Locus 2083

Sequence ID 3R_DroMel_CAF1
Location 5,930,235 – 5,930,334
Length 99
Max. P 0.722840
window3404

overview

Window 4

Location 5,930,235 – 5,930,334
Length 99
Sequences 4
Columns 99
Reading direction reverse
Mean pairwise identity 84.51
Mean single sequence MFE -41.47
Consensus MFE -29.35
Energy contribution -32.48
Covariance contribution 3.12
Combinations/Pair 1.10
Mean z-score -1.77
Structure conservation index 0.71
SVM decision value 0.40
SVM RNA-class probability 0.722840
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5930235 99 - 27905053
GCGGACGUGGUGGUGGCGGUCCUGGAGGUGGCAAUGGCCUGAACCAGCGCUACCACAACAAUCGCCGCGACGAGGAUGACUACAACUCGCGGGGCGAUC
......((.(((((((((...((((....(((....)))....))))))))))))).)).((((((.((.((((...........)))))).)))))). ( -45.90)
>DroGri_CAF1 53913 87 - 1
GUGGUCGUGGCGG------------CGGUGGCAACAAUAUGAAUCAGCGCUACCACAACAAUCGGCGCGACGACGAAGAUUACAAUUCCCGCGGCGAUC
..((((((.((((------------.((((((................)))))).....((((..((......))..)))).......)))).)))))) ( -28.39)
>DroSec_CAF1 43937 99 - 1
GCGGUCGUGGUGGUGGCGGUCCUGGAGGCGGCAAUGGCCUGAACCAGCGCUACCACAACAAUCGCCGCGACGAGGAUGACUACAACUCGCGGGGCGAUC
......((.(((((((((...((((((((.......))))...))))))))))))).)).((((((.((.((((...........)))))).)))))). ( -45.80)
>DroSim_CAF1 32225 99 - 1
GCGGACGUGGUGGUGGCGGUCCUGGAGGCGGCAAUGGCCUGAACCAGCGCUACCACAACAAUCGCCGCGACGAGGAUGACUACAACUCGCGGGGCGAUC
......((.(((((((((...((((((((.......))))...))))))))))))).)).((((((.((.((((...........)))))).)))))). ( -45.80)
>consensus
GCGGACGUGGUGGUGGCGGUCCUGGAGGCGGCAAUGGCCUGAACCAGCGCUACCACAACAAUCGCCGCGACGAGGAUGACUACAACUCGCGGGGCGAUC
......((.(((((((((...((((((((.......))))...))))))))))))).)).((((((.((.((((...........)))))).)))))). (-29.35 = -32.48 +   3.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:56 2006