Locus 49

Sequence ID	pao.411
Location	724,650 – 724,890
Length	240
Max. P	0.955785

overview

Window 6

Location	724,650 – 724,770
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	96.67
Mean single sequence MFE	-41.16
Consensus MFE	-40.31
Energy contribution	-39.81
Covariance contribution	-0.50
Combinations/Pair	1.03
Mean z-score	-2.19
Structure conservation index	0.98
SVM decision value	1.46
SVM RNA-class probability	0.955785
Prediction	RNA

Download alignment: ClustalW | MAF

>pao.411 724650 120 + 6264404
GCGUACCUUUUGUAUAAUGGGUCAGCGACUUAUAUUCAGUGGCAAGCUUAACCGUAUAGGGUAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCGUUUAGUCGCUGGGUAUAGACCCGAAAC
..((((.....))))..((((((.......(((((((((((((..(((((.((.....)).)))))...((....))..((((.....)))).....))))))))))))))))))).... ( -40.81)
>pau.2632 1583025 120 - 6537648
GCGUACCUUUUGUAUAAUGGGUCAGCGACUUAUAUUCAGUGGCAAGCUUAACCGUAUAGGGUAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCGUUUAGUCGCUGGGUAUAGACCCGAAAC
..((((.....))))..((((((.......(((((((((((((..(((((.((.....)).)))))...((....))..((((.....)))).....))))))))))))))))))).... ( -40.81)
>pss.496 967321 120 + 6093698
GCGUACCUUUUGUAUAAUGGGUCAGCGACUUAUUUUCAGUGGCGAGCUUAACCGAAUAGGGGAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCGUCUAGUCGCUGGGAAUAGACCCGAAAC
..((((.....))))..((((((.......((((..(((((((..((((..((.....))..))))...((....))((((((.....)))).))..)))))))..)))))))))).... ( -41.51)
>pfo.1282 2552123 120 + 6438405
GCGUACCUUUUGUAUAAUGGGUCAGCGACUUAUUUUCAGUGGCGAGCUUAACCGAAUAGGGGAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCGUCUAGUCGCUGGGAAUAGACCCGAAAC
..((((.....))))..((((((.......((((..(((((((..((((..((.....))..))))...((....))((((((.....)))).))..)))))))..)))))))))).... ( -41.51)
>consensus
GCGUACCUUUUGUAUAAUGGGUCAGCGACUUAUAUUCAGUGGCAAGCUUAACCGAAUAGGGGAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCGUCUAGUCGCUGGGAAUAGACCCGAAAC
..((((.....))))..((((((.......(((((((((((((..((((..((.....))..))))...((....))..((((.....)))).....))))))))))))))))))).... (-40.31 = -39.81 +  -0.50)

alignment

secondary structure

dotplot

Window 7

Location	724,690 – 724,810
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	96.25
Mean single sequence MFE	-40.23
Consensus MFE	-39.54
Energy contribution	-39.35
Covariance contribution	-0.19
Combinations/Pair	1.09
Mean z-score	-1.81
Structure conservation index	0.98
SVM decision value	0.90
SVM RNA-class probability	0.877803
Prediction	RNA

Download alignment: ClustalW | MAF

>pao.411 724690 120 + 6264404
GGCAAGCUUAACCGUAUAGGGUAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCGUUUAGUCGCUGGGUAUAGACCCGAAACCGGGCGAUCUAUCCAUGAGCAGGUUGAAGGUUAGGUAACA
.....((((((((.....((.(((((...((....))..((((.....))))))))).))(((.((.(((((((((....))))...)))))))...)))........)))))))).... ( -39.90)
>pau.2632 1583065 120 - 6537648
GGCAAGCUUAACCGUAUAGGGUAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCGUUUAGUCGCUGGGUAUAGACCCGAAACCGGGCGAUCUAUCCAUGAGCAGGUUGAAGGUUAGGUAACA
.....((((((((.....((.(((((...((....))..((((.....))))))))).))(((.((.(((((((((....))))...)))))))...)))........)))))))).... ( -39.90)
>pss.496 967361 120 + 6093698
GGCGAGCUUAACCGAAUAGGGGAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCGUCUAGUCGCUGGGAAUAGACCCGAAACCGGGCGAUCUAUCCAUGGGCAGGUUGAAGGUUGGGUAACA
(((((((((..((.....))..))))...((....))((((((.....)))).))...)))))........(((((..(((...((((((..(....)..))))))..)))))))).... ( -41.00)
>pfo.1282 2552163 120 + 6438405
GGCGAGCUUAACCGAAUAGGGGAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCGUCUAGUCGCUGGGAAUAGACCCGAAACCGGGCGAUCUAUCCAUGGGCAGGUUGAAGGUUAGGUAACA
.....((((((((.....((.(((((...((....))..))))).....((.(((((.((.....)).)))))))....))...((((((..(....)..))))))..)))))))).... ( -40.10)
>consensus
GGCAAGCUUAACCGAAUAGGGGAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCGUCUAGUCGCUGGGAAUAGACCCGAAACCGGGCGAUCUAUCCAUGAGCAGGUUGAAGGUUAGGUAACA
.....((((((((.....((.(((((...((....))..((((.....))))))))).))(((.((.(((((((((....))))...)))))))...)))........)))))))).... (-39.54 = -39.35 +  -0.19)

alignment

secondary structure

dotplot

Window 8

Location	724,770 – 724,890
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	95.83
Mean single sequence MFE	-40.15
Consensus MFE	-40.78
Energy contribution	-40.40
Covariance contribution	-0.38
Combinations/Pair	1.10
Mean z-score	-1.58
Structure conservation index	1.02
SVM decision value	0.61
SVM RNA-class probability	0.798191
Prediction	RNA

Download alignment: ClustalW | MAF

>pao.411 724770 120 + 6264404
CGGGCGAUCUAUCCAUGAGCAGGUUGAAGGUUAGGUAACACUGACUGGAGGACCGAACCCACUCCCGUUGAAAAGGUAGGGGAUGACUUGUGGAUCGGAGUGAAAGGCUAAUCAAGCUCG
(((((..((((((((..((((((((...((((((......))))))....))))...(((.((.((........)).))))).)).))..))))).))).(((........))).))))) ( -39.90)
>pau.2632 1583145 120 - 6537648
CGGGCGAUCUAUCCAUGAGCAGGUUGAAGGUUAGGUAACACUGACUGGAGGACCGAACCCACUCCCGUUGAAAAGGUAGGGGAUGACUUGUGGAUCGGAGUGAAAGGCUAAUCAAGCUCG
(((((..((((((((..((((((((...((((((......))))))....))))...(((.((.((........)).))))).)).))..))))).))).(((........))).))))) ( -39.90)
>pss.496 967441 120 + 6093698
CGGGCGAUCUAUCCAUGGGCAGGUUGAAGGUUGGGUAACACUAACUGGAGGACCGAACCGACUACCGUUGAAAAGUUAGCGGAUGACCUGUGGAUCGGAGUGAAAGGCUAAUCAAGCUCG
(((((..((((((((((((((((((...((((((......))))))....))))..........(((((((....))))))).)).))))))))).))).(((........))).))))) ( -40.20)
>pfo.1282 2552243 120 + 6438405
CGGGCGAUCUAUCCAUGGGCAGGUUGAAGGUUAGGUAACACUGACUGGAGGACCGAACCGACUACCGUUGAAAAGUUAGCGGAUGACCUGUGGAUCGGAGUGAAAGGCUAAUCAAGCUCG
(((((..((((((((((((((((((...((((((......))))))....))))..........(((((((....))))))).)).))))))))).))).(((........))).))))) ( -40.60)
>consensus
CGGGCGAUCUAUCCAUGAGCAGGUUGAAGGUUAGGUAACACUGACUGGAGGACCGAACCCACUACCGUUGAAAAGGUAGCGGAUGACCUGUGGAUCGGAGUGAAAGGCUAAUCAAGCUCG
(((((..((((((((((((((((((...((((((......))))))....))))...(((.(((((........)))))))).)).))))))))).))).(((........))).))))) (-40.78 = -40.40 +  -0.38)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 21:08:05 2007