Locus 9

Sequence ID Eco_1
Location 2,516,060 – 2,516,140
Length 80
Max. P 0.533174
window12

overview

Window 2

Location 2,516,060 – 2,516,140
Length 80
Sequences 6
Columns 80
Reading direction forward
Mean pairwise identity 90.14
Mean single sequence MFE -26.33
Consensus MFE -22.90
Energy contribution -22.23
Covariance contribution -0.66
Combinations/Pair 1.39
Mean z-score -1.39
Structure conservation index 0.87
SVM decision value -0.00
SVM RNA-class probability 0.533174
Prediction RNA

Download alignment: ClustalW | MAF

>Eco_1 2516060 80 + 1
UAUACGGCUCCAAUAGUGGAGUAUCACCGCUGCAGUUUCAGGCGCCCCACUCGAUGGGGCAUCUACAUCCGUGCGGCCAA
......((((((....))))))......((((((.....((..((((((.....))))))..)).......))))))... ( -28.70)
>Hin_1 1 80 + 1
UAUACGGCUCCAAUAUUGGAGUAUCACCGACGCAGUUUCAAUCGCCCAACUAGAUGGGGCAUCUACAUCCGUGCUGCCAA
....((((((((....))))).....)))..(((((.......((((.........))))....((....)))))))... ( -19.80)
>Lpn_1 1 77 + 1
---ACGGCUCCAAUGGUGGAGUAUCACCGCCGCAGUUUCAGGCGCCCCACUCGAUGGGGCAUCUACAUCCGUGCAGCCAA
---..((((.((...(((((........(((.........)))((((((.....)))))).))))).....)).)))).. ( -30.10)
>Sfl_1 1 77 + 1
---ACGGCUCCGAUUGUGGAGUAUCACCGCAGCAGUUCCAGGCGCACCGCUCGAUGGGGCAUCAACAUCCGUGCGGCCAA
---...((((((....))))))....((((....((((((((((...))))...))))))....((....)))))).... ( -22.50)
>Sty_1 1 80 + 1
UAUACGGCUCCAAUAGUGGAGUAUCACCGCUGCAGUUUCAGGCGCCCCACUCGAUGGGGCAUCUACAUCCGUGCGGCCAA
......((((((....))))))......((((((.....((..((((((.....))))))..)).......))))))... ( -28.70)
>Ype_1 1 80 + 1
UAUACGGCUCCAAUGAUGGAGUAUCACCGUCGCAGUUUCAGGCGCCCCACUCGAUGGGGCAUCUACAUCCGUGCGGCCAA
......((((((....))))))......((((((.....((..((((((.....))))))..)).......))))))... ( -28.20)
>consensus
UAUACGGCUCCAAUAGUGGAGUAUCACCGCCGCAGUUUCAGGCGCCCCACUCGAUGGGGCAUCUACAUCCGUGCGGCCAA
.....((((.((.((((((.......))))))...........((((((.....))))))...........)).)))).. (-22.90 = -22.23 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Dec 7 14:10:18 2006