Locus 190

Sequence ID	pao.1195
Location	2,169,267 – 2,169,386
Length	119
Max. P	0.982589

overview

Window 7

Location	2,169,267 – 2,169,386
Length	119
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	68.19
Mean single sequence MFE	-45.94
Consensus MFE	-22.21
Energy contribution	-24.40
Covariance contribution	2.19
Combinations/Pair	1.17
Mean z-score	-1.92
Structure conservation index	0.48
SVM decision value	0.79
SVM RNA-class probability	0.850609
Prediction	RNA

Download alignment: ClustalW | MAF

>pao.1195 2169267 119 + 6264404
CCGGGAAGACUUCCCGGCCGGGGCAUGACUUGGACUUGCUGCCAAAGCCCCGCGUAAGGCCUUCCGAGGCUCUACUCCGAA-GGAGUAGGCGAGGACGCCCAAAGCAGGAUUCGGGCGCG
((((((.....))))))(((((((.....((((.(.....))))).)))))((....(((((....)))))(((((((...-)))))))))..)).(((((.((......)).))))).. ( -50.70)
>pau.1830 3072724 120 - 6537648
CCGGGAAGACUUCCCGGACGGGGCAUGACUUGGACUUGCUGCCAAAGCCCCACGUUAGGCCUUCCGAGGCUCUACUCCGAAGGGAGUAGGCGAGGACGCCCAAAGCAGGAUUCGGGCGCG
((((((.....))))))..(((((.....((((.(.....))))).))))).(((..(((((....)))))(((((((....))))))))))..(.(((((.((......)).)))))). ( -53.50)
>pf5.1341 2476910 98 + 7074893
CCGGGAAUAGUUCCCGGGCGGCACCUGAUUUAGGCCCGCGCCACAAGCCC----------------------UACUACCAAGGGAGUAGGGCGCGGCCACCAAAGCAGCAUACGGCCGCC
((((((.....))))))((((..((((...)))).)))).......((((----------------------((((.((...))))))))))((((((...............)))))). ( -46.76)
>ppk.1559 3063542 98 + 6181863
CCGGGAAUAAUUCCCGCGCGGCACCUCAAUUGGCCCUUCGCCACAAGCCC----------------------UACUACCAAGGGAUUAAGGCCCGGCCACCAAAGCAGCAUUCGGCCGCC
.(((((.....))))).(((((........(((((....(((.....(((----------------------(.......)))).....)))..))))).........(....)))))). ( -32.80)
>consensus
CCGGGAAGACUUCCCGGGCGGCACAUGACUUGGACCUGCGCCAAAAGCCC______________________UACUACCAAGGGAGUAGGCCACGACCACCAAAGCAGCAUUCGGCCGCC
.(((((.....)))))(((.(((((((..((((..((..(((...............(((((....)))))(((((((....))))))))))..))...))))..)))).))).)))... (-22.21 = -24.40 +   2.19)

alignment

secondary structure

dotplot

Window 8

Location	2,169,267 – 2,169,386
Length	119
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	68.19
Mean single sequence MFE	-49.55
Consensus MFE	-29.92
Energy contribution	-31.42
Covariance contribution	1.50
Combinations/Pair	1.21
Mean z-score	-1.84
Structure conservation index	0.60
SVM decision value	1.92
SVM RNA-class probability	0.982589
Prediction	RNA

Download alignment: ClustalW | MAF

>pao.1195 2169267 119 - 6264404
CGCGCCCGAAUCCUGCUUUGGGCGUCCUCGCCUACUCC-UUCGGAGUAGAGCCUCGGAAGGCCUUACGCGGGGCUUUGGCAGCAAGUCCAAGUCAUGCCCCGGCCGGGAAGUCUUCCCGG
.(((((((((......)))))))))((..(((((((((-...))))))).((((....)))).....))(((((..((((...........)))).)))))))((((((.....)))))) ( -53.30)
>pau.1830 3072724 120 + 6537648
CGCGCCCGAAUCCUGCUUUGGGCGUCCUCGCCUACUCCCUUCGGAGUAGAGCCUCGGAAGGCCUAACGUGGGGCUUUGGCAGCAAGUCCAAGUCAUGCCCCGUCCGGGAAGUCUUCCCGG
.(((((((((......)))))))))((..(((((((((....))))))).))...(((((((.(..((((((((..((((...........)))).))))))..))..).))))))).)) ( -52.70)
>pf5.1341 2476910 98 - 7074893
GGCGGCCGUAUGCUGCUUUGGUGGCCGCGCCCUACUCCCUUGGUAGUA----------------------GGGCUUGUGGCGCGGGCCUAAAUCAGGUGCCGCCCGGGAACUAUUCCCGG
((((((.....))))))......(((((((((((((((...)).))))----------------------))))..)))))((((((((.....)))).))))((((((.....)))))) ( -50.80)
>ppk.1559 3063542 98 - 6181863
GGCGGCCGAAUGCUGCUUUGGUGGCCGGGCCUUAAUCCCUUGGUAGUA----------------------GGGCUUGUGGCGAAGGGCCAAUUGAGGUGCCGCGCGGGAAUUAUUCCCGG
.(((((........((((..((((((..(((.(((.((((.......)----------------------))).))).)))....)))).))..))))))))).(((((.....))))). ( -41.40)
>consensus
CGCGCCCGAAUCCUGCUUUGGGCGCCCUCCCCUACUCCCUUCGGAGUA______________________GGGCUUGGGCAGCAAGUCCAAGUCAGGCCCCGCCCGGGAAGUAUUCCCGG
((((((((((......)))))))))).....(((((((....))))))).....................((((((.......))))))..............((((((.....)))))) (-29.92 = -31.42 +   1.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 21:17:08 2007