Locus 24

Sequence ID	pao_1
Location	1,096,867 – 1,096,958
Length	91
Max. P	0.999947

overview

Window 2

Location	1,096,867 – 1,096,958
Length	91
Sequences	6
Columns	91
Reading direction	forward
Mean pairwise identity	90.92
Mean single sequence MFE	-38.83
Consensus MFE	-37.12
Energy contribution	-35.73
Covariance contribution	-1.38
Combinations/Pair	1.20
Mean z-score	-3.58
Structure conservation index	0.96
SVM decision value	4.76
SVM RNA-class probability	0.999947
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 1096867 91 + 1
GGAGAGAUGCCGGAGUGGUCGAACGGGACGGAUUCGAAAUCCGUUGAGUCAGCAAUGGCUCCUAGGGUUCAAAUCCCUAUCUCUCCGCCAU
((((((((...(((((.((.(.((..(((((((.....)))))))..))...).)).))))).((((.......))))))))))))..... ( -37.40)
>pau_1 1 91 + 1
GGAGAGAUGCCGGAGUGGUCGAACGGGACGGAUUCGAAAUCCGUUGAGUCAGCAAUGGCUCCUAGGGUUCAAAUCCCUAUCUCUCCGCCAU
((((((((...(((((.((.(.((..(((((((.....)))))))..))...).)).))))).((((.......))))))))))))..... ( -37.40)
>pel_1 1 91 + 1
GGAGAGAUGCCGGAGUGGUCGAACGGGACGGAUUCGAAAUCCGUUGUACUGGCAACAGUACCUAGGGUUCAAAUCCCUAUCUCUCCGCCAU
((((((((((((...........)))...(((((.(((.(((...((((((....))))))...)))))).))))).)))))))))..... ( -38.70)
>ppk_1 1 91 + 1
GGAGAGAUGCCGGAGUGGUCGAACGGGACGGAUUCGAAAUCCGUUGUACUGGCAACAGUACCUAGGGUUCAAAUCCCUAUCUCUCCGCCAU
((((((((((((...........)))...(((((.(((.(((...((((((....))))))...)))))).))))).)))))))))..... ( -38.70)
>psp_1 1 91 + 1
GGAGAGAUGCCAGAGUGGCCGAAUGGGACGGAUUCGAAAUCCGUUGUACCUUCACCGGUACCUAGGGUUCGAAUCCCUAUCUCUCCGCCAU
(((((((((((.....)))..........(((((((((.(((...(((((......)))))...))))))))))))..))))))))..... ( -40.40)
>pss_1 1 91 + 1
GGAGAGAUGCCAGAGUGGCCGAAUGGGACGGAUUCGAAAUCCGUUGUACCUUCACCGGUACCUAGGGUUCGAAUCCCUAUCUCUCCGCCAU
(((((((((((.....)))..........(((((((((.(((...(((((......)))))...))))))))))))..))))))))..... ( -40.40)
>consensus
GGAGAGAUGCCGGAGUGGUCGAACGGGACGGAUUCGAAAUCCGUUGUACCAGCAACGGUACCUAGGGUUCAAAUCCCUAUCUCUCCGCCAU
((((((((((((..(....)...)))...(((((.(((.(((...((((((....))))))...)))))).))))).)))))))))..... (-37.12 = -35.73 +  -1.38)

alignment

secondary structure

dotplot

Window 3

Location	1,096,867 – 1,096,958
Length	91
Sequences	6
Columns	91
Reading direction	reverse
Mean pairwise identity	90.92
Mean single sequence MFE	-34.20
Consensus MFE	-33.37
Energy contribution	-31.93
Covariance contribution	-1.44
Combinations/Pair	1.19
Mean z-score	-2.61
Structure conservation index	0.98
SVM decision value	4.33
SVM RNA-class probability	0.999871
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 1096867 91 - 1
AUGGCGGAGAGAUAGGGAUUUGAACCCUAGGAGCCAUUGCUGACUCAACGGAUUUCGAAUCCGUCCCGUUCGACCACUCCGGCAUCUCUCC
.....((((((((((((.......)))))((((...(((..(((...((((((.....))))))...))))))...))))....))))))) ( -29.90)
>pau_1 1 91 - 1
AUGGCGGAGAGAUAGGGAUUUGAACCCUAGGAGCCAUUGCUGACUCAACGGAUUUCGAAUCCGUCCCGUUCGACCACUCCGGCAUCUCUCC
.....((((((((((((.......)))))((((...(((..(((...((((((.....))))))...))))))...))))....))))))) ( -29.90)
>pel_1 1 91 - 1
AUGGCGGAGAGAUAGGGAUUUGAACCCUAGGUACUGUUGCCAGUACAACGGAUUUCGAAUCCGUCCCGUUCGACCACUCCGGCAUCUCUCC
(((.(((((......(((((((((.((...((((((....))))))...))..)))))))))(((......)))..))))).)))...... ( -33.40)
>ppk_1 1 91 - 1
AUGGCGGAGAGAUAGGGAUUUGAACCCUAGGUACUGUUGCCAGUACAACGGAUUUCGAAUCCGUCCCGUUCGACCACUCCGGCAUCUCUCC
(((.(((((......(((((((((.((...((((((....))))))...))..)))))))))(((......)))..))))).)))...... ( -33.40)
>psp_1 1 91 - 1
AUGGCGGAGAGAUAGGGAUUCGAACCCUAGGUACCGGUGAAGGUACAACGGAUUUCGAAUCCGUCCCAUUCGGCCACUCUGGCAUCUCUCC
.....((((((((..(((((((((.((...(((((......)))))...))..)))))))))..........(((.....))))))))))) ( -39.30)
>pss_1 1 91 - 1
AUGGCGGAGAGAUAGGGAUUCGAACCCUAGGUACCGGUGAAGGUACAACGGAUUUCGAAUCCGUCCCAUUCGGCCACUCUGGCAUCUCUCC
.....((((((((..(((((((((.((...(((((......)))))...))..)))))))))..........(((.....))))))))))) ( -39.30)
>consensus
AUGGCGGAGAGAUAGGGAUUUGAACCCUAGGUACCGUUGCAGGUACAACGGAUUUCGAAUCCGUCCCGUUCGACCACUCCGGCAUCUCUCC
.....((((((((..(((((((((.((...(((((......)))))...))..)))))))))(((......))).........)))))))) (-33.37 = -31.93 +  -1.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:47:17 2007