Locus 98

Sequence ID Blich.0
Location 953,250 – 953,314
Length 64
Max. P 0.995314
window704 window705 window706 window707

overview

Window 4

Location 953,250 – 953,314
Length 64
Sequences 3
Columns 64
Reading direction forward
Mean pairwise identity 84.29
Mean single sequence MFE -21.03
Consensus MFE -20.81
Energy contribution -20.37
Covariance contribution -0.44
Combinations/Pair 1.12
Mean z-score -4.63
Structure conservation index 0.99
SVM decision value 2.08
SVM RNA-class probability 0.987511
Prediction RNA

Download alignment: ClustalW | MAF

>Blich.0 953250 64 + 4222334
UGUUUAUAACGCAGUGUUUCGUUUCUCAGAUUAAACGAAGCAUUGCGUUUUUUCAUGUAUGAAA
.......(((((((((((((((((........))))))))))))))))).(((((....))))) ( -22.80)
>Bsubt.0 966481 63 + 4214630
CGUUAUUAACGCAGUGUUUCGUUUCUCAGAU-AAACGAAGUAUUGCGUUUUUUUAUGUGAAAAA
(((....(((((((((((((((((.......-))))))))))))))))).....)))....... ( -17.60)
>Banth.0 543171 63 + 5227293
UGUGAUCAACGCAGUGUUUCGUUUCCGAGAU-AAACGAGGCAUUGCGUUUUUUAAUGUUUGAAA
..(((..(((((((((((((((((.......-)))))))))))))))))..))).......... ( -22.70)
>consensus
UGUUAUUAACGCAGUGUUUCGUUUCUCAGAU_AAACGAAGCAUUGCGUUUUUUAAUGUAUGAAA
.......(((((((((((((((((........)))))))))))))))))............... (-20.81 = -20.37 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 5

Location 953,250 – 953,314
Length 64
Sequences 3
Columns 64
Reading direction reverse
Mean pairwise identity 84.29
Mean single sequence MFE -14.23
Consensus MFE -13.23
Energy contribution -13.90
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -3.58
Structure conservation index 0.93
SVM decision value 2.56
SVM RNA-class probability 0.995314
Prediction RNA

Download alignment: ClustalW | MAF

>Blich.0 953250 64 + 4222334
UUUCAUACAUGAAAAAACGCAAUGCUUCGUUUAAUCUGAGAAACGAAACACUGCGUUAUAAACA
(((((....))))).((((((.((.(((((((........))))))).)).))))))....... ( -16.80)
>Bsubt.0 966481 63 + 4214630
UUUUUCACAUAAAAAAACGCAAUACUUCGUUU-AUCUGAGAAACGAAACACUGCGUUAAUAACG
...............((((((....(((((((-.......)))))))....))))))....... ( -12.20)
>Banth.0 543171 63 + 5227293
UUUCAAACAUUAAAAAACGCAAUGCCUCGUUU-AUCUCGGAAACGAAACACUGCGUUGAUCACA
...............((((((.((..((((((-.......))))))..)).))))))....... ( -13.70)
>consensus
UUUCAAACAUAAAAAAACGCAAUGCUUCGUUU_AUCUGAGAAACGAAACACUGCGUUAAUAACA
...............((((((.((.(((((((........))))))).)).))))))....... (-13.23 = -13.90 +   0.67)

alignment

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secondary structure

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dotplot

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Window 6

Location 953,250 – 953,314
Length 64
Sequences 3
Columns 64
Reading direction forward
Mean pairwise identity 84.29
Mean single sequence MFE -21.03
Consensus MFE -20.81
Energy contribution -20.37
Covariance contribution -0.44
Combinations/Pair 1.12
Mean z-score -4.63
Structure conservation index 0.99
SVM decision value 2.08
SVM RNA-class probability 0.987511
Prediction RNA

Download alignment: ClustalW | MAF

>Blich.0 953250 64 + 4222334/0-64
UGUUUAUAACGCAGUGUUUCGUUUCUCAGAUUAAACGAAGCAUUGCGUUUUUUCAUGUAUGAAA
.......(((((((((((((((((........))))))))))))))))).(((((....))))) ( -22.80)
>Bsubt.0 966481 63 + 4214630/0-64
CGUUAUUAACGCAGUGUUUCGUUUCUCAGAU-AAACGAAGUAUUGCGUUUUUUUAUGUGAAAAA
(((....(((((((((((((((((.......-))))))))))))))))).....)))....... ( -17.60)
>Banth.0 543171 63 + 5227293/0-64
UGUGAUCAACGCAGUGUUUCGUUUCCGAGAU-AAACGAGGCAUUGCGUUUUUUAAUGUUUGAAA
..(((..(((((((((((((((((.......-)))))))))))))))))..))).......... ( -22.70)
>consensus
UGUUAUUAACGCAGUGUUUCGUUUCUCAGAU_AAACGAAGCAUUGCGUUUUUUAAUGUAUGAAA
.......(((((((((((((((((........)))))))))))))))))............... (-20.81 = -20.37 +  -0.44)

alignment

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secondary structure

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dotplot

Postscript

Window 7

Location 953,250 – 953,314
Length 64
Sequences 3
Columns 64
Reading direction reverse
Mean pairwise identity 84.29
Mean single sequence MFE -14.23
Consensus MFE -13.23
Energy contribution -13.90
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -3.58
Structure conservation index 0.93
SVM decision value 2.56
SVM RNA-class probability 0.995314
Prediction RNA

Download alignment: ClustalW | MAF

>Blich.0 953250 64 + 4222334/0-64
UUUCAUACAUGAAAAAACGCAAUGCUUCGUUUAAUCUGAGAAACGAAACACUGCGUUAUAAACA
(((((....))))).((((((.((.(((((((........))))))).)).))))))....... ( -16.80)
>Bsubt.0 966481 63 + 4214630/0-64
UUUUUCACAUAAAAAAACGCAAUACUUCGUUU-AUCUGAGAAACGAAACACUGCGUUAAUAACG
...............((((((....(((((((-.......)))))))....))))))....... ( -12.20)
>Banth.0 543171 63 + 5227293/0-64
UUUCAAACAUUAAAAAACGCAAUGCCUCGUUU-AUCUCGGAAACGAAACACUGCGUUGAUCACA
...............((((((.((..((((((-.......))))))..)).))))))....... ( -13.70)
>consensus
UUUCAAACAUAAAAAAACGCAAUGCUUCGUUU_AUCUGAGAAACGAAACACUGCGUUAAUAACA
...............((((((.((.(((((((........))))))).)).))))))....... (-13.23 = -13.90 +   0.67)

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 17:24:51 2006