Locus 6

Sequence ID Banth.0
Location 4,266,172 – 4,266,286
Length 114
Max. P 0.988886
window15 window16

overview

Window 5

Location 4,266,172 – 4,266,284
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 60.00
Mean single sequence MFE -41.09
Consensus MFE -20.47
Energy contribution -18.84
Covariance contribution -1.63
Combinations/Pair 1.93
Mean z-score -4.99
Structure conservation index 0.50
SVM decision value 2.14
SVM RNA-class probability 0.988886
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 4266172 112 + 5227293/0-120
GACGGAUUUGUCCGUUAUCAAGU-UAAGAGUAUAAGCAAAUUCCUGGAUUUGUUUGUAAAUAAAGGUGGUACCGCGA-UGUCCCUCGUCC-UUUUUU-----GGAUGAGGGACAUUUUUU
((((((....)))))).......-......((((((((((((....)))))))))))).......(((....)))((-((((((((((((-......-----)))))))))))))).... ( -45.50)
>Bcere.0 4219445 113 + 5224283/0-120
GACGGAUUUGUCCGUUAUCAAAU-UAAGAGUAUAAACAAAUUCCUGAAUUUGUUUGUAAAUAAAGGUGGUACCGCGA-UGUCCCUCGUCCUUUUUUU-----GGAUGAGGGGCAUUUUUU
((((((....)))))).......-......((((((((((((....)))))))))))).......(((....)))((-((((((((((((.......-----)))))))))))))).... ( -43.50)
>Bhalo.0 3155197 103 + 4202352/0-120
AGC---------CGUUAUCAUGU-CGAGUGUGCCAAUGG--UGAUGAUUCCAUAGGCAAACAAAGGUGGUACCGCGAGUAAACUCUCUUCGUCCUUU-----GAGCGAAGGGGGUUUUUU
.((---------(((((((((.(-...((.((((.((((--........)))).)))).))..).))))))..))).))(((((((((((((.....-----..)))))))))))))... ( -34.90)
>Bsubt.0 2868570 100 + 4214630/0-120
ACC---------CGUUAUCCGUUAUAAGUGCAUGAA-------CUGAUUGAGUUCAUGAAAAAAGGUGGUACCGCGAAAGAG--CUUUUCGUCCUUUUACAGGGAUGAAGAG--CUCUUU
...---------(((...(((.........((((((-------((.....))))))))........)))....)))((((((--(((((((((((......)))))))))))--)))))) ( -37.93)
>Blich.0 2822565 110 + 4222334/0-120
UCC---------CGUUAUCCCAUUUAAGUGCGUGAAUGCG-UUUUUUUUGCAUUCAUGAAAAAAGGUGGUACCGCGAGAGAGUUCUCUUCGUCCUUUUAACAGGAUCAAGAGGACUCUUU
...---------(((....((((((.....((((((((((-.......)))))))))).....))))))....)))(((((((((((((.(((((......))))).))))))))))))) ( -43.60)
>consensus
AAC_________CGUUAUCAAAU_UAAGUGUAUAAACAA__UCCUGAUUGCGUUCGUAAAAAAAGGUGGUACCGCGA_UGACCCCUCUUCGUCCUUU_____GGAUGAAGGGCAUUUUUU
............(((...............((((((((((........))))))))))......((.....)))))...((((.((((((((((........)))))))))).))))... (-20.47 = -18.84 +  -1.63)

alignment

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secondary structure

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dotplot

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Window 6

Location 4,266,172 – 4,266,286
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 61.56
Mean single sequence MFE -28.74
Consensus MFE -12.92
Energy contribution -10.92
Covariance contribution -2.00
Combinations/Pair 1.87
Mean z-score -1.93
Structure conservation index 0.45
SVM decision value 1.01
SVM RNA-class probability 0.899573
Prediction RNA

Download alignment: ClustalW | MAF

>Banth.0 4266172 114 + 5227293/40-160
CAUCUUUUCU-GAACG---GAAUAGUUCUCAUUAGGAAAAGACGGAUUUGUCCGUUAUCAAGU-UAAGAGUAUAAGCAAAUUCCUGGAUUUGUUUGUAAAUAAAGGUGGUACCGCGA-UG
..((((((((-((((.---.....))))......))))))))((((....)))).((((....-......((((((((((((....)))))))))))).......(((....)))))-)) ( -28.70)
>Bcere.0 4219445 114 + 5224283/40-160
CAUCUUUUCU-GAACG---GAAUAGUUCUCAUUAGGAAAAGACGGAUUUGUCCGUUAUCAAAU-UAAGAGUAUAAACAAAUUCCUGAAUUUGUUUGUAAAUAAAGGUGGUACCGCGA-UG
..((((((((-((((.---.....))))......))))))))((((....)))).((((....-......((((((((((((....)))))))))))).......(((....)))))-)) ( -27.80)
>Bhalo.0 3155197 105 + 4202352/40-160
CAGCUUUACU-GAACA--CAAGUAAGUAAGGUCGGCGAAAAGC---------CGUUAUCAUGU-CGAGUGUGCCAAUGG--UGAUGAUUCCAUAGGCAAACAAAGGUGGUACCGCGAGUA
..((((((((-..((.--...)).))))))))((((.....))---------))........(-((.((.((((.((((--........)))).)))).))...((.....)).)))... ( -29.60)
>Bsubt.0 2868570 103 + 4214630/40-160
CAUAAUUUCUUGAA-AGAAGAGUAGAGAAAUUCGGGAAACACC---------CGUUAUCCGUUAUAAGUGCAUGAA-------CUGAUUGAGUUCAUGAAAAAAGGUGGUACCGCGAAAG
.....((((((...-.........))))))((((((...((((---------((.....)).........((((((-------((.....))))))))......))))...)).)))).. ( -22.30)
>Blich.0 2822565 110 + 4222334/40-160
CGCAAUUUCUCGAACAAAAAAGUAGAGAAAUUCGGGAAAGUCC---------CGUUAUCCCAUUUAAGUGCGUGAAUGCG-UUUUUUUUGCAUUCAUGAAAAAAGGUGGUACCGCGAGAG
(((((((((((..((......)).))))))))((((.....))---------)).....((((((.....((((((((((-.......)))))))))).....))))))....))).... ( -35.30)
>consensus
CAUCUUUUCU_GAACA___GAGUAGAUAAAAUCGGGAAAAAAC_________CGUUAUCAAAU_UAAGUGUAUAAACAA__UCCUGAUUGCGUUCGUAAAAAAAGGUGGUACCGCGA_UG
....................................................(((...............((((((((((........))))))))))......((.....))))).... (-12.92 = -10.92 +  -2.00)

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 17:15:02 2006