Locus 3376

Sequence ID 3R_DroMel_CAF1
Location 9,117,382 – 9,117,499
Length 117
Max. P 0.920006
window5427

overview

Window 7

Location 9,117,382 – 9,117,499
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.97
Mean single sequence MFE -51.77
Consensus MFE -32.91
Energy contribution -33.38
Covariance contribution 0.48
Combinations/Pair 1.27
Mean z-score -1.97
Structure conservation index 0.64
SVM decision value 1.13
SVM RNA-class probability 0.920006
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9117382 117 + 27905053
CUACUGGGCCGGCGAACCAAGUCGGAGAUCGGAGUUGGCCGCCGCUGCUUCCUCGGCAGC---UGCCGCAUACAAUGGCUAUCGGGUGGAGGGUAAGCCAACCACCUGGAUCAGCUAGGC
((((((((((((((..((((.((.(....).)).)))).))))((((((.....))))))---.............)))).((((((((..((....))..))))))))..))).))).. ( -51.90)
>DroVir_CAF1 29992 117 + 1
GUAUUGGGCCAGCGAGCCAAGCCGAAGGUCCGAGCUGGCGGCAGCUGCCUCAUCCGCAGC---UGCGGCCUACAAUGGCUACCGGGUGGAGGGCAAACCCACCACCUGGGUCAAUUAGCG
...(((((((..((.((...))))..)))))))((((((.((((((((.......)))))---))).))).....((((..((((((((.(((....))).))))))))))))...))). ( -62.50)
>DroGri_CAF1 21740 114 + 1
CUAUUGGGCCAGCGAGCCGAGCCGAAGAUCUGAACUGGCAGCAGCCGCCUCAUCAGCGGC---CGCAGCUUACAAUGGCUAUCGGGUGGAGGGGAAACCCACCACCUGGGUGAAUUA---
......(((((..((((...((((...........)))).((.(((((.......)))))---.)).))))....))))).((((((((.(((....))).))))))))........--- ( -50.30)
>DroWil_CAF1 8617 120 + 1
CUAUUGGGCUGGCGAACCGAGUCGGCGUUCUGAGCUGGCGGCAGCCGCGUCUUCGGCGGCAGCGGCUGCCUACAAUGGCUAUCGGGUGGAAGGCAAACCGACAACAUGGAUAAGCUAAAU
...(((((((..(.(.((((((((((.......))))))((((((((((((......))).)))))))))...........)))).).)..)))...(((......))).....)))).. ( -46.30)
>DroMoj_CAF1 24020 117 + 1
CUAUUGGGCCAGCGAGCCCAGCCGCAGAUCCGAGCUGGCGGCGGCUGCCUCAUCCGCGUC---AGCUGCCUACAAUGGAUACCGAGUGGAGGGCAAACCCACUGCCUGGGUCAACUAGAG
...((((((......))))))..((((.((((((((((((.(((.((...)).)))))))---)))).((......))........))))(((....))).))))((((.....)))).. ( -43.80)
>DroAna_CAF1 9669 117 + 1
CUACUGGGCAGGAGAACCAAGUCGGAGGUCGGAGCUGGCUGCGGCGGCCUCCUCCGCGGC---AGCCGCCUACAAUGGCUACCGAGUGGAGGGCAAGCCCACCACUUGGAUAAGCUAGGU
..(((.(((.((....)).(((((...((.((.((.((((((.((((......)))).))---))))))))))..))))).((((((((.(((....))).))))))))....))).))) ( -55.80)
>consensus
CUAUUGGGCCAGCGAACCAAGCCGGAGAUCCGAGCUGGCGGCAGCUGCCUCAUCCGCGGC___AGCCGCCUACAAUGGCUACCGGGUGGAGGGCAAACCCACCACCUGGAUCAACUAGAG
(((((((((...........))).............(((.((.(((((.......)))))....)).)))..))))))...((((((((.(((....))).))))))))........... (-32.91 = -33.38 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:32 2006