Locus 14

Sequence ID	pao_1
Location	724,647 – 724,886
Length	239
Max. P	0.997320

overview

Window 1

Location	724,647 – 724,766
Length	119
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	97.21
Mean single sequence MFE	-39.44
Consensus MFE	-39.28
Energy contribution	-38.78
Covariance contribution	-0.50
Combinations/Pair	1.03
Mean z-score	-1.49
Structure conservation index	1.00
SVM decision value	2.84
SVM RNA-class probability	0.997320
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 724647 119 + 1
GACUGCGUACCUUUUGUAUAAUGGGUCAGCGACUUAUAUUCAGUGGCAAGCUUAACCGUAUAGGGUAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCG-UUUAGUCGCUGGGUAUAGACCC
......((((.....))))...(((((.......(((((((((((((..(((((.((.....)).)))))...((....))..((((.....)))).-....)))))))))))))))))) ( -38.81)
>pel_1 601 120 + 1
GACUGCGUACCUUUUGUAUAAUGGGUCAGCGACUUAUAUUCAGUGGCGAGCUUAACCGAAUAGGGGAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCGCUUUAGUCGCUGGGUAUAGACCC
......((((.....))))...(((((.......(((((((((((((..((((..((.....))..))))((.((....))..((((.....))))))....)))))))))))))))))) ( -39.81)
>pf5_1 599 119 + 1
GACUGCGUACCUUUUGUAUAAUGGGUCAGCGACUUAUUUUCAGUGGCAAGCUUAACCGAAUAGGGGAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCG-UCUAGUCGCUGGGAAUAGACCC
......((((.....))))...(((((.......((((..(((((((..((((..((.....))..))))...((....))((((((.....)))).-))..)))))))..))))))))) ( -39.51)
>ppk_1 601 119 + 1
GACUGCGUACCUUUUGUAUAAUGGGUCAGCGACUUAUAUUCAGUGGCGAGCUUAACCGAAUAGGGGAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCG-UUUAGUCGCUGGGUAUAGACCC
......((((.....))))...(((((.......(((((((((((((..((((..((.....))..))))...((....))..((((.....)))).-....)))))))))))))))))) ( -39.51)
>pss_1 596 119 + 1
GACUGCGUACCUUUUGUAUAAUGGGUCAGCGACUUAUUUUCAGUGGCGAGCUUAACCGAAUAGGGGAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCG-UCUAGUCGCUGGGAAUAGACCC
......((((.....))))...(((((.......((((..(((((((..((((..((.....))..))))...((....))((((((.....)))).-))..)))))))..))))))))) ( -39.51)
>pst_1 596 119 + 1
GACUGCGUACCUUUUGUAUAAUGGGUCAGCGACUUAUUUUCAGUGGCGAGCUUAACCGAAUAGGGGAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCG-UCUAGUCGCUGGGAAUAGACCC
......((((.....))))...(((((.......((((..(((((((..((((..((.....))..))))...((....))((((((.....)))).-))..)))))))..))))))))) ( -39.51)
>consensus
GACUGCGUACCUUUUGUAUAAUGGGUCAGCGACUUAUAUUCAGUGGCGAGCUUAACCGAAUAGGGGAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCG_UCUAGUCGCUGGGAAUAGACCC
......((((.....))))...(((((.......(((((((((((((..((((..((.....))..))))...((....))..((((.....))))......)))))))))))))))))) (-39.28 = -38.78 +  -0.50)

alignment

secondary structure

dotplot

Window 2

Location	724,687 – 724,806
Length	119
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	96.98
Mean single sequence MFE	-41.55
Consensus MFE	-39.10
Energy contribution	-39.27
Covariance contribution	0.17
Combinations/Pair	1.00
Mean z-score	-1.77
Structure conservation index	0.94
SVM decision value	2.51
SVM RNA-class probability	0.994773
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 724687 119 + 1
CAGUGGCAAGCUUAACCGUAUAGGGUAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCG-UUUAGUCGCUGGGUAUAGACCCGAAACCGGGCGAUCUAUCCAUGAGCAGGUUGAAGGUUAGG
(((((((..(((((.((.....)).)))))...((....))..((((.....)))).-....)))))))((.(((((((((....))))...)))))))..................... ( -38.00)
>pel_1 641 120 + 1
CAGUGGCGAGCUUAACCGAAUAGGGGAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCGCUUUAGUCGCUGGGUAUAGACCCGAAACCGGGCGAUCUAUCCAUGGGCAGGUUGAAGGUUAGG
.((((((..((((..((.....))..))))((.((....))..((((.....))))))....))))))((((....))))..((((...((((((..(....)..))))))..))))... ( -42.30)
>pf5_1 639 119 + 1
CAGUGGCAAGCUUAACCGAAUAGGGGAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCG-UCUAGUCGCUGGGAAUAGACCCGAAACCGGGCGAUCUAUCCAUGGGCAGGUUGAAGGUUAGG
(((((((..((((..((.....))..))))...((....))((((((.....)))).-))..))))))).........((..((((...((((((..(....)..))))))..)))).)) ( -41.00)
>ppk_1 641 119 + 1
CAGUGGCGAGCUUAACCGAAUAGGGGAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCG-UUUAGUCGCUGGGUAUAGACCCGAAACCGGGCGAUCUAUCCAUGGGCAGGUUGAAGGUUAGG
.((((((..((((..((.....))..))))...((....))..((((.....)))).-....))))))((((....))))..((((...((((((..(....)..))))))..))))... ( -42.00)
>pss_1 636 119 + 1
CAGUGGCGAGCUUAACCGAAUAGGGGAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCG-UCUAGUCGCUGGGAAUAGACCCGAAACCGGGCGAUCUAUCCAUGGGCAGGUUGAAGGUUGGG
(((((((..((((..((.....))..))))...((....))((((((.....)))).-))..)))))))........((((..(((...((((((..(....)..))))))..))))))) ( -43.00)
>pst_1 636 119 + 1
CAGUGGCGAGCUUAACCGAAUAGGGGAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCG-UCUAGUCGCUGGGAAUAGACCCGAAACCGGGCGAUCUAUCCAUGGGCAGGUUGAAGGUUGGG
(((((((..((((..((.....))..))))...((....))((((((.....)))).-))..)))))))........((((..(((...((((((..(....)..))))))..))))))) ( -43.00)
>consensus
CAGUGGCGAGCUUAACCGAAUAGGGGAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCG_UCUAGUCGCUGGGAAUAGACCCGAAACCGGGCGAUCUAUCCAUGGGCAGGUUGAAGGUUAGG
.((((((..((((..((.....))..))))...((....))..((((.....))))......))))))(((......)))..((((...((((((..(....)..))))))..))))... (-39.10 = -39.27 +   0.17)

alignment

secondary structure

dotplot

Window 3

Location	724,766 – 724,886
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	97.44
Mean single sequence MFE	-37.32
Consensus MFE	-36.37
Energy contribution	-35.98
Covariance contribution	-0.39
Combinations/Pair	1.09
Mean z-score	-1.56
Structure conservation index	0.97
SVM decision value	2.66
SVM RNA-class probability	0.996183
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 724766 120 + 1
GAAACCGGGCGAUCUAUCCAUGAGCAGGUUGAAGGUUAGGUAACACUGACUGGAGGACCGAACCCACUCCCGUUGAAAAGGUAGGGGAUGACUUGUGGAUCGGAGUGAAAGGCUAAUCAA
....((...((.((((((((..((((((((...((((((......))))))....))))...(((.((.((........)).))))).)).))..))))).))).))...))........ ( -37.00)
>pfs_1 720 120 + 1
GAAACCGGGCGAUCUAUCCAUGGGCAGGUUGAAGGUUGGGUAACACUAACUGGAGGACCGAACCGACUACCGUUGAAAAGUUAGCGGAUGACCUGUGGAUCGGAGUGAAAGGCUAAUCAA
....((...((.((((((((((((((((((...((((((......))))))....))))..........(((((((....))))))).)).))))))))).))).))...))........ ( -37.30)
>ppk_1 720 120 + 1
GAAACCGGGCGAUCUAUCCAUGGGCAGGUUGAAGGUUAGGUAACACUGACUGGAGGACCGAACCGACUACCGUUGAAAAGUUAGCGGAUGACCUGUGGAUCGGAGUGAAAGGCUAAUCAA
....((...((.((((((((((((((((((...((((((......))))))....))))..........(((((((....))))))).)).))))))))).))).))...))........ ( -37.70)
>psp_1 715 120 + 1
GAAACCGGGCGAUCUAUCCAUGGGCAGGUUGAAGGUUGGGUAACACUAACUGGAGGACCGAACCGACUACCGUUGAAAAGUUAGCGGAUGACCUGUGGAUCGGAGUGAAAGGCUAAUCAA
....((...((.((((((((((((((((((...((((((......))))))....))))..........(((((((....))))))).)).))))))))).))).))...))........ ( -37.30)
>pss_1 715 120 + 1
GAAACCGGGCGAUCUAUCCAUGGGCAGGUUGAAGGUUGGGUAACACUAACUGGAGGACCGAACCGACUACCGUUGAAAAGUUAGCGGAUGACCUGUGGAUCGGAGUGAAAGGCUAAUCAA
....((...((.((((((((((((((((((...((((((......))))))....))))..........(((((((....))))))).)).))))))))).))).))...))........ ( -37.30)
>pst_1 715 120 + 1
GAAACCGGGCGAUCUAUCCAUGGGCAGGUUGAAGGUUGGGUAACACUAACUGGAGGACCGAACCGACUACCGUUGAAAAGUUAGCGGAUGACCUGUGGAUCGGAGUGAAAGGCUAAUCAA
....((...((.((((((((((((((((((...((((((......))))))....))))..........(((((((....))))))).)).))))))))).))).))...))........ ( -37.30)
>consensus
GAAACCGGGCGAUCUAUCCAUGGGCAGGUUGAAGGUUGGGUAACACUAACUGGAGGACCGAACCGACUACCGUUGAAAAGUUAGCGGAUGACCUGUGGAUCGGAGUGAAAGGCUAAUCAA
....((...((.((((((((((((((((((...((((((......))))))....))))..........(((((((....))))))).)).))))))))).))).))...))........ (-36.37 = -35.98 +  -0.39)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:46:11 2007