Locus 125

Sequence ID Banth.0
Location 509,425 – 509,534
Length 109
Max. P 0.999526
window871 window872 window873 window874

overview

Window 1

Location 509,425 – 509,534
Length 109
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 78.67
Mean single sequence MFE -30.25
Consensus MFE -25.88
Energy contribution -25.75
Covariance contribution -0.12
Combinations/Pair 1.17
Mean z-score -3.07
Structure conservation index 0.86
SVM decision value 3.69
SVM RNA-class probability 0.999526
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 509425 109 + 5227293
CCACCCUCGAAAUUUUUAUAUCAAUCUUUAAAAAAUUUCGGGGUGGGAAUCGAACCCACUAGAACCAGUUUCUAACGCUGGUGGCGCACCAUUUGCCUUCCCCAUUCAU
((((((.((((((((((.((........))))))))))))))))))((((.(...........((((((.......))))))((((.......))))....).)))).. ( -32.50)
>Bcere.0 581723 109 + 5224283
CCACCCUCGAAAUUUUUAUAUCAAUCUUUAAAAAAUUUCGGGGUGGGAAUCGAACCCACUAGAACCAGUUUCUAACGCUGGUGGCGCACCAUUUGCCUUCCCCAUUCAU
((((((.((((((((((.((........))))))))))))))))))((((.(...........((((((.......))))))((((.......))))....).)))).. ( -32.50)
>Bhalo.0 995993 102 + 4202352
CCACCCUCGAAUUUAUCAUGUGA---UGCAAAUAAAUUCGGGGUGGGAAUCGAACCCACUAGAACCAGA----AAAACUGGUGGCGCACCAAUUGCCUUCCCAAAACGU
..((((.(((((((((..((...---..)).)))))))))))))(((((..............(((((.----....)))))((((.......)))))))))....... ( -31.40)
>Blich.0 894977 100 + 4222334
UUGUCCGCGUAUCUUGCACAUC----CAUUAAAAAAUUCGGGGUGGGAAUCGAACCCACUAAAACCAG-----AGAUCUGGUGGCGCACCAUUUGCCUUCCCUGUACGU
......((((((..((......----))...........((((((((.......)))))....(((((-----....)))))((((.......))))..))).)))))) ( -24.60)
>consensus
CCACCCUCGAAAUUUUCAUAUCA___UUUAAAAAAAUUCGGGGUGGGAAUCGAACCCACUAGAACCAGU____AAAGCUGGUGGCGCACCAUUUGCCUUCCCCAUACAU
..((((.((((((((((.((........))))))))))))))))(((((..............(((((.........)))))((((.......)))))))))....... (-25.88 = -25.75 +  -0.12)

alignment

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secondary structure

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dotplot

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Window 2

Location 509,425 – 509,534
Length 109
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 78.67
Mean single sequence MFE -31.36
Consensus MFE -27.38
Energy contribution -27.07
Covariance contribution -0.31
Combinations/Pair 1.15
Mean z-score -1.53
Structure conservation index 0.87
SVM decision value 0.81
SVM RNA-class probability 0.856898
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 509425 109 + 5227293
AUGAAUGGGGAAGGCAAAUGGUGCGCCACCAGCGUUAGAAACUGGUUCUAGUGGGUUCGAUUCCCACCCCGAAAUUUUUUAAAGAUUGAUAUAAAAAUUUCGAGGGUGG
..((((.(((...(((.....))).((((.((..((((...))))..)).)))).))).))))((((((((((((((((.............)))))))))).)))))) ( -32.82)
>Bcere.0 581723 109 + 5224283
AUGAAUGGGGAAGGCAAAUGGUGCGCCACCAGCGUUAGAAACUGGUUCUAGUGGGUUCGAUUCCCACCCCGAAAUUUUUUAAAGAUUGAUAUAAAAAUUUCGAGGGUGG
..((((.(((...(((.....))).((((.((..((((...))))..)).)))).))).))))((((((((((((((((.............)))))))))).)))))) ( -32.82)
>Bhalo.0 995993 102 + 4202352
ACGUUUUGGGAAGGCAAUUGGUGCGCCACCAGUUUU----UCUGGUUCUAGUGGGUUCGAUUCCCACCCCGAAUUUAUUUGCA---UCACAUGAUAAAUUCGAGGGUGG
..(..(..(((((((...(((((...))))))))))----))..)..)...............((((((((((((((((((..---...)).)))))))))).)))))) ( -33.30)
>Blich.0 894977 100 + 4222334
ACGUACAGGGAAGGCAAAUGGUGCGCCACCAGAUCU-----CUGGUUUUAGUGGGUUCGAUUCCCACCCCGAAUUUUUUAAUG----GAUGUGCAAGAUACGCGGACAA
.......(((..(((.........)))(((((....-----)))))....(((((.......))))))))...........((----..((((.......))))..)). ( -26.50)
>consensus
ACGAAUGGGGAAGGCAAAUGGUGCGCCACCAGCGUU____ACUGGUUCUAGUGGGUUCGAUUCCCACCCCGAAAUUUUUUAAA___UGAUAUAAAAAAUUCGAGGGUGG
.......((((((((.........)))(((((.........)))))..............)))))((((((((((((((.............)))))))))).)))).. (-27.38 = -27.07 +  -0.31)

alignment

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secondary structure

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dotplot

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Window 3

Location 509,425 – 509,534
Length 109
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 78.67
Mean single sequence MFE -30.25
Consensus MFE -25.88
Energy contribution -25.75
Covariance contribution -0.12
Combinations/Pair 1.17
Mean z-score -3.07
Structure conservation index 0.86
SVM decision value 3.69
SVM RNA-class probability 0.999526
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 509425 109 + 5227293/0-109
CCACCCUCGAAAUUUUUAUAUCAAUCUUUAAAAAAUUUCGGGGUGGGAAUCGAACCCACUAGAACCAGUUUCUAACGCUGGUGGCGCACCAUUUGCCUUCCCCAUUCAU
((((((.((((((((((.((........))))))))))))))))))((((.(...........((((((.......))))))((((.......))))....).)))).. ( -32.50)
>Bcere.0 581723 109 + 5224283/0-109
CCACCCUCGAAAUUUUUAUAUCAAUCUUUAAAAAAUUUCGGGGUGGGAAUCGAACCCACUAGAACCAGUUUCUAACGCUGGUGGCGCACCAUUUGCCUUCCCCAUUCAU
((((((.((((((((((.((........))))))))))))))))))((((.(...........((((((.......))))))((((.......))))....).)))).. ( -32.50)
>Bhalo.0 995993 102 + 4202352/0-109
CCACCCUCGAAUUUAUCAUGUGA---UGCAAAUAAAUUCGGGGUGGGAAUCGAACCCACUAGAACCAGA----AAAACUGGUGGCGCACCAAUUGCCUUCCCAAAACGU
..((((.(((((((((..((...---..)).)))))))))))))(((((..............(((((.----....)))))((((.......)))))))))....... ( -31.40)
>Blich.0 894977 100 + 4222334/0-109
UUGUCCGCGUAUCUUGCACAUC----CAUUAAAAAAUUCGGGGUGGGAAUCGAACCCACUAAAACCAG-----AGAUCUGGUGGCGCACCAUUUGCCUUCCCUGUACGU
......((((((..((......----))...........((((((((.......)))))....(((((-----....)))))((((.......))))..))).)))))) ( -24.60)
>consensus
CCACCCUCGAAAUUUUCAUAUCA___UUUAAAAAAAUUCGGGGUGGGAAUCGAACCCACUAGAACCAGU____AAAGCUGGUGGCGCACCAUUUGCCUUCCCCAUACAU
..((((.((((((((((.((........))))))))))))))))(((((..............(((((.........)))))((((.......)))))))))....... (-25.88 = -25.75 +  -0.12)

alignment

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secondary structure

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dotplot

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Window 4

Location 509,425 – 509,534
Length 109
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 78.67
Mean single sequence MFE -31.36
Consensus MFE -27.38
Energy contribution -27.07
Covariance contribution -0.31
Combinations/Pair 1.15
Mean z-score -1.53
Structure conservation index 0.87
SVM decision value 0.81
SVM RNA-class probability 0.856898
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 509425 109 + 5227293/0-109
AUGAAUGGGGAAGGCAAAUGGUGCGCCACCAGCGUUAGAAACUGGUUCUAGUGGGUUCGAUUCCCACCCCGAAAUUUUUUAAAGAUUGAUAUAAAAAUUUCGAGGGUGG
..((((.(((...(((.....))).((((.((..((((...))))..)).)))).))).))))((((((((((((((((.............)))))))))).)))))) ( -32.82)
>Bcere.0 581723 109 + 5224283/0-109
AUGAAUGGGGAAGGCAAAUGGUGCGCCACCAGCGUUAGAAACUGGUUCUAGUGGGUUCGAUUCCCACCCCGAAAUUUUUUAAAGAUUGAUAUAAAAAUUUCGAGGGUGG
..((((.(((...(((.....))).((((.((..((((...))))..)).)))).))).))))((((((((((((((((.............)))))))))).)))))) ( -32.82)
>Bhalo.0 995993 102 + 4202352/0-109
ACGUUUUGGGAAGGCAAUUGGUGCGCCACCAGUUUU----UCUGGUUCUAGUGGGUUCGAUUCCCACCCCGAAUUUAUUUGCA---UCACAUGAUAAAUUCGAGGGUGG
..(..(..(((((((...(((((...))))))))))----))..)..)...............((((((((((((((((((..---...)).)))))))))).)))))) ( -33.30)
>Blich.0 894977 100 + 4222334/0-109
ACGUACAGGGAAGGCAAAUGGUGCGCCACCAGAUCU-----CUGGUUUUAGUGGGUUCGAUUCCCACCCCGAAUUUUUUAAUG----GAUGUGCAAGAUACGCGGACAA
.......(((..(((.........)))(((((....-----)))))....(((((.......))))))))...........((----..((((.......))))..)). ( -26.50)
>consensus
ACGAAUGGGGAAGGCAAAUGGUGCGCCACCAGCGUU____ACUGGUUCUAGUGGGUUCGAUUCCCACCCCGAAAUUUUUUAAA___UGAUAUAAAAAAUUCGAGGGUGG
.......((((((((.........)))(((((.........)))))..............)))))((((((((((((((.............)))))))))).)))).. (-27.38 = -27.07 +  -0.31)

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 17:27:01 2006