Locus 98

Sequence ID pao_1
Location 5,583,794 – 5,583,882
Length 88
Max. P 0.970048
window367 window368

overview

Window 7

Location 5,583,794 – 5,583,882
Length 88
Sequences 3
Columns 88
Reading direction forward
Mean pairwise identity 88.64
Mean single sequence MFE -28.10
Consensus MFE -25.22
Energy contribution -25.00
Covariance contribution -0.22
Combinations/Pair 1.08
Mean z-score -2.17
Structure conservation index 0.90
SVM decision value 1.01
SVM RNA-class probability 0.899212
Prediction RNA

Download alignment: ClustalW | MAF

>pao_1 5583794 88 + 1
CGCUAGCCCGAUCAGGUUCAACGGGAUCCGGAACUAUCCGAUCUCAGCCCCUCGUAUAGGGCACCCCGACAAGAACCCCGGCAGUCUA
.(((.(((.(....(((((...((((((.(((....))))))))).((((........))))..........)))))).))))))... ( -29.40)
>pau_1 1 88 + 1
CGCUAGCCCGAUCAGGUUCAACGGGAUCCGGAACUAUCCGAUCUCAGCCCCUCGUAUAGGGCACCCCGACAAGAACCCCGGCAGUCUA
.(((.(((.(....(((((...((((((.(((....))))))))).((((........))))..........)))))).))))))... ( -29.40)
>pfo_1 1 87 + 1
CGCUAACCUGAUCAGGUUCAACGGGAUCCGAAAUUAUUCGAUCUCAGCCUCAUA-GCAAGGCACCCCGACAAGAACCCGGCCAGUCUA
.......(((..(.(((((...((((((.(((....))))))))).((((....-...))))..........))))).)..))).... ( -25.50)
>consensus
CGCUAGCCCGAUCAGGUUCAACGGGAUCCGGAACUAUCCGAUCUCAGCCCCUCGUAUAGGGCACCCCGACAAGAACCCCGGCAGUCUA
.(((.(((.(....(((((...((((((.(((....))))))))).((((........))))..........)))))).))))))... (-25.22 = -25.00 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 5,583,794 – 5,583,882
Length 88
Sequences 3
Columns 88
Reading direction reverse
Mean pairwise identity 88.64
Mean single sequence MFE -35.70
Consensus MFE -34.83
Energy contribution -33.50
Covariance contribution -1.33
Combinations/Pair 1.14
Mean z-score -1.99
Structure conservation index 0.98
SVM decision value 1.65
SVM RNA-class probability 0.970048
Prediction RNA

Download alignment: ClustalW | MAF

>pao_1 5583794 88 - 1
UAGACUGCCGGGGUUCUUGUCGGGGUGCCCUAUACGAGGGGCUGAGAUCGGAUAGUUCCGGAUCCCGUUGAACCUGAUCGGGCUAGCG
..(.(((((.((((((....(((((((((((......))))).....(((((....)))))))))))..)))))....).))).))). ( -35.60)
>pau_1 1 88 - 1
UAGACUGCCGGGGUUCUUGUCGGGGUGCCCUAUACGAGGGGCUGAGAUCGGAUAGUUCCGGAUCCCGUUGAACCUGAUCGGGCUAGCG
..(.(((((.((((((....(((((((((((......))))).....(((((....)))))))))))..)))))....).))).))). ( -35.60)
>pfo_1 1 87 - 1
UAGACUGGCCGGGUUCUUGUCGGGGUGCCUUGC-UAUGAGGCUGAGAUCGAAUAAUUUCGGAUCCCGUUGAACCUGAUCAGGUUAGCG
....(((..(((((((....(((((((((((..-...))))).....(((((....)))))))))))..)))))))..)))....... ( -35.90)
>consensus
UAGACUGCCGGGGUUCUUGUCGGGGUGCCCUAUACGAGGGGCUGAGAUCGGAUAGUUCCGGAUCCCGUUGAACCUGAUCGGGCUAGCG
(((.(((...((((((....(((((((((((......))))).....(((((....)))))))))))..))))))...))).)))... (-34.83 = -33.50 +  -1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:53:36 2007