Locus 35

Sequence ID Bcere.0
Location 3,598,435 – 3,598,538
Length 103
Max. P 0.965325
window218 window219

overview

Window 8

Location 3,598,435 – 3,598,538
Length 103
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 70.62
Mean single sequence MFE -24.23
Consensus MFE -17.34
Energy contribution -17.74
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.53
Structure conservation index 0.72
SVM decision value 1.58
SVM RNA-class probability 0.965325
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 3598435 103 - 5224283
AUUCAUCCCUCUGUCCCAGUCCGUUAUUGGAUCAAGGCAGAAUCCAAGUUAUUAUUU--UUCGUAUUGCAUCGAAUCAU-GGUGCAGUUC-GCUC-UGAUACUGCCCA
.........((((((...(((((....)))))...))))))................--((((........))))...(-((.(((((((-....-.)).)))))))) ( -23.70)
>Banth.0 3755738 103 - 5227293
AUUCAUCCCUCUGUCCCAGUCCGUUAUUGGAUCAAGGCAGAAUCCAAGUUAUUAUUU--UUCGUAUUGCUUCGAAUCAU-GGUGCAGUUC-GCUC-UGAUACUGCCCA
.........((((((...(((((....)))))...)))))).((.((((...(((..--...)))..)))).))....(-((.(((((((-....-.)).)))))))) ( -24.10)
>Bsubt.0 2353977 98 + 4214630
UUUCAUCCCUCUGUCCCAGUCCUUUUUUGGAUCAAGGCAGACU----GCUGCAAUGU--CU---AUCUAUUUUAAUAAUAGGUGCAGUUC-GCAGGCGAUACUGCCCA
.........((((((...((((......))))...))))))..----((((((....--..---.((((((.....))))))))))))..-((((......))))... ( -25.91)
>Blich.0 2324538 96 + 4222334
AAUCAUCCCUCUGUCCCAGUCC-UUUUUGGAUCAAGGCAGACUGU--UUUUUUAUAA--GUUGCAUGCUUUCCA------GGUGCAGUUC-CCAGAGGAUACUGCCCA
.........((((((...((((-.....))))...))))))....--........((--((.....))))....------((.(((((((-(....))).))))))). ( -24.70)
>Bhalo.0 2444474 107 - 4202352
AAUCAUCCCUCUGUCCUAGUCC-UUUUUGGAUCAAGGCAGCUCAUUUGUAAUCAUCCAAUUUAAACAACGUUCGUCAGAUGGUGCCGUUCCGAAUUGGAUACCGCCCA
..................((((-..((((((....((((.(.((((((...........................)))))))))))..))))))..))))........ ( -22.73)
>consensus
AUUCAUCCCUCUGUCCCAGUCC_UUUUUGGAUCAAGGCAGAAUCC__GUUAUUAUUU__UUCGUAUUGCUUCCAAUAAU_GGUGCAGUUC_GCAC_GGAUACUGCCCA
.........((((((...((((......))))...)))))).......................................((.(((((((.......)).))))))). (-17.34 = -17.74 +   0.40)

alignment

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secondary structure

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dotplot

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Window 9

Location 3,598,435 – 3,598,538
Length 103
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 70.62
Mean single sequence MFE -24.23
Consensus MFE -17.34
Energy contribution -17.74
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.53
Structure conservation index 0.72
SVM decision value 1.58
SVM RNA-class probability 0.965325
Prediction RNA

Download alignment: ClustalW | MAF

>Bcere.0 3598435 103 - 5224283/0-108
AUUCAUCCCUCUGUCCCAGUCCGUUAUUGGAUCAAGGCAGAAUCCAAGUUAUUAUUU--UUCGUAUUGCAUCGAAUCAU-GGUGCAGUUC-GCUC-UGAUACUGCCCA
.........((((((...(((((....)))))...))))))................--((((........))))...(-((.(((((((-....-.)).)))))))) ( -23.70)
>Banth.0 3755738 103 - 5227293/0-108
AUUCAUCCCUCUGUCCCAGUCCGUUAUUGGAUCAAGGCAGAAUCCAAGUUAUUAUUU--UUCGUAUUGCUUCGAAUCAU-GGUGCAGUUC-GCUC-UGAUACUGCCCA
.........((((((...(((((....)))))...)))))).((.((((...(((..--...)))..)))).))....(-((.(((((((-....-.)).)))))))) ( -24.10)
>Bsubt.0 2353977 98 + 4214630/0-108
UUUCAUCCCUCUGUCCCAGUCCUUUUUUGGAUCAAGGCAGACU----GCUGCAAUGU--CU---AUCUAUUUUAAUAAUAGGUGCAGUUC-GCAGGCGAUACUGCCCA
.........((((((...((((......))))...))))))..----((((((....--..---.((((((.....))))))))))))..-((((......))))... ( -25.91)
>Blich.0 2324538 96 + 4222334/0-108
AAUCAUCCCUCUGUCCCAGUCC-UUUUUGGAUCAAGGCAGACUGU--UUUUUUAUAA--GUUGCAUGCUUUCCA------GGUGCAGUUC-CCAGAGGAUACUGCCCA
.........((((((...((((-.....))))...))))))....--........((--((.....))))....------((.(((((((-(....))).))))))). ( -24.70)
>Bhalo.0 2444474 107 - 4202352/0-108
AAUCAUCCCUCUGUCCUAGUCC-UUUUUGGAUCAAGGCAGCUCAUUUGUAAUCAUCCAAUUUAAACAACGUUCGUCAGAUGGUGCCGUUCCGAAUUGGAUACCGCCCA
..................((((-..((((((....((((.(.((((((...........................)))))))))))..))))))..))))........ ( -22.73)
>consensus
AUUCAUCCCUCUGUCCCAGUCC_UUUUUGGAUCAAGGCAGAAUCC__GUUAUUAUUU__UUCGUAUUGCUUCCAAUAAU_GGUGCAGUUC_GCAC_GGAUACUGCCCA
.........((((((...((((......))))...)))))).......................................((.(((((((.......)).))))))). (-17.34 = -17.74 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 17:18:32 2006