Locus 26

Sequence ID Bsubt.0
Location 2,548,606 – 2,548,714
Length 108
Max. P 0.999999
window148 window149 window150

overview

Window 8

Location 2,548,606 – 2,548,714
Length 108
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 61.08
Mean single sequence MFE -38.60
Consensus MFE -24.34
Energy contribution -22.80
Covariance contribution -1.54
Combinations/Pair 1.35
Mean z-score -4.23
Structure conservation index 0.63
SVM decision value 7.04
SVM RNA-class probability 0.999999
Prediction RNA

Download alignment: ClustalW | MAF

>Bsubt.0 2548606 108 + 4214630/0-120
CAAAAAAGGACAGAGAAACACCUCAUGUAAAAUGAAGGUUCUCUGUCCUGGCACCUGAAAGUUUACUUUGCAU-------ACGCAAAGACGUCCCCAAAGGUGGUUUGCGCAUCC-----
((((..((((((((((...(((((((.....))).))))))))))))))..(((((.........((((((..-------..))))))..........))))).)))).......----- ( -36.01)
>Blich.0 2546316 116 + 4222334/0-120
CAAAAAAGGACAGAGAAGCCCCUUUGUCAGUUUGGAGGCUCUCUGUCCUGGCACCUGAAAGUUUACUUUGCAUCA----AAAGCAAAGAUGUCCCCUUUGGUGGUUUGCAAAACAUAAUA
((((..((((((((((.(((((...........)).)))))))))))))..((((.((..(..((((((((....----...)))))).))..)..)).)))).))))............ ( -37.10)
>Bhalo.0 2941379 111 + 4202352/0-120
CAAAAAAGGACAGAGCUUUACA-CAGUAAGUUGUGUAAAGCUCUGUCCGGUUACCAGAAAGUUUCUUUCCCCUUAUCGUAAAAAGGAAAUGUCUUCGUAGGUGGUCU----AGUGU----
.......(((((((((((((((-(((....))))))))))))))))))(..((((.(((((...))))).((((........)))).............))))..).----.....---- ( -42.70)
>consensus
CAAAAAAGGACAGAGAAACACCUCAGUAAGUUUGGAGGAUCUCUGUCCUGGCACCUGAAAGUUUACUUUGCAU_A____AAAGCAAAGAUGUCCCCAUAGGUGGUUUGC__AACAU____
.......((((((((((.(.((...........)).).))))))))))...((((..........((((((...........))))))...........))))................. (-24.34 = -22.80 +  -1.54)

alignment

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secondary structure

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dotplot

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Window 9

Location 2,548,606 – 2,548,714
Length 108
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 61.08
Mean single sequence MFE -39.60
Consensus MFE -32.86
Energy contribution -29.63
Covariance contribution -3.23
Combinations/Pair 1.48
Mean z-score -4.51
Structure conservation index 0.83
SVM decision value 6.16
SVM RNA-class probability 0.999997
Prediction RNA

Download alignment: ClustalW | MAF

>Bsubt.0 2548606 108 + 4214630/0-120
-----GGAUGCGCAAACCACCUUUGGGGACGUCUUUGCGU-------AUGCAAAGUAAACUUUCAGGUGCCAGGACAGAGAACCUUCAUUUUACAUGAGGUGUUUCUCUGUCCUUUUUUG
-----............(((((..(((.....((((((..-------..))))))....)))..)))))..((((((((((((((((((.....)))))).).)))))))))))...... ( -37.50)
>Blich.0 2546316 116 + 4222334/0-120
UAUUAUGUUUUGCAAACCACCAAAGGGGACAUCUUUGCUUU----UGAUGCAAAGUAAACUUUCAGGUGCCAGGACAGAGAGCCUCCAAACUGACAAAGGGGCUUCUCUGUCCUUUUUUG
.................((((..((((.....((((((...----....))))))....))))..))))..(((((((((((((((............))))).))))))))))...... ( -38.20)
>Bhalo.0 2941379 111 + 4202352/0-120
----ACACU----AGACCACCUACGAAGACAUUUCCUUUUUACGAUAAGGGGAAAGAAACUUUCUGGUAACCGGACAGAGCUUUACACAACUUACUG-UGUAAAGCUCUGUCCUUUUUUG
----.....----.....(((...((((...(((((((((......)))))))))....))))..)))....(((((((((((((((((......))-)))))))))))))))....... ( -43.10)
>consensus
____ACGAU__GCAAACCACCUAAGGGGACAUCUUUGCUUU____U_AUGCAAAGUAAACUUUCAGGUGCCAGGACAGAGAACCUCCAAACUAACUGAGGUGAUUCUCUGUCCUUUUUUG
.................((((...((((....(((((((((.....)))))))))....))))..))))...((((((((((.((((...........)))).))))))))))....... (-32.86 = -29.63 +  -3.23)

alignment

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secondary structure

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dotplot

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Window 0

Location 2,548,606 – 2,548,712
Length 106
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 67.14
Mean single sequence MFE -32.10
Consensus MFE -24.14
Energy contribution -22.52
Covariance contribution -1.62
Combinations/Pair 1.33
Mean z-score -1.23
Structure conservation index 0.75
SVM decision value 1.93
SVM RNA-class probability 0.982904
Prediction RNA

Download alignment: ClustalW | MAF

>Bsubt.0 2548606 106 + 4214630/40-160
GAACUCUUGCUCGACGCAACUCUGGAGAGUGUUUGUGC-------GGAUGCGCAAACCACCUUUGGGGACGUCUUUGCGU-------AUGCAAAGUAAACUUUCAGGUGCCAGGACAGAG
...(((((((.....))).(((..(((.((((((((((-------....))))))).))))))..)))..(((((.(((.-------.((.((((....))))))..))).))))))))) ( -37.80)
>Blich.0 2546316 116 + 4222334/40-160
GAACUCUUGCUUGACGCAACUCUGGAGAGAGUUUGUAUCAUAUUAUGUUUUGCAAACCACCAAAGGGGACAUCUUUGCUUU----UGAUGCAAAGUAAACUUUCAGGUGCCAGGACAGAG
...(((((((.....)))..(((((.....(((((((.(((...)))...)))))))((((..((((.....((((((...----....))))))....))))..)))))))))..)))) ( -30.20)
>Bhalo.0 2941379 107 + 4202352/40-160
AGACUCUUGCUCGACGCAGCUCUGGAGAGCGUCUA---------ACACU----AGACCACCUACGAAGACAUUUCCUUUUUACGAUAAGGGGAAAGAAACUUUCUGGUAACCGGACAGAG
...((((.(..((.....((((....))))(((((---------....)----)))).(((...((((...(((((((((......)))))))))....))))..)))...))..))))) ( -28.30)
>consensus
GAACUCUUGCUCGACGCAACUCUGGAGAGAGUUUGU________ACGAU__GCAAACCACCUAAGGGGACAUCUUUGCUUU____U_AUGCAAAGUAAACUUUCAGGUGCCAGGACAGAG
......((((.....))))(((((......(((((((.............)))))))((((...((((....(((((((((.....)))))))))....))))..))))......))))) (-24.14 = -22.52 +  -1.62)

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 17:17:27 2006