). ( -34.60)
>DroSec_CAF1 2224 102 - 1
CCGUUGCCGCCAUUGCGAUUGCGAUUGCUAUUGCUAUUGCAACUGCUGCUGCUUUUACUGACUCUUUAUGUCGGUCCGUAUAAGGAUCCGGUGUUUUUCGGG
..((.((.((..(((((((.(((((....))))).)))))))..)).)).)).....((((......((..((((((......))).)))..))...)))). ( -32.30)
>DroSim_CAF1 2702 102 - 1
CCGUUGCCGCCAUUGCGAUUGCGAUUGCUAUUGCUAUUGCAACUGCUGCUGCUUUUACUGACUCUUUAUGUCGGUCCGUAUAAGGAUCCGGGGUUUUUCGGG
(((..(((.((...(((.(((((((.((....)).))))))).))).............(((.......)))(((((......))))).)))))....))). ( -32.40)
>consensus
CCGUUGCCGCCAUUGCGAUUGCGAUUGCUAUUGCUAUUGCAACUGCUGCUGCUUUUACUGACUCUUUAUGUCGGUCCGUAUAAGGAUCCGGGGUUUUUCGGG
..((.((.((..(((((((.(((((....))))).)))))))..)).)).)).....((((......((.(((((((......))).)))).))...)))). (-29.07 = -29.40 +   0.33)

alignment

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secondary structure

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dotplot

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Window 3

Location 17,034,669 – 17,034,761
Length 92
Sequences 3
Columns 92
Reading direction forward
Mean pairwise identity 100.00
Mean single sequence MFE -24.10
Consensus MFE -24.10
Energy contribution -24.10
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.19
Structure conservation index 1.00
SVM decision value 1.29
SVM RNA-class probability 0.940417
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17034669 92 + 23771897
GUCAGUAAAAGCAGCAGCAGUUGCAAUAGCAAUAGCAAUCGCAAUCGCAAUGGCGGCAACGGUUGCCUUUGUAAAUAAAUAACUUAUUUAGC
..........(((((....)))))....((((..(((((((...((((....))))...)))))))..))))((((((.....))))))... ( -24.10)
>DroSec_CAF1 2264 92 + 1
GUCAGUAAAAGCAGCAGCAGUUGCAAUAGCAAUAGCAAUCGCAAUCGCAAUGGCGGCAACGGUUGCCUUUGUAAAUAAAUAACUUAUUUAGC
..........(((((....)))))....((((..(((((((...((((....))))...)))))))..))))((((((.....))))))... ( -24.10)
>DroSim_CAF1 2742 92 + 1
GUCAGUAAAAGCAGCAGCAGUUGCAAUAGCAAUAGCAAUCGCAAUCGCAAUGGCGGCAACGGUUGCCUUUGUAAAUAAAUAACUUAUUUAGC
..........(((((....)))))....((((..(((((((...((((....))))...)))))))..))))((((((.....))))))... ( -24.10)
>consensus
GUCAGUAAAAGCAGCAGCAGUUGCAAUAGCAAUAGCAAUCGCAAUCGCAAUGGCGGCAACGGUUGCCUUUGUAAAUAAAUAACUUAUUUAGC
..........(((((....)))))....((((..(((((((...((((....))))...)))))))..))))((((((.....))))))... (-24.10 = -24.10 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 4

Location 17,034,669 – 17,034,761
Length 92
Sequences 3
Columns 92
Reading direction reverse
Mean pairwise identity 100.00
Mean single sequence MFE -22.60
Consensus MFE -22.60
Energy contribution -22.60
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.66
Structure conservation index 1.00
SVM decision value 0.52
SVM RNA-class probability 0.766040
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17034669 92 - 23771897
GCUAAAUAAGUUAUUUAUUUACAAAGGCAACCGUUGCCGCCAUUGCGAUUGCGAUUGCUAUUGCUAUUGCAACUGCUGCUGCUUUUACUGAC
..((((((((...)))))))).(((((((......((.((..(((((((.(((((....))))).)))))))..)).)))))))))...... ( -22.60)
>DroSec_CAF1 2264 92 - 1
GCUAAAUAAGUUAUUUAUUUACAAAGGCAACCGUUGCCGCCAUUGCGAUUGCGAUUGCUAUUGCUAUUGCAACUGCUGCUGCUUUUACUGAC
..((((((((...)))))))).(((((((......((.((..(((((((.(((((....))))).)))))))..)).)))))))))...... ( -22.60)
>DroSim_CAF1 2742 92 - 1
GCUAAAUAAGUUAUUUAUUUACAAAGGCAACCGUUGCCGCCAUUGCGAUUGCGAUUGCUAUUGCUAUUGCAACUGCUGCUGCUUUUACUGAC
..((((((((...)))))))).(((((((......((.((..(((((((.(((((....))))).)))))))..)).)))))))))...... ( -22.60)
>consensus
GCUAAAUAAGUUAUUUAUUUACAAAGGCAACCGUUGCCGCCAUUGCGAUUGCGAUUGCUAUUGCUAUUGCAACUGCUGCUGCUUUUACUGAC
..((((((((...)))))))).(((((((......((.((..(((((((.(((((....))))).)))))))..)).)))))))))...... (-22.60 = -22.60 +  -0.00)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:33 2006