Locus 3002

Sequence ID X_DroMel_CAF1
Location 8,001,698 – 8,001,809
Length 111
Max. P 0.735346
window4921

overview

Window 1

Location 8,001,698 – 8,001,809
Length 111
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 78.54
Mean single sequence MFE -38.10
Consensus MFE -18.54
Energy contribution -18.85
Covariance contribution 0.31
Combinations/Pair 1.24
Mean z-score -2.20
Structure conservation index 0.49
SVM decision value 0.44
SVM RNA-class probability 0.735346
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8001698 111 - 22224390
ACAUGCCGCAUCACAUGCAGCUGAUGCUGCAGGCAUUCCAGCAGACAGCCAUUGCCACCUGGCAGCCACACAAGCCCAG------CACAAGUGGCGCCGCCGUGGAGAAUGGUCAUG
..((((((.....).((((((....)))))))))))...........((((((.((((.((((.(((((....((...)------)....)))))))))..))))..)))))).... ( -40.30)
>DroVir_CAF1 621 105 - 1
AUAUGCCGCAUCACAUGCAGCUCAUGUUGCAGGCAUUUCAACAAACUGCCAUUGCCACUUGGCAGCCGCACAAGCCCAG------CACUAGCUCC------CUAGAGAACGGCCACA
...(((.((......((((((....))))))((((.((.....)).))))..((((....)))))).)))...(((...------(.((((....------)))).)...))).... ( -30.40)
>DroPse_CAF1 624 117 - 1
AUAUGCCGCAUCACAUGCAACUGAUGCUGCAGGCCUUCCAGCAGACGGCCAUCGCCACCUGGCAGCCGCAGAAGGCCAGUACCAGCACCAGCGGUGGCUCGCUGGAGAAUGGCCAUG
...(((.((((((........)))))).)))(((((((((((....(((((((((...((((..(((......))).....)))).....))))))))).)))))))...))))... ( -53.10)
>DroGri_CAF1 621 111 - 1
ACAUGCCGCAUCACUUGCAGCUCAUGUUGCAGGCCCAUCAACAGACCGCCAUCGCCACAUGGCAGCCGCAAAAGCUGAG------CACUGGCAGUGGAACGCUGGAGAAUGGUCAUA
..((((((.....((((((((....))))))))....((..(((....((((.((((.....((((.......))))..------...)))).))))....)))..)).))).))). ( -36.90)
>DroSec_CAF1 630 108 - 1
ACAUGCCGCAUCACAUGCAGCUGAUGCUACAGGCAUUCCAGCAGACAGCCAUUGCCACCUGGCAGCCGCACAAGCCCAG------CACAAGUGGUG---CCAUGGAGAACGGCCAUG
.(((((((((((((.(((.((((((((.....))))..)))).....((..(((((....)))))..)).........)------))...))))))---)...(.....))).)))) ( -35.70)
>DroMoj_CAF1 621 108 - 1
ACAUGCCGCACCACAUGCAACUCAUGCUACAGGCAUUCCAACAAACAGCCAUUGAGACUUGGCAGCCACACAAGCCCAG------CUCCAGCUCC---GCGCUGGAGAACGGCCACA
..(((((......((((.....)))).....)))))...........((((........))))..........(((...------(((((((...---..)))))))...))).... ( -32.20)
>consensus
ACAUGCCGCAUCACAUGCAGCUCAUGCUGCAGGCAUUCCAACAGACAGCCAUUGCCACCUGGCAGCCGCACAAGCCCAG______CACAAGCGGCG___CGCUGGAGAACGGCCAUA
....((((..((...((((((....))))))(((..((.....))..((((........)))).))).....................................))...)))).... (-18.54 = -18.85 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:44 2006