Locus 27

Sequence ID	pao_1
Location	1,947,318 – 1,947,400
Length	82
Max. P	0.993874

overview

Window 7

Location	1,947,318 – 1,947,400
Length	82
Sequences	6
Columns	82
Reading direction	forward
Mean pairwise identity	96.53
Mean single sequence MFE	-34.82
Consensus MFE	-31.75
Energy contribution	-31.75
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.04
Structure conservation index	0.91
SVM decision value	2.43
SVM RNA-class probability	0.993874
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 1947318 82 + 1
AAGCGCCCGUAGCUCAGCUGGAUAGAGCAUCCGCCUUCUAAGCGGAUGGUCGCAGGUUCGAGUCCUGCCGGGUGCGCCAUUC
..(((((((((((...))))....((.(((((((.......))))))).))(((((.......))))))))))))....... ( -38.10)
>pst_1 1 77 + 1
----GCCCGUAGCUCAGCUGGAUAGAGCAUCCGCCUUCUAAGCGGAUGGUCGCAGGUUCGAGUCCUGCCGGGUGCGCCAUU-
----(((((((((...))))....((.(((((((.......))))))).))(((((.......))))))))))........- ( -31.60)
>pau_1 1 82 + 1
AAGCGCCCGUAGCUCAGCUGGAUAGAGCAUCCGCCUUCUAAGCGGAUGGUCGCAGGUUCGAGUCCUGCCGGGUGCGCCAUUC
..(((((((((((...))))....((.(((((((.......))))))).))(((((.......))))))))))))....... ( -38.10)
>pfo_1 1 79 + 1
--GCGCCCGUAGCUCAGCUGGAUAGAGCAUCCGCCUUCUAAGCGGAUGGUCGCAGGUUCGAGUCCUGCCGGGUGCGCCAUU-
--(((((((((((...))))....((.(((((((.......))))))).))(((((.......))))))))))))......- ( -37.90)
>psp_1 1 78 + 1
----GCCCGUAGCUCAGCUGGAUAGAGCAUCCGCCUUCUAAGCGGAUGGUCGCAGGUUCGAGUCCUGCCGGGUGCGCCAUUC
----(((((((((...))))....((.(((((((.......))))))).))(((((.......))))))))))......... ( -31.60)
>pss_1 1 78 + 1
----GCCCGUAGCUCAGCUGGAUAGAGCAUCCGCCUUCUAAGCGGAUGGUCGCAGGUUCGAGUCCUGCCGGGUGCGCCAUUC
----(((((((((...))))....((.(((((((.......))))))).))(((((.......))))))))))......... ( -31.60)
>consensus
____GCCCGUAGCUCAGCUGGAUAGAGCAUCCGCCUUCUAAGCGGAUGGUCGCAGGUUCGAGUCCUGCCGGGUGCGCCAUUC
....(((((((((...))))....((.(((((((.......))))))).))(((((.......))))))))))......... (-31.75 = -31.75 +   0.00)

alignment

secondary structure

dotplot

Window 8

Location	1,947,318 – 1,947,400
Length	82
Sequences	6
Columns	82
Reading direction	reverse
Mean pairwise identity	96.53
Mean single sequence MFE	-31.50
Consensus MFE	-29.50
Energy contribution	-29.50
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.59
Structure conservation index	0.94
SVM decision value	2.00
SVM RNA-class probability	0.985140
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 1947318 82 - 1
GAAUGGCGCACCCGGCAGGACUCGAACCUGCGACCAUCCGCUUAGAAGGCGGAUGCUCUAUCCAGCUGAGCUACGGGCGCUU
.......((.(((((((((.......)))))((.((((((((.....)))))))).))...............)))).)).. ( -33.90)
>pst_1 1 77 - 1
-AAUGGCGCACCCGGCAGGACUCGAACCUGCGACCAUCCGCUUAGAAGGCGGAUGCUCUAUCCAGCUGAGCUACGGGC----
-.........(((((((((.......)))))((.((((((((.....)))))))).))...............)))).---- ( -29.50)
>pau_1 1 82 - 1
GAAUGGCGCACCCGGCAGGACUCGAACCUGCGACCAUCCGCUUAGAAGGCGGAUGCUCUAUCCAGCUGAGCUACGGGCGCUU
.......((.(((((((((.......)))))((.((((((((.....)))))))).))...............)))).)).. ( -33.90)
>pfo_1 1 79 - 1
-AAUGGCGCACCCGGCAGGACUCGAACCUGCGACCAUCCGCUUAGAAGGCGGAUGCUCUAUCCAGCUGAGCUACGGGCGC--
-......((.(((((((((.......)))))((.((((((((.....)))))))).))...............)))).))-- ( -32.70)
>psp_1 1 78 - 1
GAAUGGCGCACCCGGCAGGACUCGAACCUGCGACCAUCCGCUUAGAAGGCGGAUGCUCUAUCCAGCUGAGCUACGGGC----
..........(((((((((.......)))))((.((((((((.....)))))))).))...............)))).---- ( -29.50)
>pss_1 1 78 - 1
GAAUGGCGCACCCGGCAGGACUCGAACCUGCGACCAUCCGCUUAGAAGGCGGAUGCUCUAUCCAGCUGAGCUACGGGC----
..........(((((((((.......)))))((.((((((((.....)))))))).))...............)))).---- ( -29.50)
>consensus
GAAUGGCGCACCCGGCAGGACUCGAACCUGCGACCAUCCGCUUAGAAGGCGGAUGCUCUAUCCAGCUGAGCUACGGGC____
..........(((((((((.......)))))((.((((((((.....)))))))).))...............))))..... (-29.50 = -29.50 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:47:24 2007