Locus 5

Sequence ID	pao_1
Location	722,050 – 722,165
Length	115
Max. P	0.999411

overview

Window 7

Location	722,050 – 722,165
Length	115
Sequences	6
Columns	117
Reading direction	forward
Mean pairwise identity	94.78
Mean single sequence MFE	-38.55
Consensus MFE	-36.38
Energy contribution	-36.38
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.24
Structure conservation index	0.94
SVM decision value	3.58
SVM RNA-class probability	0.999411
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 722050 115 + 1
GAUUGCUGAGCCAAGUUUAGGGUUUUCUCAAAACCCAA--GCAGUAUUGAACUGAAGAGUUUGAUCAUGGCUCAGAUUGAACGCUGGCGGCAGGCCUAACACAUGCAAGUCGAGCGG
.....((((((((.((((.((((((.....))))))))--)).(.((..((((....))))..))).))))))))......(((((((.((((........).)))..))).)))). ( -40.00)
>pfo_1 1 115 + 1
GAUUGCUGAGCCAAGUUUAGGGUUUCUUAAAAACCCAA--AGAUGUUUGAACUGAAGAGUUUGAUCAUGGCUCAGAUUGAACGCUGGCGGCAGGCCUAACACAUGCAAGUCGAGCGG
.....(((((((.......((((((.....))))))..--..(((.(..((((....))))..).))))))))))......(((((((.((((........).)))..))).)))). ( -37.80)
>pfs_1 1 115 + 1
GAUUGCUGAGCCAAGUUUAGGGUUUCUUAAAAACCCAA--AGAUGUUUGAACUGAAGAGUUUGAUCAUGGCUCAGAUUGAACGCUGGCGGCAGGCCUAACACAUGCAAGUCGAGCGG
.....(((((((.......((((((.....))))))..--..(((.(..((((....))))..).))))))))))......(((((((.((((........).)))..))).)))). ( -37.80)
>ppk_1 1 115 + 1
GAUUGCUGAGCCAAGUUUAGGGUUUCUUAAAAACCCAA--GCAGUAUUGAACUGAAGAGUUUGAUCAUGGCUCAGAUUGAACGCUGGCGGCAGGCCUAACACAUGCAAGUCGAGCGG
.....((((((((.((((.((((((.....))))))))--)).(.((..((((....))))..))).))))))))......(((((((.((((........).)))..))).)))). ( -39.90)
>pss_1 1 117 + 1
GAUUGCUGAGCCAAGUUUAGGGUUUUCUCAAAACCCAGUUAGAUGUUUGAACUGAAGAGUUUGAUCAUGGCUCAGAUUGAACGCUGGCGGCAGGCCUAACACAUGCAAGUCGAGCGG
.....(((((((.......((((((.....))))))......(((.(..((((....))))..).))))))))))......(((((((.((((........).)))..))).)))). ( -37.90)
>pst_1 1 117 + 1
GAUUGCUGAGCCAAGUUUAGGGUUUUCUCAAAACCCAGUUAGAUGUUUGAACUGAAGAGUUUGAUCAUGGCUCAGAUUGAACGCUGGCGGCAGGCCUAACACAUGCAAGUCGAGCGG
.....(((((((.......((((((.....))))))......(((.(..((((....))))..).))))))))))......(((((((.((((........).)))..))).)))). ( -37.90)
>consensus
GAUUGCUGAGCCAAGUUUAGGGUUUCCUAAAAACCCAA__AGAUGUUUGAACUGAAGAGUUUGAUCAUGGCUCAGAUUGAACGCUGGCGGCAGGCCUAACACAUGCAAGUCGAGCGG
.....((((((((......((((((.....))))))..........(..((((....))))..)...))))))))......(((((((.((((........).)))..))).)))). (-36.38 = -36.38 +  -0.00)

alignment

secondary structure

dotplot

Window 8

Location	722,050 – 722,165
Length	115
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	94.78
Mean single sequence MFE	-29.43
Consensus MFE	-28.85
Energy contribution	-28.60
Covariance contribution	-0.25
Combinations/Pair	1.03
Mean z-score	-1.25
Structure conservation index	0.98
SVM decision value	1.83
SVM RNA-class probability	0.979333
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 722050 115 - 1
CCGCUCGACUUGCAUGUGUUAGGCCUGCCGCCAGCGUUCAAUCUGAGCCAUGAUCAAACUCUUCAGUUCAAUACUGC--UUGGGUUUUGAGAAAACCCUAAACUUGGCUCAGCAAUC
.((((.(((........))).(((.....)))))))......((((((((.(...........((((.....)))).--..((((((.....))))))....).))))))))..... ( -30.90)
>pfo_1 1 115 - 1
CCGCUCGACUUGCAUGUGUUAGGCCUGCCGCCAGCGUUCAAUCUGAGCCAUGAUCAAACUCUUCAGUUCAAACAUCU--UUGGGUUUUUAAGAAACCCUAAACUUGGCUCAGCAAUC
.((((.(((........))).(((.....)))))))......((((((((.(....((((....)))).........--..(((((((...)))))))....).))))))))..... ( -28.80)
>pfs_1 1 115 - 1
CCGCUCGACUUGCAUGUGUUAGGCCUGCCGCCAGCGUUCAAUCUGAGCCAUGAUCAAACUCUUCAGUUCAAACAUCU--UUGGGUUUUUAAGAAACCCUAAACUUGGCUCAGCAAUC
.((((.(((........))).(((.....)))))))......((((((((.(....((((....)))).........--..(((((((...)))))))....).))))))))..... ( -28.80)
>ppk_1 1 115 - 1
CCGCUCGACUUGCAUGUGUUAGGCCUGCCGCCAGCGUUCAAUCUGAGCCAUGAUCAAACUCUUCAGUUCAAUACUGC--UUGGGUUUUUAAGAAACCCUAAACUUGGCUCAGCAAUC
.((((.(((........))).(((.....)))))))......((((((((.(...........((((.....)))).--..(((((((...)))))))....).))))))))..... ( -31.30)
>pss_1 1 117 - 1
CCGCUCGACUUGCAUGUGUUAGGCCUGCCGCCAGCGUUCAAUCUGAGCCAUGAUCAAACUCUUCAGUUCAAACAUCUAACUGGGUUUUGAGAAAACCCUAAACUUGGCUCAGCAAUC
.((((.(((........))).(((.....)))))))......((((((((.(....((((....)))).............((((((.....))))))....).))))))))..... ( -28.40)
>pst_1 1 117 - 1
CCGCUCGACUUGCAUGUGUUAGGCCUGCCGCCAGCGUUCAAUCUGAGCCAUGAUCAAACUCUUCAGUUCAAACAUCUAACUGGGUUUUGAGAAAACCCUAAACUUGGCUCAGCAAUC
.((((.(((........))).(((.....)))))))......((((((((.(....((((....)))).............((((((.....))))))....).))))))))..... ( -28.40)
>consensus
CCGCUCGACUUGCAUGUGUUAGGCCUGCCGCCAGCGUUCAAUCUGAGCCAUGAUCAAACUCUUCAGUUCAAACAUCU__UUGGGUUUUGAAAAAACCCUAAACUUGGCUCAGCAAUC
.((((.(((........))).(((.....)))))))......((((((((.(....((((....)))).............(((((((...)))))))....).))))))))..... (-28.85 = -28.60 +  -0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:45:36 2007