Locus 4539

Sequence ID 3R_DroMel_CAF1
Location 12,042,289 – 12,042,379
Length 90
Max. P 0.743970
window7412

overview

Window 2

Location 12,042,289 – 12,042,379
Length 90
Sequences 5
Columns 91
Reading direction reverse
Mean pairwise identity 85.71
Mean single sequence MFE -33.84
Consensus MFE -21.78
Energy contribution -24.98
Covariance contribution 3.20
Combinations/Pair 1.00
Mean z-score -2.35
Structure conservation index 0.64
SVM decision value 0.46
SVM RNA-class probability 0.743970
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12042289 90 - 27905053
G-UUGCGGGCAGCGGGUGGACGGGCGUUAAGCCAUCAUUGCCUUCGAGGUGUCAUCGCAUCUCACCUGCUGCCUGCGAGCCCCGAAAACUU
.-(((((((((((((((((...(((.....))).......))...(((((((....))))))))))))))))))))))............. ( -43.30)
>DroSec_CAF1 13640 75 - 1
----------------UGGACGGGCGUUAAGCCAUCAUUGCCUUCGAGGUGUCAUCGCAUCUCACCUGCUGCCUGCGAACCCCGAAAACUU
----------------....((((.(((.................(((((((....)))))))...(((.....))))))))))....... ( -19.30)
>DroSim_CAF1 13521 91 - 1
CUGUGCGGGCAGCGGGUGAACGGGCGUUAAGCCAUCAUUGCCUUCGAGGUGUCAUCGCAUCUCACCUGCUGCCUGCGAACCCCGAAAACUU
...((((((((((((((((...(((.....))).)).........(((((((....))))))))))))))))))))).............. ( -41.60)
>DroEre_CAF1 12831 86 - 1
A-UUGCGGGCAGCC----GACGGACGCAAAGCCAUCAUUGCCUUCGAGGUGUCAUCGCAACUCACCUGCUGCCUGCGAACCCCGAAAACUU
.-(((((((((((.----..((((.((((........)))).))))(((((...........))))))))))))))))............. ( -32.70)
>DroYak_CAF1 13081 86 - 1
G-UUGCGGGCAGCG----GACGGACGGAAAGCCAUCAGUGCCUUCGAGGUGUCAUCGCAACUCACCUGCUGCCUGCGAACCCCGAAAACUU
.-((((((((((((----(..(((.((...((.....)).)))))(((.(((....))).)))..)))))))))))))............. ( -32.30)
>consensus
G_UUGCGGGCAGCG__UGGACGGGCGUUAAGCCAUCAUUGCCUUCGAGGUGUCAUCGCAUCUCACCUGCUGCCUGCGAACCCCGAAAACUU
..(((((((((((.........(((.....)))............(((((((....)))))))....)))))))))))............. (-21.78 = -24.98 +   3.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:48 2006