Locus 2917

Sequence ID 2L_DroMel_CAF1
Location 8,393,002 – 8,393,162
Length 160
Max. P 0.957887
window4628 window4629

overview

Window 8

Location 8,393,002 – 8,393,122
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 94.44
Mean single sequence MFE -24.60
Consensus MFE -21.20
Energy contribution -21.20
Covariance contribution 0.00
Combinations/Pair 1.07
Mean z-score -2.55
Structure conservation index 0.86
SVM decision value 0.80
SVM RNA-class probability 0.853623
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8393002 120 - 22407834
UACAUUGCCAAGUCCACAAACGCCGCAAAAUACAAUCGAUCAGAUUGGUAUUAACCAGAAUUAUUGGUUUACAUACAACGCGCUUAAACAAAACGAAACAUUGGCAAUUAUUGAUACAAU
...((((((((((......))((.((......(((((.....)))))((((.((((((.....))))))...))))...)))).................))))))))............ ( -24.00)
>DroSec_CAF1 14478 120 - 1
UACAUUGCCAAGUCCACAAAAGCCACAAAAUACAAUCGAUCAGAUUGGUGGUAACCAAAACUAUUGGUUCACAUACAACGCGCUUAGACAAAACGAAACACUGGCAAUUAUUGAUGCAAU
...(((((((.(((.....(((((........(((((.....)))))(((..((((((.....))))))..))).....).)))).))).....(.....))))))))............ ( -23.00)
>DroSim_CAF1 13563 120 - 1
UACAUUGCCAAGUCCACAAAAGCCGCAAAAUACAAUCGAUCAGAUUGGUGUUAACCAAAAUUAUUGGUUCACAUACAACGCGCUUAGACAAAACGAAACACUGGCAAUUAUUGAUGCAAU
...(((((((.(((.....((((.((......(((((.....)))))((((.((((((.....)))))).)))).....)))))).))).....(.....))))))))............ ( -26.80)
>consensus
UACAUUGCCAAGUCCACAAAAGCCGCAAAAUACAAUCGAUCAGAUUGGUGUUAACCAAAAUUAUUGGUUCACAUACAACGCGCUUAGACAAAACGAAACACUGGCAAUUAUUGAUGCAAU
...(((((((.(....)..((((.((......(((((.....)))))(((..((((((.....))))))))).......))))))................)))))))............ (-21.20 = -21.20 +   0.00)

alignment

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secondary structure

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dotplot

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Window 9

Location 8,393,042 – 8,393,162
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 92.78
Mean single sequence MFE -34.57
Consensus MFE -31.32
Energy contribution -30.77
Covariance contribution -0.55
Combinations/Pair 1.10
Mean z-score -2.73
Structure conservation index 0.91
SVM decision value 1.48
SVM RNA-class probability 0.957887
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8393042 120 - 22407834
AUCUCAGUGGUGGGCAGCAGGACAUUCCGAACGGAAAGGCUACAUUGCCAAGUCCACAAACGCCGCAAAAUACAAUCGAUCAGAUUGGUAUUAACCAGAAUUAUUGGUUUACAUACAACG
......((((((.......((((.((((....)))).(((......)))..)))).....))))))......(((((.....)))))((((.((((((.....))))))...)))).... ( -35.50)
>DroSec_CAF1 14518 120 - 1
UAGUCGGUGGUGGGCAGCAGGACAUUCCGAACGGAAAGGCUACAUUGCCAAGUCCACAAAAGCCACAAAAUACAAUCGAUCAGAUUGGUGGUAACCAAAACUAUUGGUUCACAUACAACG
..((.(((.((((((.........((((....)))).(((......)))..))))))....)))))......(((((.....)))))(((..((((((.....))))))..)))...... ( -36.40)
>DroSim_CAF1 13603 120 - 1
UAGUCAGUGGUGGGCAGCAGGACAUUCCAAACGGAAACGCUACAUUGCCAAGUCCACAAAAGCCGCAAAAUACAAUCGAUCAGAUUGGUGUUAACCAAAAUUAUUGGUUCACAUACAACG
......((((..(((((..((.....))...((....)).....)))))....))))...............(((((.....)))))((((.((((((.....)))))).))))...... ( -31.80)
>consensus
UAGUCAGUGGUGGGCAGCAGGACAUUCCGAACGGAAAGGCUACAUUGCCAAGUCCACAAAAGCCGCAAAAUACAAUCGAUCAGAUUGGUGUUAACCAAAAUUAUUGGUUCACAUACAACG
......(((((........((((.((((....)))).(((......)))..))))......)))))......(((((.....)))))(((..((((((.....)))))))))........ (-31.32 = -30.77 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:27 2006