Locus 28

Sequence ID	pao_1
Location	1,947,442 – 1,947,529
Length	87
Max. P	0.999955

overview

Window 9

Location	1,947,442 – 1,947,529
Length	87
Sequences	6
Columns	87
Reading direction	forward
Mean pairwise identity	92.02
Mean single sequence MFE	-32.78
Consensus MFE	-31.89
Energy contribution	-30.95
Covariance contribution	-0.94
Combinations/Pair	1.18
Mean z-score	-2.18
Structure conservation index	0.97
SVM decision value	3.77
SVM RNA-class probability	0.999597
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 1947442 87 + 1
AAUAUGGUGGGCGUAGCUCAGUUGGUAGAGCACAGGAUUGUGGCUCCUGGUGUCGUGGGUUCGAUUCCCAUCGUCCACCCCAUAUUC
.....((((((((..((((........)))).(((((.......))))).....(((((.......)))))))))))))........ ( -31.20)
>pel_1 1 87 + 1
AAUAUGGUGGGCGUAGCUCAGUUGGUAGAGCGCCGGAUUGUGAUUCCGGUUGUCGUGGGUUCGAUUCCCAUCGUCCACCCCAGAUUC
.....((((((((..((((........))))((((((.......))))))....(((((.......)))))))))))))........ ( -34.10)
>pfs_1 1 87 + 1
AAUAUGGUGGGCGUAGCUCAGUUGGUAGAGCACGGGAUUGUGACUCCCGUUGUCGAGGGUUCGAUCCCCUUCGUCCACCCCAUAUUC
.....((((((((..((((........))))..(((((((.(((((.((....)).))))))))))))...))))))))........ ( -36.60)
>ppk_1 1 87 + 1
AAUAUGGUGGGCGUAGCUCAGUUGGUAGAGCGCUGGAUUGUGAUUCCAGUUGUCGUGGGUUCGAUUCCCAUCGUCCACCCCAUAUUC
.....((((((((..((((........))))((((((.......))))))....(((((.......)))))))))))))........ ( -32.60)
>pss_1 1 86 + 1
AAUAUGGUGGGCGUAGCUCAGUUGGUAGAGCACAGGAUUGUGACUCCUGCGGUCGUGGGUUCGAACCCCAUCGUCCACCCCAUAUU-
(((((((.((((((.((((........))))))((((.......))))))((.((((((.......)))).)).)).)))))))))- ( -31.10)
>pst_1 1 86 + 1
AAUAUGGUGGGCGUAGCUCAGUUGGUAGAGCACAGGAUUGUGACUCCUGCGGUCGUGGGUUCGAACCCCAUCGUCCACCCCAUAUU-
(((((((.((((((.((((........))))))((((.......))))))((.((((((.......)))).)).)).)))))))))- ( -31.10)
>consensus
AAUAUGGUGGGCGUAGCUCAGUUGGUAGAGCACAGGAUUGUGACUCCUGUUGUCGUGGGUUCGAUCCCCAUCGUCCACCCCAUAUUC
.....((((((((..((((........)))).(((((.......))))).....(((((.......)))))))))))))........ (-31.89 = -30.95 +  -0.94)

alignment

secondary structure

dotplot

Window 0

Location	1,947,442 – 1,947,529
Length	87
Sequences	6
Columns	87
Reading direction	reverse
Mean pairwise identity	92.02
Mean single sequence MFE	-30.48
Consensus MFE	-29.96
Energy contribution	-29.18
Covariance contribution	-0.78
Combinations/Pair	1.15
Mean z-score	-2.70
Structure conservation index	0.98
SVM decision value	4.84
SVM RNA-class probability	0.999955
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 1947442 87 - 1
GAAUAUGGGGUGGACGAUGGGAAUCGAACCCACGACACCAGGAGCCACAAUCCUGUGCUCUACCAACUGAGCUACGCCCACCAUAUU
.(((((((((((..((.((((.......)))))).)))).((.((.(((....)))((((........))))...)))).))))))) ( -29.70)
>pel_1 1 87 - 1
GAAUCUGGGGUGGACGAUGGGAAUCGAACCCACGACAACCGGAAUCACAAUCCGGCGCUCUACCAACUGAGCUACGCCCACCAUAUU
........(((((.((.((((.......))))......(((((.......))))).((((........))))..)).)))))..... ( -27.90)
>pfs_1 1 87 - 1
GAAUAUGGGGUGGACGAAGGGGAUCGAACCCUCGACAACGGGAGUCACAAUCCCGUGCUCUACCAACUGAGCUACGCCCACCAUAUU
.(((((((((((..(((.(((.......))))))...((((((.......))))))((((........))))..))))..))))))) ( -33.50)
>ppk_1 1 87 - 1
GAAUAUGGGGUGGACGAUGGGAAUCGAACCCACGACAACUGGAAUCACAAUCCAGCGCUCUACCAACUGAGCUACGCCCACCAUAUU
.(((((((((((..((.((((.......))))))....(((((.......))))).((((........))))..))))..))))))) ( -28.20)
>pss_1 1 86 - 1
-AAUAUGGGGUGGACGAUGGGGUUCGAACCCACGACCGCAGGAGUCACAAUCCUGUGCUCUACCAACUGAGCUACGCCCACCAUAUU
-(((((((((.((.((.((((.......)))))).))((((((.......))))))((((........)))).....)).))))))) ( -31.80)
>pst_1 1 86 - 1
-AAUAUGGGGUGGACGAUGGGGUUCGAACCCACGACCGCAGGAGUCACAAUCCUGUGCUCUACCAACUGAGCUACGCCCACCAUAUU
-(((((((((.((.((.((((.......)))))).))((((((.......))))))((((........)))).....)).))))))) ( -31.80)
>consensus
GAAUAUGGGGUGGACGAUGGGAAUCGAACCCACGACAACAGGAGUCACAAUCCUGUGCUCUACCAACUGAGCUACGCCCACCAUAUU
.(((((((((((..((.((((.......))))))....(((((.......))))).((((........))))..))))..))))))) (-29.96 = -29.18 +  -0.78)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:47:26 2007