Locus 29

Sequence ID Bsubt.0
Location 3,171,004 – 3,171,097
Length 93
Max. P 0.944395
window160 window161 window162 window163

overview

Window 0

Location 3,171,004 – 3,171,097
Length 93
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 76.08
Mean single sequence MFE -32.70
Consensus MFE -27.35
Energy contribution -24.75
Covariance contribution -2.60
Combinations/Pair 1.41
Mean z-score -1.05
Structure conservation index 0.84
SVM decision value 0.77
SVM RNA-class probability 0.846797
Prediction RNA

Download alignment: ClustalW | MAF

>Bsubt.0 3171004 93 + 4214630
UAUGGCGGAGAAGGAGGGAUUUGAACCCUCGCGCCGCUUACACGACCUACACCCUUAGCAGGGGCGCCUCUUCAGCCA--CUUGAGUACUUCUCC
..(((((((((..(((((.......)))))((((((......)).......((((....)))))))).))))).))))--...(((.....))). ( -31.00)
>Blich.0 3115561 93 + 4222334
AAUGGCGGAGAAGGAGGGAUUUGAACCCUCGCGCCGCUUACGCGACCUACACCCUUAGCAGGGGCGCCUCUUCAGCCA--CUUGAGUACUUCUCC
..(((((((((..(((((.......)))))(((((((....))).......((((....)))))))).))))).))))--...(((.....))). ( -34.50)
>Bcere.0 4648993 93 + 5224283
ACUGGCAGAGAAGAAGGGAUUCGAACCCUCGCACCGCGUUCGCGAUCUACUCCCUUAGCAGGGGAGCCCCUUGAGCCA--CUUGGGUACUUCUCU
......((((((((((((................(((....))).....((((((.....)))))).)))))..(((.--....))).))))))) ( -30.60)
>Banth.0 4650014 93 + 5227293
ACUGGCAGAGAAGAAGGGAUUCGAACCCUCGCACCGCGUUCGCGAUCUACUCCCUUAGCAGGGGAGCCCCUUGAGCCA--CUUGGGUACUUCUCU
......((((((((((((................(((....))).....((((((.....)))))).)))))..(((.--....))).))))))) ( -30.60)
>Bhalo.0 2710509 95 - 4202352
UAUGGCGGAGGAGGAGGGAUUCGAACCCCCGCGCGGUUUAACCCGCCUGUCGGUUUUCAAGACCGAUCCCUUCAGCCAGACUUGGGUACUCCUCC
......(((((((((((((...........(((.((.....)))))...((((((.....))))))))))))..(((.......))).))))))) ( -36.00)
>Bclau.0 4257573 95 - 4303871
UAUGGCGGAGGAAGAGGGAUUCGAACCCCCGCGCGGUGUGACCCGCCUGUCGGUUUUCAAGACCGAUCCCUUCAGCCAGACUUGGGUAUUCCUCC
......(((((((((((((...........(((.((.....)))))...((((((.....))))))))))))..(((.......))).))))))) ( -33.50)
>consensus
AAUGGCGGAGAAGGAGGGAUUCGAACCCUCGCGCCGCGUACGCGACCUACACCCUUAGCAGGGGAGCCCCUUCAGCCA__CUUGGGUACUUCUCC
......((((((((((((.......)))))((..((......)).....((((((.....))))))........))............))))))) (-27.35 = -24.75 +  -2.60)

alignment

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secondary structure

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dotplot

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Window 1

Location 3,171,004 – 3,171,097
Length 93
Sequences 6
Columns 95
Reading direction reverse
Mean pairwise identity 76.08
Mean single sequence MFE -36.72
Consensus MFE -37.74
Energy contribution -32.72
Covariance contribution -5.02
Combinations/Pair 1.62
Mean z-score -1.63
Structure conservation index 1.03
SVM decision value 1.34
SVM RNA-class probability 0.944395
Prediction RNA

Download alignment: ClustalW | MAF

>Bsubt.0 3171004 93 + 4214630
GGAGAAGUACUCAAG--UGGCUGAAGAGGCGCCCCUGCUAAGGGUGUAGGUCGUGUAAGCGGCGCGAGGGUUCAAAUCCCUCCUUCUCCGCCAUA
.(((.....)))..(--((((.((..((((((((((((.......)))))..((....)))))))(((((.......)))))))..)).))))). ( -37.80)
>Blich.0 3115561 93 + 4222334
GGAGAAGUACUCAAG--UGGCUGAAGAGGCGCCCCUGCUAAGGGUGUAGGUCGCGUAAGCGGCGCGAGGGUUCAAAUCCCUCCUUCUCCGCCAUU
.(((.....))).((--((((.((..((((((((((((.......)))))..((....)))))))(((((.......)))))))..)).)))))) ( -42.00)
>Bcere.0 4648993 93 + 5224283
AGAGAAGUACCCAAG--UGGCUCAAGGGGCUCCCCUGCUAAGGGAGUAGAUCGCGAACGCGGUGCGAGGGUUCGAAUCCCUUCUUCUCUGCCAGU
((((((((((((...--((((...((((....))))))))..)).))).(((((....)))))..(((((.......))))))))))))...... ( -33.90)
>Banth.0 4650014 93 + 5227293
AGAGAAGUACCCAAG--UGGCUCAAGGGGCUCCCCUGCUAAGGGAGUAGAUCGCGAACGCGGUGCGAGGGUUCGAAUCCCUUCUUCUCUGCCAGU
((((((((((((...--((((...((((....))))))))..)).))).(((((....)))))..(((((.......))))))))))))...... ( -33.90)
>Bhalo.0 2710509 95 - 4202352
GGAGGAGUACCCAAGUCUGGCUGAAGGGAUCGGUCUUGAAAACCGACAGGCGGGUUAAACCGCGCGGGGGUUCGAAUCCCUCCUCCUCCGCCAUA
(((((((..(((...((.....)).))).(((((.......)))))...((((......))))..(((((.......))))))))))))...... ( -37.10)
>Bclau.0 4257573 95 - 4303871
GGAGGAAUACCCAAGUCUGGCUGAAGGGAUCGGUCUUGAAAACCGACAGGCGGGUCACACCGCGCGGGGGUUCGAAUCCCUCUUCCUCCGCCAUA
(((((((..(((...((.....)).))).(((((.......)))))...((((......))))..(((((.......))))))))))))...... ( -35.60)
>consensus
GGAGAAGUACCCAAG__UGGCUGAAGGGGCCCCCCUGCUAAGGGAGUAGGUCGCGUAAGCGGCGCGAGGGUUCGAAUCCCUCCUUCUCCGCCAUA
(((((((..(((.............)))((((((.......))))))..(((((....)))))..(((((.......))))))))))))...... (-37.74 = -32.72 +  -5.02)

alignment

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secondary structure

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dotplot

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Window 2

Location 3,171,004 – 3,171,097
Length 93
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 76.08
Mean single sequence MFE -32.70
Consensus MFE -27.35
Energy contribution -24.75
Covariance contribution -2.60
Combinations/Pair 1.41
Mean z-score -1.05
Structure conservation index 0.84
SVM decision value 0.77
SVM RNA-class probability 0.846797
Prediction RNA

Download alignment: ClustalW | MAF

>Bsubt.0 3171004 93 + 4214630/0-95
UAUGGCGGAGAAGGAGGGAUUUGAACCCUCGCGCCGCUUACACGACCUACACCCUUAGCAGGGGCGCCUCUUCAGCCA--CUUGAGUACUUCUCC
..(((((((((..(((((.......)))))((((((......)).......((((....)))))))).))))).))))--...(((.....))). ( -31.00)
>Blich.0 3115561 93 + 4222334/0-95
AAUGGCGGAGAAGGAGGGAUUUGAACCCUCGCGCCGCUUACGCGACCUACACCCUUAGCAGGGGCGCCUCUUCAGCCA--CUUGAGUACUUCUCC
..(((((((((..(((((.......)))))(((((((....))).......((((....)))))))).))))).))))--...(((.....))). ( -34.50)
>Bcere.0 4648993 93 + 5224283/0-95
ACUGGCAGAGAAGAAGGGAUUCGAACCCUCGCACCGCGUUCGCGAUCUACUCCCUUAGCAGGGGAGCCCCUUGAGCCA--CUUGGGUACUUCUCU
......((((((((((((................(((....))).....((((((.....)))))).)))))..(((.--....))).))))))) ( -30.60)
>Banth.0 4650014 93 + 5227293/0-95
ACUGGCAGAGAAGAAGGGAUUCGAACCCUCGCACCGCGUUCGCGAUCUACUCCCUUAGCAGGGGAGCCCCUUGAGCCA--CUUGGGUACUUCUCU
......((((((((((((................(((....))).....((((((.....)))))).)))))..(((.--....))).))))))) ( -30.60)
>Bhalo.0 2710509 95 - 4202352/0-95
UAUGGCGGAGGAGGAGGGAUUCGAACCCCCGCGCGGUUUAACCCGCCUGUCGGUUUUCAAGACCGAUCCCUUCAGCCAGACUUGGGUACUCCUCC
......(((((((((((((...........(((.((.....)))))...((((((.....))))))))))))..(((.......))).))))))) ( -36.00)
>Bclau.0 4257573 95 - 4303871/0-95
UAUGGCGGAGGAAGAGGGAUUCGAACCCCCGCGCGGUGUGACCCGCCUGUCGGUUUUCAAGACCGAUCCCUUCAGCCAGACUUGGGUAUUCCUCC
......(((((((((((((...........(((.((.....)))))...((((((.....))))))))))))..(((.......))).))))))) ( -33.50)
>consensus
AAUGGCGGAGAAGGAGGGAUUCGAACCCUCGCGCCGCGUACGCGACCUACACCCUUAGCAGGGGAGCCCCUUCAGCCA__CUUGGGUACUUCUCC
......((((((((((((.......)))))((..((......)).....((((((.....))))))........))............))))))) (-27.35 = -24.75 +  -2.60)

alignment

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secondary structure

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dotplot

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Window 3

Location 3,171,004 – 3,171,097
Length 93
Sequences 6
Columns 95
Reading direction reverse
Mean pairwise identity 76.08
Mean single sequence MFE -36.72
Consensus MFE -37.74
Energy contribution -32.72
Covariance contribution -5.02
Combinations/Pair 1.62
Mean z-score -1.63
Structure conservation index 1.03
SVM decision value 1.34
SVM RNA-class probability 0.944395
Prediction RNA

Download alignment: ClustalW | MAF

>Bsubt.0 3171004 93 + 4214630/0-95
GGAGAAGUACUCAAG--UGGCUGAAGAGGCGCCCCUGCUAAGGGUGUAGGUCGUGUAAGCGGCGCGAGGGUUCAAAUCCCUCCUUCUCCGCCAUA
.(((.....)))..(--((((.((..((((((((((((.......)))))..((....)))))))(((((.......)))))))..)).))))). ( -37.80)
>Blich.0 3115561 93 + 4222334/0-95
GGAGAAGUACUCAAG--UGGCUGAAGAGGCGCCCCUGCUAAGGGUGUAGGUCGCGUAAGCGGCGCGAGGGUUCAAAUCCCUCCUUCUCCGCCAUU
.(((.....))).((--((((.((..((((((((((((.......)))))..((....)))))))(((((.......)))))))..)).)))))) ( -42.00)
>Bcere.0 4648993 93 + 5224283/0-95
AGAGAAGUACCCAAG--UGGCUCAAGGGGCUCCCCUGCUAAGGGAGUAGAUCGCGAACGCGGUGCGAGGGUUCGAAUCCCUUCUUCUCUGCCAGU
((((((((((((...--((((...((((....))))))))..)).))).(((((....)))))..(((((.......))))))))))))...... ( -33.90)
>Banth.0 4650014 93 + 5227293/0-95
AGAGAAGUACCCAAG--UGGCUCAAGGGGCUCCCCUGCUAAGGGAGUAGAUCGCGAACGCGGUGCGAGGGUUCGAAUCCCUUCUUCUCUGCCAGU
((((((((((((...--((((...((((....))))))))..)).))).(((((....)))))..(((((.......))))))))))))...... ( -33.90)
>Bhalo.0 2710509 95 - 4202352/0-95
GGAGGAGUACCCAAGUCUGGCUGAAGGGAUCGGUCUUGAAAACCGACAGGCGGGUUAAACCGCGCGGGGGUUCGAAUCCCUCCUCCUCCGCCAUA
(((((((..(((...((.....)).))).(((((.......)))))...((((......))))..(((((.......))))))))))))...... ( -37.10)
>Bclau.0 4257573 95 - 4303871/0-95
GGAGGAAUACCCAAGUCUGGCUGAAGGGAUCGGUCUUGAAAACCGACAGGCGGGUCACACCGCGCGGGGGUUCGAAUCCCUCUUCCUCCGCCAUA
(((((((..(((...((.....)).))).(((((.......)))))...((((......))))..(((((.......))))))))))))...... ( -35.60)
>consensus
GGAGAAGUACCCAAG__UGGCUGAAGGGGCCCCCCUGCUAAGGGAGUAGGUCGCGUAAGCGGCGCGAGGGUUCGAAUCCCUCCUUCUCCGCCAUA
(((((((..(((.............)))((((((.......))))))..(((((....)))))..(((((.......))))))))))))...... (-37.74 = -32.72 +  -5.02)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 17:17:42 2006