Locus 176

Sequence ID pao.2660
Location 5,036,879 – 5,037,035
Length 156
Max. P 0.826520
window743 window744 window745

overview

Window 3

Location 5,036,879 – 5,036,995
Length 116
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 89.33
Mean single sequence MFE -36.34
Consensus MFE -28.51
Energy contribution -28.07
Covariance contribution -0.44
Combinations/Pair 1.11
Mean z-score -2.61
Structure conservation index 0.78
SVM decision value 0.64
SVM RNA-class probability 0.810026
Prediction RNA

Download alignment: ClustalW | MAF

>pao.2660 5036879 116 + 6264404
UUUUCGUUGACAACAAUUUCAGCAUGACUUAAUUUCGGCAUCAGCGAAUCGUCGACCAACAACA-AACGGA-CGAUCGCUGUCGCCGCACAGGGUCCAU--GGCUGUCACCCGCCAUCCA
.....(((((........)))))..(((((.....((((..((((((.(((((...........-....))-)))))))))..))))....))))).((--(((........)))))... ( -37.06)
>pau.2746 5200462 116 + 6537648
UUUUCGUUGACAACAAUUUCAGCAUGACUUAAUUUCGGCAUCAGCGAAUCGUCGACCAACAACA-AACGGA-CGAUCGCUGUCGCCGCACAGGGUCCAU--GGCUGUCACCCGCCAUCCA
.....(((((........)))))..(((((.....((((..((((((.(((((...........-....))-)))))))))..))))....))))).((--(((........)))))... ( -37.06)
>pf5.526 6049424 119 - 7074893
UUUUCGUUGACCACGAUUUCAGCAUGACUUAAUUUCGGCAUCGGCGAAUCGACUAUCAACAACACAACAAAGCGAUCGCCGUCGCCGCACAGGGUCCAUGGGGCUG-CAUCCACUCCCCA
.....(((((........)))))..(((((.....((((..((((((.(((.((................)))))))))))..))))....)))))..(((((.((-....))..))))) ( -34.89)
>consensus
UUUUCGUUGACAACAAUUUCAGCAUGACUUAAUUUCGGCAUCAGCGAAUCGUCGACCAACAACA_AACGGA_CGAUCGCUGUCGCCGCACAGGGUCCAU__GGCUGUCACCCGCCAUCCA
.....(((((........)))))..(((((.....((((..((((((.(((....((...........))..)))))))))..))))....))))).....(((........)))..... (-28.51 = -28.07 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 4

Location 5,036,919 – 5,037,035
Length 116
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 85.96
Mean single sequence MFE -43.40
Consensus MFE -31.13
Energy contribution -30.67
Covariance contribution -0.47
Combinations/Pair 1.13
Mean z-score -2.56
Structure conservation index 0.72
SVM decision value 0.70
SVM RNA-class probability 0.826520
Prediction RNA

Download alignment: ClustalW | MAF

>pao.2660 5036919 116 + 6264404
UCAGCGAAUCGUCGACCAACAACA-AACGGA-CGAUCGCUGUCGCCGCACAGGGUCCAU--GGCUGUCACCCGCCAUCCAUGGAAAGGCGAGAGUUGCCAUGGCCCAUAAGGCCGAUCCU
.((((((.(((((...........-....))-)))))))))(((((.....(((.((((--(((...(.(.((((.((....))..)))).).)..))))))))))....)).))).... ( -46.16)
>pau.2746 5200502 116 + 6537648
UCAGCGAAUCGUCGACCAACAACA-AACGGA-CGAUCGCUGUCGCCGCACAGGGUCCAU--GGCUGUCACCCGCCAUCCAUGGAAAGGCGAGAGUUGCCAUGGCCCAUAAGGCCGAUCCU
.((((((.(((((...........-....))-)))))))))(((((.....(((.((((--(((...(.(.((((.((....))..)))).).)..))))))))))....)).))).... ( -46.16)
>pf5.526 6049464 117 - 7074893
UCGGCGAAUCGACUAUCAACAACACAACAAAGCGAUCGCCGUCGCCGCACAGGGUCCAUGGGGCUG-CAUCCACUCCCCAUAAGAAGGC--GAGUUUCCAUGGCCCACAAGGCCAAUCCU
.((((((.(((.((................)))))))))))..(((.....(((.((((((((...-...))((((.((.......)).--))))..)))))))))....)))....... ( -37.89)
>consensus
UCAGCGAAUCGUCGACCAACAACA_AACGGA_CGAUCGCUGUCGCCGCACAGGGUCCAU__GGCUGUCACCCGCCAUCCAUGGAAAGGCGAGAGUUGCCAUGGCCCAUAAGGCCGAUCCU
.((((((.(((....((...........))..)))))))))..(((.....(((.((((..((((.((.((..((......))...)).)).))))...)))))))....)))....... (-31.13 = -30.67 +  -0.47)

alignment

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secondary structure

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dotplot

Postscript

Window 5

Location 5,036,919 – 5,037,035
Length 116
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 85.96
Mean single sequence MFE -49.87
Consensus MFE -36.23
Energy contribution -36.13
Covariance contribution -0.10
Combinations/Pair 1.18
Mean z-score -1.99
Structure conservation index 0.73
SVM decision value 0.11
SVM RNA-class probability 0.586602
Prediction RNA

Download alignment: ClustalW | MAF

>pao.2660 5036919 116 - 6264404
AGGAUCGGCCUUAUGGGCCAUGGCAACUCUCGCCUUUCCAUGGAUGGCGGGUGACAGCC--AUGGACCCUGUGCGGCGACAGCGAUCG-UCCGUU-UGUUGUUGGUCGACGAUUCGCUGA
.......(((.(((((((((((((..(.((((((..((....)).)))))).)...)))--)))).))).))).)))..(((((((((-((..((-.......))..))))).)))))). ( -52.50)
>pau.2746 5200502 116 - 6537648
AGGAUCGGCCUUAUGGGCCAUGGCAACUCUCGCCUUUCCAUGGAUGGCGGGUGACAGCC--AUGGACCCUGUGCGGCGACAGCGAUCG-UCCGUU-UGUUGUUGGUCGACGAUUCGCUGA
.......(((.(((((((((((((..(.((((((..((....)).)))))).)...)))--)))).))).))).)))..(((((((((-((..((-.......))..))))).)))))). ( -52.50)
>pf5.526 6049464 117 + 7074893
AGGAUUGGCCUUGUGGGCCAUGGAAACUC--GCCUUCUUAUGGGGAGUGGAUG-CAGCCCCAUGGACCCUGUGCGGCGACGGCGAUCGCUUUGUUGUGUUGUUGAUAGUCGAUUCGCCGA
.......(((....(((((((((..((((--.((.......)).))))((...-...)))))))).))).....)))..(((((((((..((((((......)))))).))).)))))). ( -44.60)
>consensus
AGGAUCGGCCUUAUGGGCCAUGGCAACUCUCGCCUUUCCAUGGAUGGCGGGUGACAGCC__AUGGACCCUGUGCGGCGACAGCGAUCG_UCCGUU_UGUUGUUGGUCGACGAUUCGCUGA
.......(((....((((((((((..(.((((((.((.....)).)))))).)...)))..)))).))).....)))..(((((((((..(((.........)))....))).)))))). (-36.23 = -36.13 +  -0.10)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 21:16:43 2007