Locus 32

Sequence ID	pao_1
Location	2,905,965 – 2,906,053
Length	88
Max. P	0.998911

overview

Window 7

Location	2,905,965 – 2,906,053
Length	88
Sequences	3
Columns	88
Reading direction	forward
Mean pairwise identity	89.39
Mean single sequence MFE	-36.67
Consensus MFE	-34.55
Energy contribution	-33.67
Covariance contribution	-0.89
Combinations/Pair	1.09
Mean z-score	-1.77
Structure conservation index	0.94
SVM decision value	0.84
SVM RNA-class probability	0.863292
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 2905965 88 + 1
AUGGUGCCCGGAGCCGGGGUCGAACCGGCACGGGGUUACCCCCGAGGGAUUUUAAGUCCCUUGCGUCUACCGAUUUCGCCAUCCGGGC
.....(((((((..((..((((....(((.(((((....)))))((((((.....))))))...)))...))))..))...))))))) ( -43.80)
>pf5_1 1 88 + 1
AUGGUGCCCGAAGCCGGAAUCGAACCGGCACGCCCUUACGAGCGGGGGAUUUUAAGUCCCAUGCGUCUACCAGUUUCGCCAUUCGGGC
.....((((((((((((.......)))))((((((........))(((((.....)))))..))))...............))))))) ( -33.10)
>pfo_1 1 88 + 1
AUGGUGCCCGAAGCCGGAAUCGAACCGGCACGCCCUUACGAGCGGGGGAUUUUAAGUCCCAUGCGUCUACCAGUUUCGCCAUUCGGGC
.....((((((((((((.......)))))((((((........))(((((.....)))))..))))...............))))))) ( -33.10)
>consensus
AUGGUGCCCGAAGCCGGAAUCGAACCGGCACGCCCUUACGAGCGGGGGAUUUUAAGUCCCAUGCGUCUACCAGUUUCGCCAUUCGGGC
.....((((((((((((.......))))).(((........))).(((((.....)))))..(((...........)))..))))))) (-34.55 = -33.67 +  -0.89)

alignment

secondary structure

dotplot

Window 8

Location	2,905,965 – 2,906,053
Length	88
Sequences	3
Columns	88
Reading direction	reverse
Mean pairwise identity	89.39
Mean single sequence MFE	-39.83
Consensus MFE	-41.68
Energy contribution	-39.47
Covariance contribution	-2.21
Combinations/Pair	1.21
Mean z-score	-2.79
Structure conservation index	1.05
SVM decision value	3.28
SVM RNA-class probability	0.998911
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 2905965 88 - 1
GCCCGGAUGGCGAAAUCGGUAGACGCAAGGGACUUAAAAUCCCUCGGGGGUAACCCCGUGCCGGUUCGACCCCGGCUCCGGGCACCAU
(((((((.((((((.((((((......(((((.......)))))(((((....))))))))))))))).)).....)))))))..... ( -42.90)
>pf5_1 1 88 - 1
GCCCGAAUGGCGAAACUGGUAGACGCAUGGGACUUAAAAUCCCCCGCUCGUAAGGGCGUGCCGGUUCGAUUCCGGCUUCGGGCACCAU
((((((((((((((.((((((.......((((.......)))).(((((....)))))))))))))))...)))..)))))))..... ( -38.30)
>pfo_1 1 88 - 1
GCCCGAAUGGCGAAACUGGUAGACGCAUGGGACUUAAAAUCCCCCGCUCGUAAGGGCGUGCCGGUUCGAUUCCGGCUUCGGGCACCAU
((((((((((((((.((((((.......((((.......)))).(((((....)))))))))))))))...)))..)))))))..... ( -38.30)
>consensus
GCCCGAAUGGCGAAACUGGUAGACGCAUGGGACUUAAAAUCCCCCGCUCGUAAGGGCGUGCCGGUUCGAUUCCGGCUUCGGGCACCAU
((((((((((((((.((((((.......((((.......)))).(((((....)))))))))))))))...)))..)))))))..... (-41.68 = -39.47 +  -2.21)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:47:37 2007