Locus 105

Sequence ID Blich.0
Location 1,710,222 – 1,710,284
Length 62
Max. P 0.999395
window729 window730 window731 window732

overview

Window 9

Location 1,710,222 – 1,710,284
Length 62
Sequences 3
Columns 62
Reading direction forward
Mean pairwise identity 79.03
Mean single sequence MFE -17.27
Consensus MFE -12.82
Energy contribution -13.93
Covariance contribution 1.11
Combinations/Pair 1.06
Mean z-score -2.11
Structure conservation index 0.74
SVM decision value 1.59
SVM RNA-class probability 0.966062
Prediction RNA

Download alignment: ClustalW | MAF

>Blich.0 1710222 62 + 4222334
UGCAUAUUUUUCCCACCCGAGGAGAUACUGAACUUUGUACAGCAGCUCCUGUAGGGAGGGAA
.........(((((.(((.(((((...(((.((...)).)))...)))))...))).))))) ( -22.10)
>Bsubt.0 1604860 62 + 4214630
UGCAUAUUUUUCCCACCCAAGGAGAUACUUAACGUUGUACAGCAGCUCCUGUAGGGAGGGAA
.........(((((.(((.(((((.(((........)))......)))))...))).))))) ( -19.00)
>Banth.0 1505852 62 - 5227293
UGUAUAAAAUCCCCUUCAAAGGAAAUACUUUACACUGUACAGCAACUCCCGAUAGGAGGGAA
...........((((((((((......))))....((.....))..........)))))).. ( -10.70)
>consensus
UGCAUAUUUUUCCCACCCAAGGAGAUACUUAACAUUGUACAGCAGCUCCUGUAGGGAGGGAA
.........(((((.(((.(((((.(((........)))......)))))...))).))))) (-12.82 = -13.93 +   1.11)

alignment

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secondary structure

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dotplot

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Window 0

Location 1,710,222 – 1,710,284
Length 62
Sequences 3
Columns 62
Reading direction reverse
Mean pairwise identity 79.03
Mean single sequence MFE -21.70
Consensus MFE -19.53
Energy contribution -19.53
Covariance contribution 0.01
Combinations/Pair 1.18
Mean z-score -3.61
Structure conservation index 0.90
SVM decision value 3.57
SVM RNA-class probability 0.999395
Prediction RNA

Download alignment: ClustalW | MAF

>Blich.0 1710222 62 + 4222334
UUCCCUCCCUACAGGAGCUGCUGUACAAAGUUCAGUAUCUCCUCGGGUGGGAAAAAUAUGCA
(((((.(((...(((((.(((((.((...)).))))).))))).))).)))))......... ( -25.60)
>Bsubt.0 1604860 62 + 4214630
UUCCCUCCCUACAGGAGCUGCUGUACAACGUUAAGUAUCUCCUUGGGUGGGAAAAAUAUGCA
(((((.(((...(((((.((((...........)))).))))).))).)))))......... ( -23.60)
>Banth.0 1505852 62 - 5227293
UUCCCUCCUAUCGGGAGUUGCUGUACAGUGUAAAGUAUUUCCUUUGAAGGGGAUUUUAUACA
((((((.(....(((((.((((.(((...))).)))).)))))..).))))))......... ( -15.90)
>consensus
UUCCCUCCCUACAGGAGCUGCUGUACAAAGUUAAGUAUCUCCUUGGGUGGGAAAAAUAUGCA
(((((.(((...(((((.((((...........)))).))))).))).)))))......... (-19.53 = -19.53 +   0.01)

alignment

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secondary structure

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dotplot

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Window 1

Location 1,710,222 – 1,710,284
Length 62
Sequences 3
Columns 62
Reading direction forward
Mean pairwise identity 79.03
Mean single sequence MFE -17.27
Consensus MFE -12.82
Energy contribution -13.93
Covariance contribution 1.11
Combinations/Pair 1.06
Mean z-score -2.11
Structure conservation index 0.74
SVM decision value 1.59
SVM RNA-class probability 0.966062
Prediction RNA

Download alignment: ClustalW | MAF

>Blich.0 1710222 62 + 4222334/0-62
UGCAUAUUUUUCCCACCCGAGGAGAUACUGAACUUUGUACAGCAGCUCCUGUAGGGAGGGAA
.........(((((.(((.(((((...(((.((...)).)))...)))))...))).))))) ( -22.10)
>Bsubt.0 1604860 62 + 4214630/0-62
UGCAUAUUUUUCCCACCCAAGGAGAUACUUAACGUUGUACAGCAGCUCCUGUAGGGAGGGAA
.........(((((.(((.(((((.(((........)))......)))))...))).))))) ( -19.00)
>Banth.0 1505852 62 - 5227293/0-62
UGUAUAAAAUCCCCUUCAAAGGAAAUACUUUACACUGUACAGCAACUCCCGAUAGGAGGGAA
...........((((((((((......))))....((.....))..........)))))).. ( -10.70)
>consensus
UGCAUAUUUUUCCCACCCAAGGAGAUACUUAACAUUGUACAGCAGCUCCUGUAGGGAGGGAA
.........(((((.(((.(((((.(((........)))......)))))...))).))))) (-12.82 = -13.93 +   1.11)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 2

Location 1,710,222 – 1,710,284
Length 62
Sequences 3
Columns 62
Reading direction reverse
Mean pairwise identity 79.03
Mean single sequence MFE -21.70
Consensus MFE -19.53
Energy contribution -19.53
Covariance contribution 0.01
Combinations/Pair 1.18
Mean z-score -3.61
Structure conservation index 0.90
SVM decision value 3.57
SVM RNA-class probability 0.999395
Prediction RNA

Download alignment: ClustalW | MAF

>Blich.0 1710222 62 + 4222334/0-62
UUCCCUCCCUACAGGAGCUGCUGUACAAAGUUCAGUAUCUCCUCGGGUGGGAAAAAUAUGCA
(((((.(((...(((((.(((((.((...)).))))).))))).))).)))))......... ( -25.60)
>Bsubt.0 1604860 62 + 4214630/0-62
UUCCCUCCCUACAGGAGCUGCUGUACAACGUUAAGUAUCUCCUUGGGUGGGAAAAAUAUGCA
(((((.(((...(((((.((((...........)))).))))).))).)))))......... ( -23.60)
>Banth.0 1505852 62 - 5227293/0-62
UUCCCUCCUAUCGGGAGUUGCUGUACAGUGUAAAGUAUUUCCUUUGAAGGGGAUUUUAUACA
((((((.(....(((((.((((.(((...))).)))).)))))..).))))))......... ( -15.90)
>consensus
UUCCCUCCCUACAGGAGCUGCUGUACAAAGUUAAGUAUCUCCUUGGGUGGGAAAAAUAUGCA
(((((.(((...(((((.((((...........)))).))))).))).)))))......... (-19.53 = -19.53 +   0.01)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 17:25:11 2006