Locus 43

Sequence ID	pao.401
Location	707,366 – 707,484
Length	118
Max. P	0.996922

overview

Window 4

Location	707,366 – 707,484
Length	118
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	67.66
Mean single sequence MFE	-38.87
Consensus MFE	-17.55
Energy contribution	-17.22
Covariance contribution	-0.33
Combinations/Pair	1.25
Mean z-score	-2.73
Structure conservation index	0.45
SVM decision value	2.77
SVM RNA-class probability	0.996922
Prediction	RNA

Download alignment: ClustalW | MAF

>pao.401 707366 118 + 6264404
GACGACAUCCGGUCAUCAUAAAAGGGGCGCAAACUCUGGCGGAGGCUUGAUUGGCUCUGCAUAAUGCGCCCCUUUUUUCGUG--CCGCGCGAUUCCGUCGGGCGGCCGUUCAGUUCGGAA
.......((((..(.....((((((((((((.......((((((.(......).))))))....))))))))))))..((.(--((((.((((...)))).)))))))....)..)))). ( -55.50)
>pau.404 718350 118 + 6537648
GACGACAUCCGGUCAUCAUAAAAGGGGCGCAAACUCUGGCGGAGGCUUGAUUGGCUCUGCAUAAUGCGCCCCUUUUUUCGUG--CCGCGCGAUUCCGUCGGGCGGCCGUUCAGUUCGGAA
.......((((..(.....((((((((((((.......((((((.(......).))))))....))))))))))))..((.(--((((.((((...)))).)))))))....)..)))). ( -55.50)
>pfo.3012 695033 100 - 6438405
--CGACAUUCAACUAUCAUAAAAGCAGUGCAGACUCUGGCGAUCCCCCGCUGACGUCUGCAUAAUGCGCCACUUUUUUCAGGGCC----------------GUGAUCAGUCAA--CCGAC
--.(((..(((............(((((((((((((.((((......)))))).))))))))..)))(((.((......))))).----------------.)))...)))..--..... ( -30.40)
>psp.398 793279 91 + 5928787
---GACAUCCAACGAUCAUAAAAACGGCGCACACUCUGGCAGACGGCUUCGGACGUCUGCAUAAUGCGCCACUUUUUCAGGG--C----------------GCAGCAUGU--------AC
---....................(((..((........(((((((.(....).)))))))....((((((.((.....))))--)----------------))))).)))--------.. ( -29.80)
>pst.376 655910 91 + 6397126
---GACAUCCAACGAUCAUAAAAACGGCGCACACUCUGGCAGACGGCUUCGGACGUCUGCAUAAUGCGCCACUUUUUCAGGG--C----------------GCAGCAUGU--------AC
---....................(((..((........(((((((.(....).)))))))....((((((.((.....))))--)----------------))))).)))--------.. ( -29.80)
>pss.2771 654570 91 - 6093698
---GACAUCCAACGAUCAUAAAAACGGCGCACACUCUGGCAGACGGCUUCGGACGUCUGCAUAAUGCGCCACUUUUUACGGG--C----------------GCAGCAUGU--------AU
---.((((.(..((..(.((((((.((((((.......(((((((.(....).)))))))....))))))..)))))).)..--)----------------)..).))))--------.. ( -32.20)
>consensus
___GACAUCCAACGAUCAUAAAAACGGCGCACACUCUGGCAGACGCCUGCGGACGUCUGCAUAAUGCGCCACUUUUUUCGGG__C________________GCAGCAUGU________AC
.........................((((((.......((((((..........))))))....)))))).................................................. (-17.55 = -17.22 +  -0.33)

alignment

secondary structure

dotplot

Window 5

Location	707,366 – 707,484
Length	118
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	67.66
Mean single sequence MFE	-37.82
Consensus MFE	-18.80
Energy contribution	-17.72
Covariance contribution	-1.08
Combinations/Pair	1.29
Mean z-score	-1.94
Structure conservation index	0.50
SVM decision value	1.45
SVM RNA-class probability	0.955101
Prediction	RNA

Download alignment: ClustalW | MAF

>pao.401 707366 118 - 6264404
UUCCGAACUGAACGGCCGCCCGACGGAAUCGCGCGG--CACGAAAAAAGGGGCGCAUUAUGCAGAGCCAAUCAAGCCUCCGCCAGAGUUUGCGCCCCUUUUAUGAUGACCGGAUGUCGUC
.((((.......(((((((.(((.....))).))))--).))..((((((((((((....((.(((.(......).))).)).......))))))))))))........))))....... ( -45.60)
>pau.404 718350 118 - 6537648
UUCCGAACUGAACGGCCGCCCGACGGAAUCGCGCGG--CACGAAAAAAGGGGCGCAUUAUGCAGAGCCAAUCAAGCCUCCGCCAGAGUUUGCGCCCCUUUUAUGAUGACCGGAUGUCGUC
.((((.......(((((((.(((.....))).))))--).))..((((((((((((....((.(((.(......).))).)).......))))))))))))........))))....... ( -45.60)
>pfo.3012 695033 100 + 6438405
GUCGG--UUGACUGAUCAC----------------GGCCCUGAAAAAAGUGGCGCAUUAUGCAGACGUCAGCGGGGGAUCGCCAGAGUCUGCACUGCUUUUAUGAUAGUUGAAUGUCG--
(.((.--(..((((.(((.----------------.(((((......)).)))(((...(((((((....((((....))))....))))))).))).....)))))))..).)).).-- ( -32.70)
>psp.398 793279 91 - 5928787
GU--------ACAUGCUGC----------------G--CCCUGAAAAAGUGGCGCAUUAUGCAGACGUCCGAAGCCGUCUGCCAGAGUGUGCGCCGUUUUUAUGAUCGUUGGAUGUC---
..--------((((.(.((----------------(--.....(((((.((((((((...(((((((........)))))))......))))))))))))).....))).).)))).--- ( -32.60)
>pst.376 655910 91 - 6397126
GU--------ACAUGCUGC----------------G--CCCUGAAAAAGUGGCGCAUUAUGCAGACGUCCGAAGCCGUCUGCCAGAGUGUGCGCCGUUUUUAUGAUCGUUGGAUGUC---
..--------((((.(.((----------------(--.....(((((.((((((((...(((((((........)))))))......))))))))))))).....))).).)))).--- ( -32.60)
>pss.2771 654570 91 + 6093698
AU--------ACAUGCUGC----------------G--CCCGUAAAAAGUGGCGCAUUAUGCAGACGUCCGAAGCCGUCUGCCAGAGUGUGCGCCGUUUUUAUGAUCGUUGGAUGUC---
..--------((((.(.((----------------(--..((((((((.((((((((...(((((((........)))))))......))))))))))))))))..))).).)))).--- ( -37.80)
>consensus
GU________ACAGGCCGC________________G__CCCGAAAAAAGUGGCGCAUUAUGCAGACGUCAGAAGCCGUCCGCCAGAGUGUGCGCCGCUUUUAUGAUCGUUGGAUGUC___
............................................((((((((((((....((.(((..........))).)).......))))))))))))................... (-18.80 = -17.72 +  -1.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 21:06:55 2007