Locus 94

Sequence ID	pao_1
Location	5,332,255 – 5,332,342
Length	87
Max. P	0.999459

overview

Window 9

Location	5,332,255 – 5,332,342
Length	87
Sequences	6
Columns	87
Reading direction	forward
Mean pairwise identity	96.86
Mean single sequence MFE	-26.43
Consensus MFE	-25.53
Energy contribution	-25.42
Covariance contribution	-0.11
Combinations/Pair	1.05
Mean z-score	-2.02
Structure conservation index	0.97
SVM decision value	3.62
SVM RNA-class probability	0.999459
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 5332255 87 + 1
UGGUACCGAGGAGGGGACUCGAACCCCUACAGCCUAUGGCCACUACCACCUCAAGGUAGCGUGUCUACCAAUUCCACCACCUCGGCA
.....(((((((((((.......))))).........((((.(((((.......))))).).)))..............)))))).. ( -28.80)
>pfs_1 1 87 + 1
UGGUACCGAGAAGGGGACUCGAACCCCUACACCCUAUGGGCACAACCACCUCAAGGUUGCGUGUCUACCAAUUCCACCACCUCGGCA
.....(((((.(((((.......)))))........(((((((((((.......))))..))))))).............))))).. ( -26.00)
>ppk_1 1 87 + 1
UGGUACCGAGAAGGGGACUCGAACCCCUACACCCUAUGGGCACAACCACCUCAAGGUUGCGUGUCUACCAAUUCCACCACCUCGGCA
.....(((((.(((((.......)))))........(((((((((((.......))))..))))))).............))))).. ( -26.00)
>psp_1 1 87 + 1
UGGUACCGAGAAGGGGACUCGAACCCCUACACCCAUUGGGCACAACCACCUCAAGGUUGCGUGUCUACCAAUUCCACCACCUCGGCA
.....(((((.(((((.......)))))........(((((((((((.......))))..))))))).............))))).. ( -25.90)
>pss_1 1 87 + 1
UGGUACCGAGAAGGGGACUCGAACCCCUACACCCUAUGGGCACAACCACCUCAAGGUUGCGUGUCUACCAAUUCCACCACCUCGGCA
.....(((((.(((((.......)))))........(((((((((((.......))))..))))))).............))))).. ( -26.00)
>pst_1 1 87 + 1
UGGUACCGAGAAGGGGACUCGAACCCCUACACCCAUUGGGCACAACCACCUCAAGGUUGCGUGUCUACCAAUUCCACCACCUCGGCA
.....(((((.(((((.......)))))........(((((((((((.......))))..))))))).............))))).. ( -25.90)
>consensus
UGGUACCGAGAAGGGGACUCGAACCCCUACACCCUAUGGGCACAACCACCUCAAGGUUGCGUGUCUACCAAUUCCACCACCUCGGCA
.....(((((.(((((.......)))))........(((((((((((.......))))..))))))).............))))).. (-25.53 = -25.42 +  -0.11)

alignment

secondary structure

dotplot

Window 0

Location	5,332,255 – 5,332,342
Length	87
Sequences	6
Columns	87
Reading direction	reverse
Mean pairwise identity	96.86
Mean single sequence MFE	-34.13
Consensus MFE	-34.14
Energy contribution	-33.45
Covariance contribution	-0.69
Combinations/Pair	1.10
Mean z-score	-1.70
Structure conservation index	1.00
SVM decision value	3.51
SVM RNA-class probability	0.999316
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 5332255 87 - 1
UGCCGAGGUGGUGGAAUUGGUAGACACGCUACCUUGAGGUGGUAGUGGCCAUAGGCUGUAGGGGUUCGAGUCCCCUCCUCGGUACCA
((((((((.((.(((.((((...((((((((((.......)))))))(((...))))))......)))).))))).))))))))... ( -37.50)
>pfs_1 1 87 - 1
UGCCGAGGUGGUGGAAUUGGUAGACACGCAACCUUGAGGUGGUUGUGCCCAUAGGGUGUAGGGGUUCGAGUCCCCUUCUCGGUACCA
((((((((.((.(((.((((......(((((((.......)))))))(((..........)))..)))).))))).))))))))... ( -33.30)
>ppk_1 1 87 - 1
UGCCGAGGUGGUGGAAUUGGUAGACACGCAACCUUGAGGUGGUUGUGCCCAUAGGGUGUAGGGGUUCGAGUCCCCUUCUCGGUACCA
((((((((.((.(((.((((......(((((((.......)))))))(((..........)))..)))).))))).))))))))... ( -33.30)
>psp_1 1 87 - 1
UGCCGAGGUGGUGGAAUUGGUAGACACGCAACCUUGAGGUGGUUGUGCCCAAUGGGUGUAGGGGUUCGAGUCCCCUUCUCGGUACCA
((((((((.((.(((.((((......(((((((.......)))))))(((.((....)).)))..)))).))))).))))))))... ( -33.70)
>pss_1 1 87 - 1
UGCCGAGGUGGUGGAAUUGGUAGACACGCAACCUUGAGGUGGUUGUGCCCAUAGGGUGUAGGGGUUCGAGUCCCCUUCUCGGUACCA
((((((((.((.(((.((((......(((((((.......)))))))(((..........)))..)))).))))).))))))))... ( -33.30)
>pst_1 1 87 - 1
UGCCGAGGUGGUGGAAUUGGUAGACACGCAACCUUGAGGUGGUUGUGCCCAAUGGGUGUAGGGGUUCGAGUCCCCUUCUCGGUACCA
((((((((.((.(((.((((......(((((((.......)))))))(((.((....)).)))..)))).))))).))))))))... ( -33.70)
>consensus
UGCCGAGGUGGUGGAAUUGGUAGACACGCAACCUUGAGGUGGUUGUGCCCAUAGGGUGUAGGGGUUCGAGUCCCCUUCUCGGUACCA
((((((((.((.(((.((((....(((((((((.......))))))((((...)))))).)....)))).))))).))))))))... (-34.14 = -33.45 +  -0.69)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:53:26 2007