Locus 4083

Sequence ID X_DroMel_CAF1
Location 10,780,796 – 10,780,980
Length 184
Max. P 0.640030
window6712 window6713 window6714

overview

Window 2

Location 10,780,796 – 10,780,888
Length 92
Sequences 3
Columns 92
Reading direction forward
Mean pairwise identity 94.87
Mean single sequence MFE -19.13
Consensus MFE -18.48
Energy contribution -18.48
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.55
Structure conservation index 0.97
SVM decision value 0.22
SVM RNA-class probability 0.640030
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10780796 92 + 22224390
GUUGAGGUGUUGUUUAGAUUAAAAAAAAAAAAACAAAAGCCAAAACACUCUAUCGAGUUUCACUUCGUGGCAGCCAAAAACCGCACCUCCUG
...((((((((((((...............)))))...((((....((((....)))).........))))...........)))))))... ( -18.48)
>DroSec_CAF1 30347 89 + 1
GUUGAGGUGUUGUUUAGAUAAA---AAAAAAAACAAAAGCCAAAACACUCUAUCGAGUUUCACUUCGUGGCAGCCAAACGCCGCACCUCCUG
...((((((((((((.......---.....))))))..........((((....))))..))))))(((((........)))))........ ( -19.40)
>DroSim_CAF1 29009 88 + 1
GUUGAGGUGUUGUUUAGAUAAA---AA-AAAAACAAAAGCCAAAACACUCUAUCGAGUUUCACUUCGUGGCAGCCAAAAGCCGCACCUCCUG
...((((((((((((.......---..-..))))))..........((((....))))..))))))(((((........)))))........ ( -19.50)
>consensus
GUUGAGGUGUUGUUUAGAUAAA___AAAAAAAACAAAAGCCAAAACACUCUAUCGAGUUUCACUUCGUGGCAGCCAAAAGCCGCACCUCCUG
...((((((((((((...............)))))...((((....((((....)))).........))))...........)))))))... (-18.48 = -18.48 +   0.00)

alignment

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secondary structure

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dotplot

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Window 3

Location 10,780,822 – 10,780,928
Length 106
Sequences 3
Columns 106
Reading direction forward
Mean pairwise identity 95.60
Mean single sequence MFE -20.10
Consensus MFE -17.89
Energy contribution -18.00
Covariance contribution 0.11
Combinations/Pair 1.05
Mean z-score -1.86
Structure conservation index 0.89
SVM decision value 0.12
SVM RNA-class probability 0.593425
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10780822 106 + 22224390
AAAAAAACAAAAGCCAAAACACUCUAUCGAGUUUCACUUCGUGGCAGCCAAAAACCGCACCUCCUGCCACCGCUCCAUGUGUUUCAUCUAGCCACAUGUUUUAUAG
...........(((......((((....))))........(((((((................))))))).))).((((((((......)).))))))........ ( -19.49)
>DroSec_CAF1 30370 106 + 1
AAAAAAACAAAAGCCAAAACACUCUAUCGAGUUUCACUUCGUGGCAGCCAAACGCCGCACCUCCUGCCCCCGCUCCUUGUGUUUCAUCUAGCCACAAGUUUUAUAG
...............(((((((((....))))........(((((.((.....)).((((.....((....)).....))))........)))))..))))).... ( -18.70)
>DroSim_CAF1 29032 105 + 1
A-AAAAACAAAAGCCAAAACACUCUAUCGAGUUUCACUUCGUGGCAGCCAAAAGCCGCACCUCCUGCCCCCGCUCCUUGUGCUUCAUCUAGCCACAUGUUUUAUAG
.-.((((((...........((((....))))........(((((.((.....)).((((.....((....)).....))))........))))).)))))).... ( -22.10)
>consensus
AAAAAAACAAAAGCCAAAACACUCUAUCGAGUUUCACUUCGUGGCAGCCAAAAGCCGCACCUCCUGCCCCCGCUCCUUGUGUUUCAUCUAGCCACAUGUUUUAUAG
...............(((((((((....))))........(((((.((.....)).((((.....((....)).....))))........)))))..))))).... (-17.89 = -18.00 +   0.11)

alignment

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secondary structure

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dotplot

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Window 4

Location 10,780,888 – 10,780,980
Length 92
Sequences 3
Columns 92
Reading direction reverse
Mean pairwise identity 97.10
Mean single sequence MFE -25.67
Consensus MFE -23.95
Energy contribution -24.07
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -1.69
Structure conservation index 0.93
SVM decision value 0.14
SVM RNA-class probability 0.602382
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10780888 92 - 22224390
AGUUUCGAGGGUAUUGAUACAUUCUUGGCAUAGCUGAGAAGUCGGAAUGGCCCUAUAAAACAUGUGGCUAGAUGAAACACAUGGAGCGGUGG
.((((..(((((.(((((...((((..((...))..)))))))))....)))))......((((((.(.....)...))))))))))..... ( -25.30)
>DroSec_CAF1 30436 92 - 1
AGUUUCGAGGGUAUUGAUACAUUCUUGGCAUAGCUGAGAAGUCGGAAUGGCCCUAUAAAACUUGUGGCUAGAUGAAACACAAGGAGCGGGGG
..(..(((((((.(((((...((((..((...))..)))))))))....)))))......((((((.(.....)...))))))...))..). ( -26.50)
>DroSim_CAF1 29097 92 - 1
AGUUUCGAGGGUAUUGAUACAUUCUUGGCAUAGCUGAGAAGUCGGAAUGGCCCUAUAAAACAUGUGGCUAGAUGAAGCACAAGGAGCGGGGG
.(((((.(((((.(((((...((((..((...))..)))))))))....)))))........((((.((......)))))).)))))..... ( -25.20)
>consensus
AGUUUCGAGGGUAUUGAUACAUUCUUGGCAUAGCUGAGAAGUCGGAAUGGCCCUAUAAAACAUGUGGCUAGAUGAAACACAAGGAGCGGGGG
.(((((.(((((.(((((...((((..((...))..)))))))))....))))).......(((((.(.....)...))))))))))..... (-23.95 = -24.07 +   0.11)

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 11:15:58 2006