Locus 102

Sequence ID	pao_1
Location	5,986,120 – 5,986,170
Length	50
Max. P	0.999957

overview

Window 5

Location	5,986,120 – 5,986,170
Length	50
Sequences	6
Columns	50
Reading direction	forward
Mean pairwise identity	96.80
Mean single sequence MFE	-17.63
Consensus MFE	-16.50
Energy contribution	-16.50
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.75
Structure conservation index	0.94
SVM decision value	4.19
SVM RNA-class probability	0.999831
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 5986120 50 + 1
GCCUCAGCCCUCUAUAACCUCAUGCCCAACCCGGCAUGGGUUGGCUGCUU
....(((((......((((.((((((......)))))))))))))))... ( -19.90)
>pau_1 1 50 + 1
GCCUCAGCCCUCUAUAACCUCAUGCCCAACCCGGCAUGGGUUGGCUGCUU
....(((((......((((.((((((......)))))))))))))))... ( -19.90)
>pfo_1 1 50 + 1
GCCUCAGCCCUCUAAAACCACAUGCCCAACCCGGCAUGGGUUGGCCGCUU
((....(((......((((.((((((......))))))))))))).)).. ( -16.50)
>pfs_1 1 50 + 1
GCCUCAGCCCUCUAAAACCACAUGCCCAACCCGGCAUGGGUUGGCCGCUU
((....(((......((((.((((((......))))))))))))).)).. ( -16.50)
>psp_1 1 50 + 1
GCCUCAGCCCUCUAAAACCACAUGCCCAACCCGGCAUGGGUUGGCCGCUU
((....(((......((((.((((((......))))))))))))).)).. ( -16.50)
>pss_1 1 50 + 1
GCCUCAGCCCUCUAAAACCACAUGCCCAACCCGGCAUGGGUUGGCCGCUU
((....(((......((((.((((((......))))))))))))).)).. ( -16.50)
>consensus
GCCUCAGCCCUCUAAAACCACAUGCCCAACCCGGCAUGGGUUGGCCGCUU
((....(((......((((.((((((......))))))))))))).)).. (-16.50 = -16.50 +   0.00)

alignment

secondary structure

dotplot

Window 6

Location	5,986,120 – 5,986,170
Length	50
Sequences	6
Columns	50
Reading direction	reverse
Mean pairwise identity	96.80
Mean single sequence MFE	-20.93
Consensus MFE	-21.16
Energy contribution	-20.93
Covariance contribution	-0.22
Combinations/Pair	1.07
Mean z-score	-2.21
Structure conservation index	1.01
SVM decision value	4.86
SVM RNA-class probability	0.999957
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 5986120 50 - 1
AAGCAGCCAACCCAUGCCGGGUUGGGCAUGAGGUUAUAGAGGGCUGAGGC
...(((((((((((((((......)))))).))))......))))).... ( -21.40)
>pau_1 1 50 - 1
AAGCAGCCAACCCAUGCCGGGUUGGGCAUGAGGUUAUAGAGGGCUGAGGC
...(((((((((((((((......)))))).))))......))))).... ( -21.40)
>pfo_1 1 50 - 1
AAGCGGCCAACCCAUGCCGGGUUGGGCAUGUGGUUUUAGAGGGCUGAGGC
...(((((((((((((((......)))))).))))......))))).... ( -20.70)
>pfs_1 1 50 - 1
AAGCGGCCAACCCAUGCCGGGUUGGGCAUGUGGUUUUAGAGGGCUGAGGC
...(((((((((((((((......)))))).))))......))))).... ( -20.70)
>psp_1 1 50 - 1
AAGCGGCCAACCCAUGCCGGGUUGGGCAUGUGGUUUUAGAGGGCUGAGGC
...(((((((((((((((......)))))).))))......))))).... ( -20.70)
>pss_1 1 50 - 1
AAGCGGCCAACCCAUGCCGGGUUGGGCAUGUGGUUUUAGAGGGCUGAGGC
...(((((((((((((((......)))))).))))......))))).... ( -20.70)
>consensus
AAGCGGCCAACCCAUGCCGGGUUGGGCAUGUGGUUUUAGAGGGCUGAGGC
...(((((((((((((((......)))))).))))......))))).... (-21.16 = -20.93 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:53:46 2007