Locus 44

Sequence ID	pao_1
Location	3,514,705 – 3,514,801
Length	96
Max. P	0.994318

overview

Window 6

Location	3,514,705 – 3,514,801
Length	96
Sequences	6
Columns	96
Reading direction	forward
Mean pairwise identity	93.43
Mean single sequence MFE	-42.10
Consensus MFE	-37.77
Energy contribution	-39.43
Covariance contribution	1.67
Combinations/Pair	1.00
Mean z-score	-2.31
Structure conservation index	0.90
SVM decision value	2.47
SVM RNA-class probability	0.994318
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 3514705 96 + 1
CCCGCAGAGCGGGAAAAAGUGGCGUCCCCUAGGGGACUCGAACCCCUGUUACCGCCGUGAAAGGGCGGUGUCCUAGGCCACUAGACGAAGGGGACA
(((((...)))))..........((((((((((((.......)))))...((((((.......))))))(((.(((....))))))..))))))). ( -45.00)
>pau_1 1 96 + 1
CCCGCAGAGCGGGAAAAAGUGGCGUCCCCUAGGGGACUCGAACCCCUGUUACCGCCGUGAAAGGGCGGUGUCCUAGGCCACUAGACGAAGGGGACA
(((((...)))))..........((((((((((((.......)))))...((((((.......))))))(((.(((....))))))..))))))). ( -45.00)
>pel_1 1 87 + 1
--------GCGGGUAAAAGUGGCGUCCCCUAGGGGACUCGAACCCCUGUUACCGCCGUGAAAGGGCGGUGUCCUAGGCCACUAGACGAAGGGGAC-
--------((.(.......).))((((((((((((.......)))))...((((((.......))))))(((.(((....))))))..)))))))- ( -36.00)
>pf5_1 1 96 + 1
CCCGCAGAGCGGGUAAACGUGGCGUCCCCUAGGGGACUCGAACCCCUGUUACCGCCGUGAAAGGGCGGUGUCCUAGGCCACUAGACGAAGGGGACA
(((((...)))))..........((((((((((((.......)))))...((((((.......))))))(((.(((....))))))..))))))). ( -44.50)
>pfs_1 1 96 + 1
CCCGCAGAGCGGGUAAUCGUGGCGUCCCCUAGGGGACUCGAACCCCUGUUACCGCCGUGAAAGGGCGGUGUCCUAGGCCACUAGACGAAGGGGACA
(((((...)))))..........((((((((((((.......)))))...((((((.......))))))(((.(((....))))))..))))))). ( -44.50)
>ppk_1 1 87 + 1
--------GCGGGUAAACGUGGCGUCCCCUAGGGGACUCGAACCCCUGUUACCGCCGUGAAAGGGCGGUGUCCUAGGCCACUAGACGAAGGGGAC-
--------(((......)))...((((((((((((.......)))))...((((((.......))))))(((.(((....))))))..)))))))- ( -37.60)
>consensus
CCCGCAGAGCGGGUAAAAGUGGCGUCCCCUAGGGGACUCGAACCCCUGUUACCGCCGUGAAAGGGCGGUGUCCUAGGCCACUAGACGAAGGGGACA
(((((...)))))..........((((((((((((.......)))))...((((((.......))))))(((.(((....))))))..))))))). (-37.77 = -39.43 +   1.67)

alignment

secondary structure

dotplot

Window 7

Location	3,514,705 – 3,514,801
Length	96
Sequences	6
Columns	96
Reading direction	reverse
Mean pairwise identity	93.43
Mean single sequence MFE	-39.67
Consensus MFE	-35.77
Energy contribution	-37.43
Covariance contribution	1.67
Combinations/Pair	1.00
Mean z-score	-2.00
Structure conservation index	0.90
SVM decision value	2.02
SVM RNA-class probability	0.985884
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 3514705 96 - 1
UGUCCCCUUCGUCUAGUGGCCUAGGACACCGCCCUUUCACGGCGGUAACAGGGGUUCGAGUCCCCUAGGGGACGCCACUUUUUCCCGCUCUGCGGG
.(((((((..((((((....))).)))((((((.......))))))...(((((.......))))))))))))..........(((((...))))) ( -41.80)
>pau_1 1 96 - 1
UGUCCCCUUCGUCUAGUGGCCUAGGACACCGCCCUUUCACGGCGGUAACAGGGGUUCGAGUCCCCUAGGGGACGCCACUUUUUCCCGCUCUGCGGG
.(((((((..((((((....))).)))((((((.......))))))...(((((.......))))))))))))..........(((((...))))) ( -41.80)
>pel_1 1 87 - 1
-GUCCCCUUCGUCUAGUGGCCUAGGACACCGCCCUUUCACGGCGGUAACAGGGGUUCGAGUCCCCUAGGGGACGCCACUUUUACCCGC--------
-(((((((..((((((....))).)))((((((.......))))))...(((((.......))))))))))))...............-------- ( -35.00)
>pf5_1 1 96 - 1
UGUCCCCUUCGUCUAGUGGCCUAGGACACCGCCCUUUCACGGCGGUAACAGGGGUUCGAGUCCCCUAGGGGACGCCACGUUUACCCGCUCUGCGGG
.(((((((..((((((....))).)))((((((.......))))))...(((((.......))))))))))))..........(((((...))))) ( -42.20)
>pfs_1 1 96 - 1
UGUCCCCUUCGUCUAGUGGCCUAGGACACCGCCCUUUCACGGCGGUAACAGGGGUUCGAGUCCCCUAGGGGACGCCACGAUUACCCGCUCUGCGGG
.(((((((..((((((....))).)))((((((.......))))))...(((((.......))))))))))))..........(((((...))))) ( -42.20)
>ppk_1 1 87 - 1
-GUCCCCUUCGUCUAGUGGCCUAGGACACCGCCCUUUCACGGCGGUAACAGGGGUUCGAGUCCCCUAGGGGACGCCACGUUUACCCGC--------
-(((((((..((((((....))).)))((((((.......))))))...(((((.......))))))))))))...............-------- ( -35.00)
>consensus
UGUCCCCUUCGUCUAGUGGCCUAGGACACCGCCCUUUCACGGCGGUAACAGGGGUUCGAGUCCCCUAGGGGACGCCACGUUUACCCGCUCUGCGGG
.(((((((..((((((....))).)))((((((.......))))))...(((((.......))))))))))))..........(((((...))))) (-35.77 = -37.43 +   1.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:48:14 2007