Locus 5016

Sequence ID 3R_DroMel_CAF1
Location 13,230,683 – 13,230,803
Length 120
Max. P 0.594028
window8199

overview

Window 9

Location 13,230,683 – 13,230,803
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.00
Mean single sequence MFE -31.46
Consensus MFE -24.78
Energy contribution -24.58
Covariance contribution -0.20
Combinations/Pair 1.28
Mean z-score -1.54
Structure conservation index 0.79
SVM decision value 0.12
SVM RNA-class probability 0.594028
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13230683 120 - 27905053
UCAUUAAUUUUCUUAUUCUUGGGUGGUAUUUUCCAUCUCAAUGAAGCCCAGACAACGGAUUGUUCGAAUUCGUGUAUUUUUCGAGCAAGAUGCACUCCCUACUACAAGGAUUUGGUCUGG
...............(((((((((((......))))).))).)))..((((((..((..(((((((((...........)))))))))..)).....(((......))).....)))))) ( -31.20)
>DroSec_CAF1 259355 120 - 1
UCAAUAAUUUUAUUUUUCUUGGGUGGUAUUAUCCAUCUCAAUGAAGCCCAGACAACGGAUUGUUCGAAUUCGUGUAUGCUUCGAGCAAGAUGCACUCCUUACUACAAGGAUCUGGUCUGG
..............((((((((((((......))))).))).)))).((((((..(((((((((((((...((....))))))))))).......(((((.....))))))))))))))) ( -32.90)
>DroSim_CAF1 244835 120 - 1
UCAUUUAUUUUCUUUUUCUUGGGUGGUAUUAUCCAUCUCAAUGAAGCCCAGACAACGGAUUGUUCGAAUUCGUGUAUGCUUCGAGCAAGAUGCACUCCUUACUACAAGGAUCUGGUCUGG
..............((((((((((((......))))).))).)))).((((((..(((((((((((((...((....))))))))))).......(((((.....))))))))))))))) ( -32.90)
>DroEre_CAF1 249176 120 - 1
UCCUUACUUUUUGUUCUCUUGGGUUGUAUUAUUCAUCUCAAUGAAGCUCAGACCACAAAUUGCUCGAAUUCGUGUAUGUUGCGAGCCAAAUGCAAUCCCUACUAUAAGGAUCUGGUCUGG
............(((.(((((((.((.......)).))))).))))).(((((((...(((((.....((((((.....))))))......))))).(((......)))...))))))). ( -25.80)
>DroYak_CAF1 259944 120 - 1
UCCUUACUCUUCGUCCUUUUGGGUGGUAUUAUCAGUCUCACUGAGGCUCAGACAACAGAUUGCUCGAAUACGUGUAUGUUUCGAGCCAGAUGCACUCCCUACUAUAAGGAUCUGGUCUGG
.((..(((....((((((..(((.((((((.((((.....))))((((((((((......(((.((....)).)))))))).))))).))))).).)))......))))))..)))..)) ( -34.50)
>consensus
UCAUUAAUUUUCUUUUUCUUGGGUGGUAUUAUCCAUCUCAAUGAAGCCCAGACAACGGAUUGUUCGAAUUCGUGUAUGUUUCGAGCAAGAUGCACUCCCUACUACAAGGAUCUGGUCUGG
..............((((((((((((......))).))))).)))).((((((..((..(((((((((...........)))))))))..)).....(((......))).....)))))) (-24.78 = -24.58 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:21 2006