Locus 15

Sequence ID pao.3201
Location 6,044,934 – 6,045,077
Length 143
Max. P 0.999889
window109 window110

overview

Window 9

Location 6,044,934 – 6,045,037
Length 103
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 73.07
Mean single sequence MFE -36.30
Consensus MFE -12.70
Energy contribution -13.02
Covariance contribution 0.32
Combinations/Pair 1.28
Mean z-score -3.44
Structure conservation index 0.35
SVM decision value 4.40
SVM RNA-class probability 0.999889
Prediction RNA

Download alignment: ClustalW | MAF

>pao.3201 6044934 103 - 6264404
GUUUGAAGGUCG--GCG---CAAGCGGUUGA-GUAGAAAAGAAAAUUUUCGAAAAU-----------AACGCUUGACGGAACGAGAGGUUGCUGUAGAAUGCGCGGCCUCGGUUGAGACG
((((.((..(((--.((---((((((.....-...(((((.....)))))......-----------..)))))).))...)))((((((((.((.....))))))))))..)).)))). ( -32.89)
>pau.3340 6317853 103 - 6537648
GUUUGAAGGUCG--GCG---CAAGCGGUUGA-GUAGAAAAGAAAAUUUUCGAAAAU-----------AACGCUUGACGGAACGAGAGGUUGCUGUAGAAUGCGCGGCCUCGGUUGAGACG
((((.((..(((--.((---((((((.....-...(((((.....)))))......-----------..)))))).))...)))((((((((.((.....))))))))))..)).)))). ( -32.89)
>psp.2683 5252413 115 - 5928787
AAGAGUUGAUCGAAGCG---CAAGUGGUUGAAGUUGCAAAGGAAACUUU-GAAAACUUCUUAAAAUAACCGCUUGACAGAUACAAGAGACGCUGUAGAAUGCGCG-CCUCGGUUGAGACG
.....(..(((((.(((---(((((((((((((((.(((((....))))-)..)))))).......))))))))(.((..((((........))))...))))))-).)))))..).... ( -39.51)
>pss.2761 5428443 115 - 6093698
AAGAGUUGAUCGCAGCG---CAAGUGGUUGAAGUUGCAAAGGAAACUUU-GAAAACUUCUCAAAAUAACCGCUUGACAGAUACAGAGGACGCUGUAGAAUGCGCG-CCUCGGUUGAGACG
.....(..((((..(((---(((((((((((((((.(((((....))))-)..)))))).......))))))))(.((..(((((......)))))...))))))-)..))))..).... ( -40.21)
>pel.336 5192459 100 + 5888780
-------GAUCGCAGCGAGUUAAGCGGUUGAGGUUGAACGAAAAACUUC-GAAAAU-----------AACGCUUGACACGAAAUGAGGUUAGCGUAGAAUGCGCG-CCUCGGUUGAGACG
-------..((.((((..((((((((.((((((((........))))))-))....-----------..))))))))......((((((..((((.....)))))-))))))))).)).. ( -36.00)
>consensus
AAGAGAAGAUCG_AGCG___CAAGCGGUUGA_GUUGAAAAGAAAACUUU_GAAAAU___________AACGCUUGACAGAAACAGAGGUUGCUGUAGAAUGCGCG_CCUCGGUUGAGACG
.........((...((....((((((...((((((........))))))....................)))))).........((((.(((.((.....))))).)))).))...)).. (-12.70 = -13.02 +   0.32)

alignment

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secondary structure

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dotplot

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Window 0

Location 6,044,974 – 6,045,077
Length 103
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 71.48
Mean single sequence MFE -34.10
Consensus MFE -9.27
Energy contribution -9.39
Covariance contribution 0.12
Combinations/Pair 1.30
Mean z-score -2.68
Structure conservation index 0.27
SVM decision value 2.89
SVM RNA-class probability 0.997598
Prediction RNA

Download alignment: ClustalW | MAF

>pao.3201 6044974 103 - 6264404
UUGAACGCUGUAGAAUGCGCCUCCCGCUGAUCGGAAGAUGGUUUGAAGGUCG--GCG---CAAGCGGUUGA-GUAGAAAAGAAAAUUUUCGAAAAU-----------AACGCUUGACGGA
.......((((.....(((((..(((((.(((....)))))).....))..)--)))---)(((((.....-...(((((.....)))))......-----------..))))).)))). ( -29.79)
>pau.3340 6317893 103 - 6537648
UUGAACGCUGUAGAAUGCGCCUCCCGCUGAUCGGAAGAUGGUUUGAAGGUCG--GCG---CAAGCGGUUGA-GUAGAAAAGAAAAUUUUCGAAAAU-----------AACGCUUGACGGA
.......((((.....(((((..(((((.(((....)))))).....))..)--)))---)(((((.....-...(((((.....)))))......-----------..))))).)))). ( -29.79)
>psp.2683 5252452 116 - 5928787
UGUAACGCUGUAUAAUUCGCCUCCCGCUGAUGAGCAACUGAAGAGUUGAUCGAAGCG---CAAGUGGUUGAAGUUGCAAAGGAAACUUU-GAAAACUUCUUAAAAUAACCGCUUGACAGA
.......((((.............((((..(((.(((((....))))).))).))))---(((((((((((((((.(((((....))))-)..)))))).......))))))))))))). ( -38.31)
>pss.2761 5428482 116 - 6093698
UGUAACGCUGUAGAAUUCGCCUCCCGCUGAUGAGCAACUCAAGAGUUGAUCGCAGCG---CAAGUGGUUGAAGUUGCAAAGGAAACUUU-GAAAACUUCUCAAAAUAACCGCUUGACAGA
.......((((.............(((((.(((.(((((....))))).))))))))---(((((((((((((((.(((((....))))-)..)))))).......))))))))))))). ( -42.11)
>pel.336 5192498 95 + 5888780
UGUAACGCUGUAUGAUUCGCCUCCCGCU-ACGAGA------------GAUCGCAGCGAGUUAAGCGGUUGAGGUUGAACGAAAAACUUC-GAAAAU-----------AACGCUUGACACG
.....((((((..(((.(..(((.....-..))).------------)))))))))).((((((((.((((((((........))))))-))....-----------..))))))))... ( -30.50)
>consensus
UGUAACGCUGUAGAAUUCGCCUCCCGCUGAUGAGAAAAUGAAGAGAAGAUCG_AGCG___CAAGCGGUUGA_GUUGAAAAGAAAACUUU_GAAAAU___________AACGCUUGACAGA
.......((((.............(((((((.................))))..)))...((((((...((((((........))))))....................)))))))))). ( -9.27 =  -9.39 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 21:05:15 2007