Locus 46

Sequence ID	pao_1
Location	3,515,014 – 3,515,100
Length	86
Max. P	0.999890

overview

Window 9

Location	3,515,014 – 3,515,100
Length	86
Sequences	6
Columns	87
Reading direction	forward
Mean pairwise identity	91.88
Mean single sequence MFE	-38.65
Consensus MFE	-36.92
Energy contribution	-36.92
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.84
Structure conservation index	0.96
SVM decision value	4.40
SVM RNA-class probability	0.999890
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 3515014 86 + 1
GUGGCGUCCCCUAGGGGACUCGAACCCCUGUUACCGCCGUGAAAGGGCGGUGUCCUAGGCCACUAGACGAAGGGGACGAAACCUUC-
((..(((((((((((((.......)))))...((((((.......))))))(((.(((....))))))..))))))))..))....- ( -40.90)
>pst_1 1 87 + 1
GUGGCGUCCCCUAGGGGACUCGAACCCCUGUUACCGCCGUGAAAGGGCGGUGUCCUAGGCCACUAGACGAAGGGGACGCAAACCUUC
...((((((((((((((.......)))))...((((((.......))))))(((.(((....))))))..)))))))))........ ( -42.70)
>pau_1 1 77 + 1
-UGGCGUCCCCUAGGGGACUCGAACCCCUGUUACCGCCGUGAAAGGGCGGUGUCCUAGGCCACUAGACGAAGGGGACG---------
-...(((((((((((((.......)))))...((((((.......))))))(((.(((....))))))..))))))))--------- ( -37.80)
>pf5_1 1 77 + 1
-UGGCGUCCCCUAGGGGACUCGAACCCCUGUUACCGCCGUGAAAGGGCGGUGUCCUAGGCCACUAGACGAAGGGGACG---------
-...(((((((((((((.......)))))...((((((.......))))))(((.(((....))))))..))))))))--------- ( -37.80)
>pfo_1 1 77 + 1
GUGGCGUCCCCUAGGGGACUCGAACCCCUGUUACCGCCGUGAAAGGGCGGUGUCCUAGGCCACUAGACGAAGGGGAC----------
.....((((((((((((.......)))))...((((((.......))))))(((.(((....))))))..)))))))---------- ( -35.50)
>pfs_1 1 85 + 1
-UGGCGUCCCCUAGGGGACUCGAACCCCUGUUACCGCCGUGAAAGGGCGGUGUCCUAGGCCACUAGACGAAGGGGACAAAACCUUC-
-....((((((((((((.......)))))...((((((.......))))))(((.(((....))))))..))))))).........- ( -37.20)
>consensus
_UGGCGUCCCCUAGGGGACUCGAACCCCUGUUACCGCCGUGAAAGGGCGGUGUCCUAGGCCACUAGACGAAGGGGACG_________
.....((((((((((((.......)))))...((((((.......))))))(((.(((....))))))..))))))).......... (-36.92 = -36.92 +  -0.00)

alignment

secondary structure

dotplot

Window 0

Location	3,515,014 – 3,515,100
Length	86
Sequences	6
Columns	87
Reading direction	reverse
Mean pairwise identity	91.88
Mean single sequence MFE	-37.17
Consensus MFE	-35.34
Energy contribution	-35.40
Covariance contribution	0.06
Combinations/Pair	1.04
Mean z-score	-2.61
Structure conservation index	0.95
SVM decision value	4.01
SVM RNA-class probability	0.999754
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 3515014 86 - 1
-GAAGGUUUCGUCCCCUUCGUCUAGUGGCCUAGGACACCGCCCUUUCACGGCGGUAACAGGGGUUCGAGUCCCCUAGGGGACGCCAC
-...(((.(((.(((((..((((((....))).)))((((((.......))))))...)))))..)))(((((....)))))))).. ( -38.60)
>pst_1 1 87 - 1
GAAGGUUUGCGUCCCCUUCGUCUAGUGGCCUAGGACACCGCCCUUUCACGGCGGUAACAGGGGUUCGAGUCCCCUAGGGGACGCCAC
........(((((((((..((((((....))).)))((((((.......))))))...(((((.......))))))))))))))... ( -39.90)
>pau_1 1 77 - 1
---------CGUCCCCUUCGUCUAGUGGCCUAGGACACCGCCCUUUCACGGCGGUAACAGGGGUUCGAGUCCCCUAGGGGACGCCA-
---------((((((((..((((((....))).)))((((((.......))))))...(((((.......)))))))))))))...- ( -36.10)
>pf5_1 1 77 - 1
---------CGUCCCCUUCGUCUAGUGGCCUAGGACACCGCCCUUUCACGGCGGUAACAGGGGUUCGAGUCCCCUAGGGGACGCCA-
---------((((((((..((((((....))).)))((((((.......))))))...(((((.......)))))))))))))...- ( -36.10)
>pfo_1 1 77 - 1
----------GUCCCCUUCGUCUAGUGGCCUAGGACACCGCCCUUUCACGGCGGUAACAGGGGUUCGAGUCCCCUAGGGGACGCCAC
----------(((((((..((((((....))).)))((((((.......))))))...(((((.......))))))))))))..... ( -35.00)
>pfs_1 1 85 - 1
-GAAGGUUUUGUCCCCUUCGUCUAGUGGCCUAGGACACCGCCCUUUCACGGCGGUAACAGGGGUUCGAGUCCCCUAGGGGACGCCA-
-...(((...(((((((..((((((....))).)))((((((.......))))))...(((((.......))))))))))))))).- ( -37.30)
>consensus
_________CGUCCCCUUCGUCUAGUGGCCUAGGACACCGCCCUUUCACGGCGGUAACAGGGGUUCGAGUCCCCUAGGGGACGCCA_
.........((((((((..((((((....))).)))((((((.......))))))...(((((.......))))))))))))).... (-35.34 = -35.40 +   0.06)

alignment

secondary structure

dotplot

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