Locus 3516

Sequence ID 3R_DroMel_CAF1
Location 9,508,900 – 9,509,020
Length 120
Max. P 0.513949
window5647

overview

Window 7

Location 9,508,900 – 9,509,020
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 86.33
Mean single sequence MFE -45.61
Consensus MFE -33.26
Energy contribution -33.46
Covariance contribution 0.20
Combinations/Pair 1.34
Mean z-score -1.56
Structure conservation index 0.73
SVM decision value -0.04
SVM RNA-class probability 0.513949
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9508900 120 - 27905053
UUUUCUGCCGCCUUAGUGUGGCCAGGUGGCGGCGGAUUCCAAAUGCCUGCAGUUGUGCCCCGUCGUUUUGGUAUUCCGAGUGAAAGACGCAGCGACCCGCUGCUGCGAUGCAUUUGCUCA
...(((((((((...............)))))))))...(((((((.((((((.(((....((((((((((....))))(((.....))))))))).))).))))))..))))))).... ( -45.36)
>DroSec_CAF1 138599 120 - 1
UUUUCUGCCGCUUCAGUGUGGCCAGGUGACGGCAGAUUCUAAAUGCACGCAGUUGUCCCCAGUCGUUUUGGUAUUCCGAGUGGAAGACUCGGCGACCCUCUGCUGCGAUGCAUUUGCUCA
...(((((((((.......)))..(....)))))))...((((((((((((((.(((((.((((..(((((....))))).....)))).)).))).....)))))).)))))))).... ( -45.60)
>DroSim_CAF1 128738 120 - 1
UUUUCUGCCGCUUUAGUGUGGCCAGGUGGCGGCUGAUUCCAAAUGCACGCAGUUGUCCCCAGUCGUUUUGGUAUUCCGAGUGGAAGACUCGGCGACCCUCUGCUGCGAUGCAUUUGCUCA
...((.((((((....((....))...)))))).))...((((((((((((((.(((((.((((..(((((....))))).....)))).)).))).....)))))).)))))))).... ( -44.10)
>DroEre_CAF1 146433 120 - 1
AUUCCUGCCGUUGCAGUGUGACCAGGUGGCGAUGGACUCCAAAUGGGCGCCGUUGUCCCUCGUCGCUGUGGUAUUCCGAGUGGAAGACGCGGCGACCCAUUGCUGCGAUGCAUUUGCUCA
.....(((.(((((((((((...(((.((((((((..(((....)))..))))))))))).(((((((((...((((....))))..))))))))).)).))))))))))))........ ( -51.10)
>DroYak_CAF1 140200 118 - 1
AUUUUUGCCGCUAAAGUGUGGCCAGGUGGUGGCGGACUCUAAAUGCGUGCCGUUGUAC--CGUUGUUUUGGUAUUCCGAGUGGAAGACGCGGCGACCCAUUGCUGCGAUGCAUUUGCUCA
...((((((((((...((....))..))))))))))...(((((((((((((..((((--((......))))))..)).))......((((((((....))))))))))))))))).... ( -41.90)
>consensus
UUUUCUGCCGCUUCAGUGUGGCCAGGUGGCGGCGGAUUCCAAAUGCACGCAGUUGUCCCCCGUCGUUUUGGUAUUCCGAGUGGAAGACGCGGCGACCCACUGCUGCGAUGCAUUUGCUCA
...(((((((((...............)))))))))...((((((((((((((........((((((.((...((((....))))..)).)))))).....)))))).)))))))).... (-33.26 = -33.46 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:03 2006