Locus 29

Sequence ID	pao_1
Location	1,947,578 – 1,947,663
Length	85
Max. P	0.999982

overview

Window 1

Location	1,947,578 – 1,947,663
Length	85
Sequences	6
Columns	85
Reading direction	forward
Mean pairwise identity	94.75
Mean single sequence MFE	-33.41
Consensus MFE	-34.14
Energy contribution	-33.00
Covariance contribution	-1.14
Combinations/Pair	1.12
Mean z-score	-2.31
Structure conservation index	1.02
SVM decision value	5.28
SVM RNA-class probability	0.999982
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 1947578 85 + 1
GCGGACGUGGUGGAAUUGGUAGACACACUGGAUUUAGGUUCCAGCGCCGCAAGGCGUGAGAGUUCGAGUCUCUCCGUCCGCACCA
(((((((...(((((((...(..(.....)..)...)))))))(((((....)))))(((((.......)))))))))))).... ( -37.60)
>pel_1 1 85 + 1
GCGGACGUGGUGAAAUUGGUAGACACACUGGAUUUAGGUUCCAGCGGCGCAAGCUGUAAGAGUUCGAGUCUCUUCGUCCGCACCA
(((((((.((((....((.....))))))((((((..((((..(((((....)))))..))))..))))))...))))))).... ( -31.90)
>pf5_1 1 85 + 1
GCGGACGUGGUGGAAUUGGUAGACACACUGGAUUUAGGUUCCAGCGCCGCAAGGUGUAAGAGUUCGAGUCUCUUCGUCCGCACCA
(((((((.((((.............))))((((((..((((..(((((....)))))..))))..))))))...))))))).... ( -33.02)
>pfo_1 1 85 + 1
GCGGAUGUGGUGGAAUUGGUAGACACACUGGAUUUAGGUUCCAGCGCCGCGAGGCGUAAGAGUUCGAGUCUCUUCAUCCGCACCA
(((((((.((((.............))))((((((..((((..(((((....)))))..))))..))))))...))))))).... ( -33.02)
>pfs_1 1 85 + 1
GCGGAUGUGGUGGAAUUGGUAGACACACUGGAUUUAGGUUCCAGCGCCGCGAGGCGUAAGAGUUCGAGUCUCUUCAUCCGCACCA
(((((((.((((.............))))((((((..((((..(((((....)))))..))))..))))))...))))))).... ( -33.02)
>ppk_1 1 85 + 1
GCGGACGUGGUGAAAUUGGUAGACACACUGGAUUUAGGUUCCAGCGGCGCAAGCUGUAAGAGUUCGAGUCUCUUCGUCCGCACCA
(((((((.((((....((.....))))))((((((..((((..(((((....)))))..))))..))))))...))))))).... ( -31.90)
>consensus
GCGGACGUGGUGGAAUUGGUAGACACACUGGAUUUAGGUUCCAGCGCCGCAAGGCGUAAGAGUUCGAGUCUCUUCGUCCGCACCA
(((((((.((((.............))))((((((..((((..(((((....)))))..))))..))))))...))))))).... (-34.14 = -33.00 +  -1.14)

alignment

secondary structure

dotplot

Window 2

Location	1,947,578 – 1,947,663
Length	85
Sequences	6
Columns	85
Reading direction	reverse
Mean pairwise identity	94.75
Mean single sequence MFE	-28.32
Consensus MFE	-27.75
Energy contribution	-27.03
Covariance contribution	-0.72
Combinations/Pair	1.09
Mean z-score	-2.09
Structure conservation index	0.98
SVM decision value	4.07
SVM RNA-class probability	0.999784
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 1947578 85 - 1
UGGUGCGGACGGAGAGACUCGAACUCUCACGCCUUGCGGCGCUGGAACCUAAAUCCAGUGUGUCUACCAAUUCCACCACGUCCGC
....((((((((((((.......))))).(((...)))((((((((.......)))))))).................))))))) ( -32.00)
>pel_1 1 85 - 1
UGGUGCGGACGAAGAGACUCGAACUCUUACAGCUUGCGCCGCUGGAACCUAAAUCCAGUGUGUCUACCAAUUUCACCACGUCCGC
....((((((((((((.......))))).......((((.((((((.......))))))))))...............))))))) ( -27.00)
>pf5_1 1 85 - 1
UGGUGCGGACGAAGAGACUCGAACUCUUACACCUUGCGGCGCUGGAACCUAAAUCCAGUGUGUCUACCAAUUCCACCACGUCCGC
....((((((((((((.......)))))..........((((((((.......)))))))).................))))))) ( -27.70)
>pfo_1 1 85 - 1
UGGUGCGGAUGAAGAGACUCGAACUCUUACGCCUCGCGGCGCUGGAACCUAAAUCCAGUGUGUCUACCAAUUCCACCACAUCCGC
(((((.((((....((((...........(((...)))((((((((.......))))))))))))....)))))))))....... ( -28.10)
>pfs_1 1 85 - 1
UGGUGCGGAUGAAGAGACUCGAACUCUUACGCCUCGCGGCGCUGGAACCUAAAUCCAGUGUGUCUACCAAUUCCACCACAUCCGC
(((((.((((....((((...........(((...)))((((((((.......))))))))))))....)))))))))....... ( -28.10)
>ppk_1 1 85 - 1
UGGUGCGGACGAAGAGACUCGAACUCUUACAGCUUGCGCCGCUGGAACCUAAAUCCAGUGUGUCUACCAAUUUCACCACGUCCGC
....((((((((((((.......))))).......((((.((((((.......))))))))))...............))))))) ( -27.00)
>consensus
UGGUGCGGACGAAGAGACUCGAACUCUUACACCUUGCGGCGCUGGAACCUAAAUCCAGUGUGUCUACCAAUUCCACCACGUCCGC
....((((((((((((.......))))).......(((.(((((((.......))))))))))...............))))))) (-27.75 = -27.03 +  -0.72)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:47:29 2007