Locus 95

Sequence ID	pao_1
Location	5,387,760 – 5,387,871
Length	111
Max. P	0.999943

overview

Window 1

Location	5,387,760 – 5,387,871
Length	111
Sequences	5
Columns	111
Reading direction	forward
Mean pairwise identity	87.00
Mean single sequence MFE	-54.76
Consensus MFE	-51.04
Energy contribution	-51.24
Covariance contribution	0.20
Combinations/Pair	1.11
Mean z-score	-3.39
Structure conservation index	0.93
SVM decision value	4.58
SVM RNA-class probability	0.999924
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 5387760 111 + 1
AAUUGGCGGAAGGCAGUGGGAGUCGAACCCACCCAGGAACGGCUGCCGUCCCCCACCGGAUUUGAAGUCCGGCCACGCCACCGGGCGUGAUUGCCUUCCUCUUUGAUUUGC
....((.((((((((((((.(((((..((......))..))))).))........((((((.....)))))).((((((....)))))))))))))))).))......... ( -48.20)
>pau_1 1 111 + 1
AAUUGGCGGAAGGCAGUGGGAGUCGAACCCACCCAGGAACGGCUGCCGUCCCCCACCGGAUUUGAAGUCCGGCCACGCCACCGGGCGUGAUUGCCUUCCUCUUUGAUUUGC
....((.((((((((((((.(((((..((......))..))))).))........((((((.....)))))).((((((....)))))))))))))))).))......... ( -48.20)
>pel_1 1 100 + 1
AAUUGGCGGAAGGCAGCGGGAGUCGAACCUGCCCGGGAACGGCUGCCGUCCCCAACCGGGUUUGAAGCCCGGCCGCGCCACCGGGCGCGAUUGCCUUCCU-----------
.......(((((((((((((..(((((((((...(((.((((...)))).)))...)))))))))..))))..((((((....)))))).))))))))).----------- ( -59.10)
>pfo_1 1 100 + 1
AAUUGGCGGAAGGCAGCCGGAGUCGAACCUGCCCGGGAACGGAUGCCGUCCCCAACCGGGUUUGAAGCCCGGCCGCGCCACCGGGCGCGAUUGCCUUCCU-----------
.......(((((((((((((..(((((((((...(((.((((...)))).)))...)))))))))...)))))((((((....))))))..)))))))).----------- ( -59.20)
>ppk_1 1 97 + 1
---UGGCGGAAGGCAGCGGGAGUCGAACCUGCCCGGGAACGGCUGCCGUCCCCAACCGGGUUUGAAGCCCGGCCGCGCCACCGGGCGCGAUUGCCUUCCU-----------
---....(((((((((((((..(((((((((...(((.((((...)))).)))...)))))))))..))))..((((((....)))))).))))))))).----------- ( -59.10)
>consensus
AAUUGGCGGAAGGCAGCGGGAGUCGAACCUGCCCGGGAACGGCUGCCGUCCCCAACCGGGUUUGAAGCCCGGCCGCGCCACCGGGCGCGAUUGCCUUCCU___________
.......(((((((((((((..(((((((((...(((.((((...)))).)))...)))))))))..))))..((((((....)))))).)))))))))............ (-51.04 = -51.24 +   0.20)

alignment

secondary structure

dotplot

Window 2

Location	5,387,760 – 5,387,871
Length	111
Sequences	5
Columns	111
Reading direction	reverse
Mean pairwise identity	87.00
Mean single sequence MFE	-55.78
Consensus MFE	-53.06
Energy contribution	-51.82
Covariance contribution	-1.24
Combinations/Pair	1.12
Mean z-score	-3.36
Structure conservation index	0.95
SVM decision value	4.72
SVM RNA-class probability	0.999943
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 5387760 111 - 1
GCAAAUCAAAGAGGAAGGCAAUCACGCCCGGUGGCGUGGCCGGACUUCAAAUCCGGUGGGGGACGGCAGCCGUUCCUGGGUGGGUUCGACUCCCACUGCCUUCCGCCAAUU
............(((((((...((((((....))))))((((((.......)))))).((((((((...)))))))).((((((.......)))))))))))))....... ( -52.50)
>pau_1 1 111 - 1
GCAAAUCAAAGAGGAAGGCAAUCACGCCCGGUGGCGUGGCCGGACUUCAAAUCCGGUGGGGGACGGCAGCCGUUCCUGGGUGGGUUCGACUCCCACUGCCUUCCGCCAAUU
............(((((((...((((((....))))))((((((.......)))))).((((((((...)))))))).((((((.......)))))))))))))....... ( -52.50)
>pel_1 1 100 - 1
-----------AGGAAGGCAAUCGCGCCCGGUGGCGCGGCCGGGCUUCAAACCCGGUUGGGGACGGCAGCCGUUCCCGGGCAGGUUCGACUCCCGCUGCCUUCCGCCAAUU
-----------.((((((((.(((((((....))))))).((((..((.((((.(.((((((((((...)))))))))).).)))).))..)))).))))))))....... ( -57.00)
>pfo_1 1 100 - 1
-----------AGGAAGGCAAUCGCGCCCGGUGGCGCGGCCGGGCUUCAAACCCGGUUGGGGACGGCAUCCGUUCCCGGGCAGGUUCGACUCCGGCUGCCUUCCGCCAAUU
-----------.((((((((..((((((....))))))((((((..((.((((.(.((((((((((...)))))))))).).)))).)).))))))))))))))....... ( -59.90)
>ppk_1 1 97 - 1
-----------AGGAAGGCAAUCGCGCCCGGUGGCGCGGCCGGGCUUCAAACCCGGUUGGGGACGGCAGCCGUUCCCGGGCAGGUUCGACUCCCGCUGCCUUCCGCCA---
-----------.((((((((.(((((((....))))))).((((..((.((((.(.((((((((((...)))))))))).).)))).))..)))).))))))))....--- ( -57.00)
>consensus
___________AGGAAGGCAAUCGCGCCCGGUGGCGCGGCCGGGCUUCAAACCCGGUUGGGGACGGCAGCCGUUCCCGGGCAGGUUCGACUCCCGCUGCCUUCCGCCAAUU
............((((((((..((((((....))))))((((((.......)))))).((((((((...))))))))(((.((......)))))..))))))))....... (-53.06 = -51.82 +  -1.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:53:29 2007