Locus 76

Sequence ID	pao_1
Location	5,238,276 – 5,238,360
Length	84
Max. P	0.999967

overview

Window 0

Location	5,238,276 – 5,238,360
Length	84
Sequences	6
Columns	84
Reading direction	forward
Mean pairwise identity	97.92
Mean single sequence MFE	-34.50
Consensus MFE	-34.50
Energy contribution	-34.50
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.46
Structure conservation index	1.00
SVM decision value	4.99
SVM RNA-class probability	0.999967
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 5238276 84 + 1
ACAGGGGCGUCGCCAAGCGGUAAGGCAGCAGGUUUUGAUCCUGCCAUGCGUUGGUUCGAAUCCAGCCGCCCCUGCCAUUUUCCU
.((((((((..(((....)))...((((((((.......)))))..)))(((((.......))))))))))))).......... ( -34.50)
>pst_1 1 82 + 1
ACAGGGGCGUCGCCAAGCGGUAAGGCAGCAGGUUUUGAUCCUGCCAUGCGUUGGUUCGAAUCCAGCCGCCCCUGCCAUUUUC--
.((((((((..(((....)))...((((((((.......)))))..)))(((((.......)))))))))))))........-- ( -34.50)
>pel_1 1 80 + 1
ACAGGGGCGUCGCCAAGCGGUAAGGCAGCAGGUUUUGAUCCUGCCAUGCGUUGGUUCGAAUCCAGCCGCCCCUGCCAUUU----
.((((((((..(((....)))...((((((((.......)))))..)))(((((.......)))))))))))))......---- ( -34.50)
>ppk_1 1 84 + 1
ACAGGGGCGUCGCCAAGCGGUAAGGCAGCAGGUUUUGAUCCUGCCAUGCGUUGGUUCGAAUCCAGCCGCCCCUGCCAUUUUCCU
.((((((((..(((....)))...((((((((.......)))))..)))(((((.......))))))))))))).......... ( -34.50)
>psp_1 1 82 + 1
ACAGGGGCGUCGCCAAGCGGUAAGGCAGCAGGUUUUGAUCCUGCCAUGCGUUGGUUCGAAUCCAGCCGCCCCUGCCAUUUUC--
.((((((((..(((....)))...((((((((.......)))))..)))(((((.......)))))))))))))........-- ( -34.50)
>pss_1 1 82 + 1
ACAGGGGCGUCGCCAAGCGGUAAGGCAGCAGGUUUUGAUCCUGCCAUGCGUUGGUUCGAAUCCAGCCGCCCCUGCCAUUUUC--
.((((((((..(((....)))...((((((((.......)))))..)))(((((.......)))))))))))))........-- ( -34.50)
>consensus
ACAGGGGCGUCGCCAAGCGGUAAGGCAGCAGGUUUUGAUCCUGCCAUGCGUUGGUUCGAAUCCAGCCGCCCCUGCCAUUUUC__
.((((((((..(((....)))...((((((((.......)))))..)))(((((.......))))))))))))).......... (-34.50 = -34.50 +   0.00)

alignment

secondary structure

dotplot

Window 1

Location	5,238,276 – 5,238,360
Length	84
Sequences	6
Columns	84
Reading direction	reverse
Mean pairwise identity	97.92
Mean single sequence MFE	-34.10
Consensus MFE	-34.10
Energy contribution	-34.10
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.45
Structure conservation index	1.00
SVM decision value	4.97
SVM RNA-class probability	0.999966
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 5238276 84 - 1
AGGAAAAUGGCAGGGGCGGCUGGAUUCGAACCAACGCAUGGCAGGAUCAAAACCUGCUGCCUUACCGCUUGGCGACGCCCCUGU
.........((((((((((((((.......)))..))..((((((.......))))))(((.........)))..))))))))) ( -34.10)
>pst_1 1 82 - 1
--GAAAAUGGCAGGGGCGGCUGGAUUCGAACCAACGCAUGGCAGGAUCAAAACCUGCUGCCUUACCGCUUGGCGACGCCCCUGU
--.......((((((((((((((.......)))..))..((((((.......))))))(((.........)))..))))))))) ( -34.10)
>pel_1 1 80 - 1
----AAAUGGCAGGGGCGGCUGGAUUCGAACCAACGCAUGGCAGGAUCAAAACCUGCUGCCUUACCGCUUGGCGACGCCCCUGU
----.....((((((((((((((.......)))..))..((((((.......))))))(((.........)))..))))))))) ( -34.10)
>ppk_1 1 84 - 1
AGGAAAAUGGCAGGGGCGGCUGGAUUCGAACCAACGCAUGGCAGGAUCAAAACCUGCUGCCUUACCGCUUGGCGACGCCCCUGU
.........((((((((((((((.......)))..))..((((((.......))))))(((.........)))..))))))))) ( -34.10)
>psp_1 1 82 - 1
--GAAAAUGGCAGGGGCGGCUGGAUUCGAACCAACGCAUGGCAGGAUCAAAACCUGCUGCCUUACCGCUUGGCGACGCCCCUGU
--.......((((((((((((((.......)))..))..((((((.......))))))(((.........)))..))))))))) ( -34.10)
>pss_1 1 82 - 1
--GAAAAUGGCAGGGGCGGCUGGAUUCGAACCAACGCAUGGCAGGAUCAAAACCUGCUGCCUUACCGCUUGGCGACGCCCCUGU
--.......((((((((((((((.......)))..))..((((((.......))))))(((.........)))..))))))))) ( -34.10)
>consensus
__GAAAAUGGCAGGGGCGGCUGGAUUCGAACCAACGCAUGGCAGGAUCAAAACCUGCUGCCUUACCGCUUGGCGACGCCCCUGU
.........((((((((((((((.......)))..))..((((((.......))))))(((.........)))..))))))))) (-34.10 = -34.10 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:51:13 2007