Locus 182

Sequence ID	pao.2443
Location	4,573,575 – 4,573,698
Length	123
Max. P	0.979230

overview

Window 5

Location	4,573,575 – 4,573,694
Length	119
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	77.72
Mean single sequence MFE	-59.70
Consensus MFE	-38.65
Energy contribution	-41.00
Covariance contribution	2.35
Combinations/Pair	1.21
Mean z-score	-2.30
Structure conservation index	0.65
SVM decision value	1.83
SVM RNA-class probability	0.979230
Prediction	RNA

Download alignment: ClustalW | MAF

>pao.2443 4573575 119 - 6264404
GGAUGAUGGGACGGGGGCGGAGCGAGCUGAAUGGCUUUUCCGGGGAAUGAAUUGCACUUUCCAUGGCCCCGCGUGACGCCCGGCGCCC-GGCCGCGAAGGGCGGCCGGGUGGCGGCGCGU
..........((((((((((((.(((((....)))))))))((..(.((.....)).)..))...))))).))).(((((((.(((((-((((((.....))))))))))).))).)))) ( -68.90)
>pau.515 5584877 119 + 6537648
GGAUGAUGGGACGGGGGCGGAGCGAGCUGAAUGGCUUUUCCGGGGAAUGAAUUGCACUUUCCAUGGCCCCGCGUGACGCCCGGCGCCC-GGCCGCGAAGGGCGGCCGGGUGGCGGCGCGU
..........((((((((((((.(((((....)))))))))((..(.((.....)).)..))...))))).))).(((((((.(((((-((((((.....))))))))))).))).)))) ( -68.90)
>pf5.2011 3875514 117 - 7074893
CCAUGAUGGGCAGCCGCGGGAAUGGACUAAAUGGCUUUUCCGGCGAAUGAAUUGCACUUUUCAUAGGGAGGCG-GGUGGCCGGAGCCAGGGUCGAAAACGGUGGCUUAGGGGCGAUGC--
((.....))((((((((.(...(.((((...((((...((((((.(.....((((.((((......)))))))-).).)))))))))).)))).)...).)))))).....)).....-- ( -41.30)
>consensus
GGAUGAUGGGACGGGGGCGGAGCGAGCUGAAUGGCUUUUCCGGGGAAUGAAUUGCACUUUCCAUGGCCCCGCGUGACGCCCGGCGCCC_GGCCGCGAAGGGCGGCCGGGUGGCGGCGCGU
..........((((((((((((.(((((....)))))))))(((((.((.....)).)))))...))))).))).(((((((.(((((.((((((.....))))))))))).))).)))) (-38.65 = -41.00 +   2.35)

alignment

secondary structure

dotplot

Window 6

Location	4,573,579 – 4,573,698
Length	119
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	78.27
Mean single sequence MFE	-57.27
Consensus MFE	-38.31
Energy contribution	-38.67
Covariance contribution	0.35
Combinations/Pair	1.27
Mean z-score	-1.94
Structure conservation index	0.67
SVM decision value	1.05
SVM RNA-class probability	0.906651
Prediction	RNA

Download alignment: ClustalW | MAF

>pao.2443 4573579 119 - 6264404
GAGGGGAUGAUGGGACGGGGGCGGAGCGAGCUGAAUGGCUUUUCCGGGGAAUGAAUUGCACUUUCCAUGGCCCCGCGUGACGCCCGGCGCCC-GGCCGCGAAGGGCGGCCGGGUGGCGGC
...........(..((((((((((((.(((((....)))))))))((..(.((.....)).)..))...))))).)))..)..(((.(((((-((((((.....))))))))))).))). ( -63.80)
>pau.515 5584881 119 + 6537648
GAGGGGAUGAUGGGACGGGGGCGGAGCGAGCUGAAUGGCUUUUCCGGGGAAUGAAUUGCACUUUCCAUGGCCCCGCGUGACGCCCGGCGCCC-GGCCGCGAAGGGCGGCCGGGUGGCGGC
...........(..((((((((((((.(((((....)))))))))((..(.((.....)).)..))...))))).)))..)..(((.(((((-((((((.....))))))))))).))). ( -63.80)
>pf5.2011 3875516 119 - 7074893
GGGGCCAUGAUGGGCAGCCGCGGGAAUGGACUAAAUGGCUUUUCCGGCGAAUGAAUUGCACUUUUCAUAGGGAGGCG-GGUGGCCGGAGCCAGGGUCGAAAACGGUGGCUUAGGGGCGAU
...(((......)))((((((.(...(.((((...((((...((((((.(.....((((.((((......)))))))-).).)))))))))).)))).)...).)))))).......... ( -44.20)
>consensus
GAGGGGAUGAUGGGACGGGGGCGGAGCGAGCUGAAUGGCUUUUCCGGGGAAUGAAUUGCACUUUCCAUGGCCCCGCGUGACGCCCGGCGCCC_GGCCGCGAAGGGCGGCCGGGUGGCGGC
..(((.....((..((((((((((((.(((((....)))))))))(((((.((.....)).)))))...))))).)))..)))))(.(((((.((((((.....))))))))))).)... (-38.31 = -38.67 +   0.35)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 21:16:55 2007