Locus 21

Sequence ID Bcere.0
Location 4,764,047 – 4,764,120
Length 73
Max. P 0.999905
window132 window133 window134 window135

overview

Window 2

Location 4,764,047 – 4,764,120
Length 73
Sequences 3
Columns 73
Reading direction forward
Mean pairwise identity 74.43
Mean single sequence MFE -22.35
Consensus MFE -17.94
Energy contribution -18.50
Covariance contribution 0.56
Combinations/Pair 1.06
Mean z-score -4.96
Structure conservation index 0.80
SVM decision value 4.45
SVM RNA-class probability 0.999900
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 4764047 73 + 5224283
AGGUCAAUACAUGAAAGGGCAUAACAUAUUAGUCAUAUAUAAUAUGUUAUGCCCUUUGUUAUUCAACUCACGC
.............((((((((((((((((((........))))))))))))))))))................ ( -25.40)
>Bhalo.0 307207 73 + 4202352
AGGUAAAUAAAUUAAAGGACAUAACAUAGUUUACAUGGCUAAUAGGUUAUGUCCUUUUUUGUUCAACUAACGC
.(((.((((((..((((((((((((.(((((.....)))))....))))))))))))))))))..)))..... ( -20.60)
>Bclau.0 2264084 72 - 4303871
AGUUAGAUA-AUUAAAGGACAUAACAUAUUGUAUAUGACGAAUAUGUUAUGUCCUCUCUCACUCAGCGAACAC
.(((.((..-.....(((((((((((((((((.....)).))))))))))))))).......)))))...... ( -21.04)
>consensus
AGGUAAAUA_AUUAAAGGACAUAACAUAUUAUACAUGACUAAUAUGUUAUGUCCUUUCUUAUUCAACUAACGC
.............(((((((((((((((((..........)))))))))))))))))................ (-17.94 = -18.50 +   0.56)

alignment

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secondary structure

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dotplot

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Window 3

Location 4,764,047 – 4,764,120
Length 73
Sequences 3
Columns 73
Reading direction reverse
Mean pairwise identity 74.43
Mean single sequence MFE -22.17
Consensus MFE -19.44
Energy contribution -19.00
Covariance contribution -0.44
Combinations/Pair 1.21
Mean z-score -4.55
Structure conservation index 0.88
SVM decision value 4.48
SVM RNA-class probability 0.999905
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 4764047 73 + 5224283
GCGUGAGUUGAAUAACAAAGGGCAUAACAUAUUAUAUAUGACUAAUAUGUUAUGCCCUUUCAUGUAUUGACCU
(((((((((....))).(((((((((((((((((........)))))))))))))))))))))))........ ( -28.50)
>Bhalo.0 307207 73 + 4202352
GCGUUAGUUGAACAAAAAAGGACAUAACCUAUUAGCCAUGUAAACUAUGUUAUGUCCUUUAAUUUAUUUACCU
..(((.....)))...((((((((((((....(((.........))).))))))))))))............. ( -14.80)
>Bclau.0 2264084 72 - 4303871
GUGUUCGCUGAGUGAGAGAGGACAUAACAUAUUCGUCAUAUACAAUAUGUUAUGUCCUUUAAU-UAUCUAACU
...(((((...)))))(((((((((((((((((.((.....)))))))))))))))))))...-......... ( -23.20)
>consensus
GCGUUAGUUGAAUAAAAAAGGACAUAACAUAUUAGACAUGUAAAAUAUGUUAUGUCCUUUAAU_UAUUUACCU
((....))........(((((((((((((((((..........)))))))))))))))))............. (-19.44 = -19.00 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 4

Location 4,764,047 – 4,764,120
Length 73
Sequences 3
Columns 73
Reading direction forward
Mean pairwise identity 74.43
Mean single sequence MFE -22.35
Consensus MFE -17.94
Energy contribution -18.50
Covariance contribution 0.56
Combinations/Pair 1.06
Mean z-score -4.96
Structure conservation index 0.80
SVM decision value 4.45
SVM RNA-class probability 0.999900
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 4764047 73 + 5224283/0-73
AGGUCAAUACAUGAAAGGGCAUAACAUAUUAGUCAUAUAUAAUAUGUUAUGCCCUUUGUUAUUCAACUCACGC
.............((((((((((((((((((........))))))))))))))))))................ ( -25.40)
>Bhalo.0 307207 73 + 4202352/0-73
AGGUAAAUAAAUUAAAGGACAUAACAUAGUUUACAUGGCUAAUAGGUUAUGUCCUUUUUUGUUCAACUAACGC
.(((.((((((..((((((((((((.(((((.....)))))....))))))))))))))))))..)))..... ( -20.60)
>Bclau.0 2264084 72 - 4303871/0-73
AGUUAGAUA-AUUAAAGGACAUAACAUAUUGUAUAUGACGAAUAUGUUAUGUCCUCUCUCACUCAGCGAACAC
.(((.((..-.....(((((((((((((((((.....)).))))))))))))))).......)))))...... ( -21.04)
>consensus
AGGUAAAUA_AUUAAAGGACAUAACAUAUUAUACAUGACUAAUAUGUUAUGUCCUUUCUUAUUCAACUAACGC
.............(((((((((((((((((..........)))))))))))))))))................ (-17.94 = -18.50 +   0.56)

alignment

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secondary structure

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dotplot

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Window 5

Location 4,764,047 – 4,764,120
Length 73
Sequences 3
Columns 73
Reading direction reverse
Mean pairwise identity 74.43
Mean single sequence MFE -22.17
Consensus MFE -19.44
Energy contribution -19.00
Covariance contribution -0.44
Combinations/Pair 1.21
Mean z-score -4.55
Structure conservation index 0.88
SVM decision value 4.48
SVM RNA-class probability 0.999905
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 4764047 73 + 5224283/0-73
GCGUGAGUUGAAUAACAAAGGGCAUAACAUAUUAUAUAUGACUAAUAUGUUAUGCCCUUUCAUGUAUUGACCU
(((((((((....))).(((((((((((((((((........)))))))))))))))))))))))........ ( -28.50)
>Bhalo.0 307207 73 + 4202352/0-73
GCGUUAGUUGAACAAAAAAGGACAUAACCUAUUAGCCAUGUAAACUAUGUUAUGUCCUUUAAUUUAUUUACCU
..(((.....)))...((((((((((((....(((.........))).))))))))))))............. ( -14.80)
>Bclau.0 2264084 72 - 4303871/0-73
GUGUUCGCUGAGUGAGAGAGGACAUAACAUAUUCGUCAUAUACAAUAUGUUAUGUCCUUUAAU-UAUCUAACU
...(((((...)))))(((((((((((((((((.((.....)))))))))))))))))))...-......... ( -23.20)
>consensus
GCGUUAGUUGAAUAAAAAAGGACAUAACAUAUUAGACAUGUAAAAUAUGUUAUGUCCUUUAAU_UAUUUACCU
((....))........(((((((((((((((((..........)))))))))))))))))............. (-19.44 = -19.00 +  -0.44)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 17:17:12 2006