Locus 3559

Sequence ID 2L_DroMel_CAF1
Location 10,384,474 – 10,384,591
Length 117
Max. P 0.931500
window5625

overview

Window 5

Location 10,384,474 – 10,384,591
Length 117
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 83.70
Mean single sequence MFE -46.97
Consensus MFE -39.24
Energy contribution -39.05
Covariance contribution -0.19
Combinations/Pair 1.43
Mean z-score -2.60
Structure conservation index 0.84
SVM decision value 1.21
SVM RNA-class probability 0.931500
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10384474 117 + 22407834
CUCUUGGUUGUCCUGCUCAUCGCGGUGCCGACCAUCAUUGGUGCUUACGUGAUGAAGAGGCGCGGCUGCUUUGGCGUCUUUAGACGUCAUGACAGCGGUGCUAGCAGUGCUCUCUAU
....(((..(..((((((((((((..((..((((....))))))...))))))))...(((((.((((...(((((((....)))))))...)))).))))).))))..)...))). ( -52.30)
>DroSec_CAF1 2974 117 + 1
CUCCUGGUUGUCCUGCUUAUCGCGGUGCCGACCAUCAUUGGUGCCUACGUAAUGAAGAGGCGCGGCUGCUUUGGCGUCUUUAGGCGUCAUGACAGCGGUGCUAGCAGUGCUCUCUAU
....(((..(..((((((((..(((..((((......))))..))...)..))))...(((((.((((...(((((((....)))))))...)))).))))).))))..)...))). ( -45.20)
>DroSim_CAF1 1400 117 + 1
CUCCUGGUUGUCCUGCUUAUCGCGGUGCCGACCAUCAUUGGUGCCUACGUGAUGAAGAGGCGCGGCUGCUUUGGCGUCUUUAGACGUCAUGACAGCGGUGCUAGCAGUGCUCUCUAU
....(((..(..(((((((((((((..((((......))))..))...)))))))...(((((.((((...(((((((....)))))))...)))).))))).))))..)...))). ( -50.60)
>DroEre_CAF1 1458 117 + 1
CUCCUAGUUGUUCUACUCAUCGCUGUGCCAACCAUCAUUGGCGCCUACGUGAUGAAGAGGCGCGGCUGCUUUGGUGUCUUCAGACGCCAUGACAGCGGUGCUAGCAGUGCUCUAUAU
....(((..((.((..(((((((.(((((((......)))))))....)))))))...(((((.((((...(((((((....)))))))...)))).)))))...)).)).)))... ( -46.00)
>DroYak_CAF1 1386 117 + 1
CUCCUGGUUGUUCUGCUCAUCGCUGUGCCUACUGUCGUUGGCGCCUACGUGAUGAAAAGGCGCGGCUGCUUUGGCGUCUUCAGACGCCAUGACAGCGGCGCUAGCAGUGCUCUCUAU
....(((..((.(((((((((((.(((((.((....)).)))))....)))))))...(((((.((((...(((((((....)))))))...)))).))))).)))).))...))). ( -55.40)
>DroAna_CAF1 1438 117 + 1
CUGCUUGUUGUCCUUCUGAUUGUUAUCCCAACCGUAGUGGCCGCCUACGCAAUUAAAAAACGCGGCUGCUUUGGUCGGUUCCGUCGCAGUGACAGUGUCGCUAACCGAGCCCUCUAC
..(((((..........(((.(.....((.((((.((..(((((.................)))))..)).)))).))..).)))..((((((...))))))...)))))....... ( -32.33)
>consensus
CUCCUGGUUGUCCUGCUCAUCGCGGUGCCGACCAUCAUUGGCGCCUACGUGAUGAAGAGGCGCGGCUGCUUUGGCGUCUUCAGACGCCAUGACAGCGGUGCUAGCAGUGCUCUCUAU
.........(..(((((((((((.(((((((......)))))))....)))))))...(((((.((((...(((((((....)))))))...)))).))))).))))..)....... (-39.24 = -39.05 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:33 2006