Locus 38

Sequence ID	pao_1
Location	3,206,409 – 3,206,499
Length	90
Max. P	0.999987

overview

Window 2

Location	3,206,409 – 3,206,499
Length	90
Sequences	6
Columns	90
Reading direction	forward
Mean pairwise identity	91.70
Mean single sequence MFE	-36.40
Consensus MFE	-36.21
Energy contribution	-34.77
Covariance contribution	-1.44
Combinations/Pair	1.21
Mean z-score	-3.20
Structure conservation index	0.99
SVM decision value	5.46
SVM RNA-class probability	0.999987
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 3206409 90 + 1
GGUGAGGUGUCCGAGUGGUUGAAGGAGCACGCCUGGAAAGUGUGUAUACGGGAAACCGUAUCGAGGGUUCGAAUCCCUCCCUCACCGCCA
(((((((..((((.((((((.....))).))).))))......(.((((((....)))))))(((((.......)))))))))))).... ( -39.30)
>pau_1 1 90 + 1
GGUGAGGUGUCCGAGUGGUUGAAGGAGCACGCCUGGAAAGUGUGUAUACGGGAAACCGUAUCGAGGGUUCGAAUCCCUCCCUCACCGCCA
(((((((..((((.((((((.....))).))).))))......(.((((((....)))))))(((((.......)))))))))))).... ( -39.30)
>pel_1 1 90 + 1
GGUGAAGUGUCCGAGUGGUCGAAGGAGCACGCCUGGAAAGUGUGUAUACGAGAAAUCGUAUCAAGGGUUCAAAUCCCUUCUUCACCGCCA
(((((((..((((.(((.((....)).)))...)))).....((.((((((....))))))))((((.......)))).))))))).... ( -34.20)
>pf5_1 1 90 + 1
GGUGAAGUGUCCGAGUGGCUUAAGGAGCACGCCUGGAAAGUGUGUAUACAGGAAACUGUAUCGAGAGUUCGAAUCUCUCCUUCACCGCCA
(((((((..((((.(((((((...)))).))).))))......(.((((((....)))))))(((((.......)))))))))))).... ( -35.70)
>pfo_1 1 90 + 1
GGUGAAGUGUCCGAGUGGCUUAAGGAGCACGCCUGGAAAGUGUGUAUACAGGAAACUGUAUCGAGAGUUCGAAUCUCUCCUUCACCGCCA
(((((((..((((.(((((((...)))).))).))))......(.((((((....)))))))(((((.......)))))))))))).... ( -35.70)
>ppk_1 1 90 + 1
GGUGAAGUGUCCGAGUGGUCGAAGGAGCACGCCUGGAAAGUGUGUAUACGAGAAAUCGUAUCAAGGGUUCAAAUCCCUUCUUCACCGCCA
(((((((..((((.(((.((....)).)))...)))).....((.((((((....))))))))((((.......)))).))))))).... ( -34.20)
>consensus
GGUGAAGUGUCCGAGUGGUUGAAGGAGCACGCCUGGAAAGUGUGUAUACGGGAAACCGUAUCGAGGGUUCGAAUCCCUCCUUCACCGCCA
(((((((..((((.((((((.....))).))).))))......(.((((((....)))))))(((((.......)))))))))))).... (-36.21 = -34.77 +  -1.44)

alignment

secondary structure

dotplot

Window 3

Location	3,206,409 – 3,206,499
Length	90
Sequences	6
Columns	90
Reading direction	reverse
Mean pairwise identity	91.70
Mean single sequence MFE	-28.17
Consensus MFE	-27.75
Energy contribution	-25.53
Covariance contribution	-2.22
Combinations/Pair	1.20
Mean z-score	-1.85
Structure conservation index	0.99
SVM decision value	3.22
SVM RNA-class probability	0.998763
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 3206409 90 - 1
UGGCGGUGAGGGAGGGAUUCGAACCCUCGAUACGGUUUCCCGUAUACACACUUUCCAGGCGUGCUCCUUCAACCACUCGGACACCUCACC
....(((((((((((((.((((....))))(((((....)))))..(((.((.....)).))).))))))..((....))...))))))) ( -31.50)
>pau_1 1 90 - 1
UGGCGGUGAGGGAGGGAUUCGAACCCUCGAUACGGUUUCCCGUAUACACACUUUCCAGGCGUGCUCCUUCAACCACUCGGACACCUCACC
....(((((((((((((.((((....))))(((((....)))))..(((.((.....)).))).))))))..((....))...))))))) ( -31.50)
>pel_1 1 90 - 1
UGGCGGUGAAGAAGGGAUUUGAACCCUUGAUACGAUUUCUCGUAUACACACUUUCCAGGCGUGCUCCUUCGACCACUCGGACACUUCACC
....((((((((((((.......))))).((((((....))))))........(((.((.(((.((....)).))))))))..))))))) ( -25.20)
>pf5_1 1 90 - 1
UGGCGGUGAAGGAGAGAUUCGAACUCUCGAUACAGUUUCCUGUAUACACACUUUCCAGGCGUGCUCCUUAAGCCACUCGGACACUUCACC
....((((((((((((.......))))).((((((....))))))........(((..(.(.(((.....)))).)..)))..))))))) ( -27.80)
>pfo_1 1 90 - 1
UGGCGGUGAAGGAGAGAUUCGAACUCUCGAUACAGUUUCCUGUAUACACACUUUCCAGGCGUGCUCCUUAAGCCACUCGGACACUUCACC
....((((((((((((.......))))).((((((....))))))........(((..(.(.(((.....)))).)..)))..))))))) ( -27.80)
>ppk_1 1 90 - 1
UGGCGGUGAAGAAGGGAUUUGAACCCUUGAUACGAUUUCUCGUAUACACACUUUCCAGGCGUGCUCCUUCGACCACUCGGACACUUCACC
....((((((((((((.......))))).((((((....))))))........(((.((.(((.((....)).))))))))..))))))) ( -25.20)
>consensus
UGGCGGUGAAGGAGGGAUUCGAACCCUCGAUACGGUUUCCCGUAUACACACUUUCCAGGCGUGCUCCUUCAACCACUCGGACACUUCACC
....((((((((((((.......))))).((((((....)))))).(((.((.....)).))).........((....))...))))))) (-27.75 = -25.53 +  -2.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:47:56 2007