Locus 34

Sequence ID	Eco_1
Location	4,167,449 – 4,167,569
Length	120
Max. P	0.982933

overview

Window 8

Location	4,167,449 – 4,167,569
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	97.08
Mean single sequence MFE	-47.50
Consensus MFE	-47.15
Energy contribution	-46.52
Covariance contribution	-0.63
Combinations/Pair	1.08
Mean z-score	-2.65
Structure conservation index	0.99
SVM decision value	1.93
SVM RNA-class probability	0.982933
Prediction	RNA

Download alignment: ClustalW | MAF

>Eco_1 4167449 120 + 1
CGGAAAUGCGGGACGGCAUCAGACGCCCGCAUUUCUCGUCUGGGAUCAACCAAAUUGCUACCACAUUCGGCGGCUUGUUGGGUGCAGGCAAUCUGCACAAGUCGGUAAACCUCCAUCUAG
((((((((((((.((........)))))))))))).))..((((((...((((...((..((......))..))...))))((((((.....))))))..)))((....)).)))..... ( -46.20)
>Sfl_1 799 120 + 1
CGGAAAUGCGGGACGGCAUCAGACGCCCGCAUUUCUCGUCUGGGAUCAACCAAAUUGCUACCACAUUCGGCGGCUUGUUGGGUGCAGGCAAUCUGCACAAGUCGGUAAACCUCCAUCUAG
((((((((((((.((........)))))))))))).))..((((((...((((...((..((......))..))...))))((((((.....))))))..)))((....)).)))..... ( -46.20)
>Sty_1 801 120 + 1
CGGAAAUGCGGGACGGCAUCAGACGCCCGCAUUUCUCGUCUGGGAUCAACCAAAUUGCUACCACAUUCGGCGGCUUGUUGGGUGCAGGCAACCUGCACGAGUCGGUUAACCUCCAUCUAG
((((((((((((.((........)))))))))))).))..(((((((..((((...((..((......))..))...))))(((((((...))))))))).))((....)).)))..... ( -48.60)
>Ype_1 798 120 + 1
CGGAAAUGCGGGACGGCAUCAGACGCCCGCAUUUCUCGUCUGGGAUCAACCAAAUUGCUAUCACAUUAGGCGGCUUGUUGGGUGCAGGCAACCUGCACGAGUCGGUUAACCUCCACCUAG
((((((((((((.((........)))))))))))).)).(((((.((..((((...(((..(......)..)))...))))(((((((...)))))))))(..((....))..).))))) ( -49.00)
>consensus
CGGAAAUGCGGGACGGCAUCAGACGCCCGCAUUUCUCGUCUGGGAUCAACCAAAUUGCUACCACAUUCGGCGGCUUGUUGGGUGCAGGCAACCUGCACAAGUCGGUAAACCUCCAUCUAG
((((((((((((.((........)))))))))))).)).(((((.....((((...((..((......))..))...))))(((((((...)))))))..(..((....))..).))))) (-47.15 = -46.52 +  -0.63)

alignment

secondary structure

dotplot

Window 9

Location	4,167,449 – 4,167,569
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	97.08
Mean single sequence MFE	-48.62
Consensus MFE	-47.80
Energy contribution	-48.55
Covariance contribution	0.75
Combinations/Pair	1.00
Mean z-score	-2.57
Structure conservation index	0.98
SVM decision value	1.81
SVM RNA-class probability	0.978077
Prediction	RNA

Download alignment: ClustalW | MAF

>Eco_1 4167449 120 - 1
CUAGAUGGAGGUUUACCGACUUGUGCAGAUUGCCUGCACCCAACAAGCCGCCGAAUGUGGUAGCAAUUUGGUUGAUCCCAGACGAGAAAUGCGGGCGUCUGAUGCCGUCCCGCAUUUCCG
.....(((.((((.(((((...((((((.....)))))).......((..(((....)))..))...))))).)))))))..((.((((((((((((.(....).)).)))))))))))) ( -47.20)
>Sfl_1 799 120 - 1
CUAGAUGGAGGUUUACCGACUUGUGCAGAUUGCCUGCACCCAACAAGCCGCCGAAUGUGGUAGCAAUUUGGUUGAUCCCAGACGAGAAAUGCGGGCGUCUGAUGCCGUCCCGCAUUUCCG
.....(((.((((.(((((...((((((.....)))))).......((..(((....)))..))...))))).)))))))..((.((((((((((((.(....).)).)))))))))))) ( -47.20)
>Sty_1 801 120 - 1
CUAGAUGGAGGUUAACCGACUCGUGCAGGUUGCCUGCACCCAACAAGCCGCCGAAUGUGGUAGCAAUUUGGUUGAUCCCAGACGAGAAAUGCGGGCGUCUGAUGCCGUCCCGCAUUUCCG
.....(((.((((((((((...(((((((...))))))).......((..(((....)))..))...)))))))))))))..((.((((((((((((.(....).)).)))))))))))) ( -52.80)
>Ype_1 798 120 - 1
CUAGGUGGAGGUUAACCGACUCGUGCAGGUUGCCUGCACCCAACAAGCCGCCUAAUGUGAUAGCAAUUUGGUUGAUCCCAGACGAGAAAUGCGGGCGUCUGAUGCCGUCCCGCAUUUCCG
.....(((.((((((((((...(((((((...))))))).......(((((.....)))...))...)))))))))))))..((.((((((((((((.(....).)).)))))))))))) ( -47.30)
>consensus
CUAGAUGGAGGUUAACCGACUCGUGCAGAUUGCCUGCACCCAACAAGCCGCCGAAUGUGGUAGCAAUUUGGUUGAUCCCAGACGAGAAAUGCGGGCGUCUGAUGCCGUCCCGCAUUUCCG
.....(((.((((((((((...((((((.....)))))).......((.(((......))).))...)))))))))))))..((.((((((((((((.(....).)).)))))))))))) (-47.80 = -48.55 +   0.75)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Dec 7 14:12:25 2006