Locus 5172

Sequence ID dm3.chr2R
Location 18,294,443 – 18,294,522
Length 79
Max. P 0.715588
window7099

overview

Window 9

Location 18,294,443 – 18,294,522
Length 79
Sequences 5
Columns 79
Reading direction forward
Mean pairwise identity 86.02
Shannon entropy 0.23954
G+C content 0.42141
Mean single sequence MFE -19.86
Consensus MFE -11.92
Energy contribution -13.32
Covariance contribution 1.40
Combinations/Pair 1.17
Mean z-score -2.40
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.49
SVM RNA-class probability 0.715588
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 18294443 79 + 21146708
UCCGAGAAAUAGAUACCACACAAACAGAUACCAAGCUCAUUUUUAUCCGUGUAGCCUAAUCUGCGCGUGUGUUCGGAAG
((((((..........(((((...(((((.....((((((........))).)))...)))))...))))))))))).. ( -18.40, z-score =  -2.23, R)
>droSim1.chr2R 16894238 77 + 19596830
UCCGAGAAAUAGAUACAACACAAACAGAUACCAAGCUCAUUUUUAUCCGUGUAGCUUAAUCUGC--GUGUGUUCGAAAG
................((((((..(((((...((((((((........))).))))).))))).--.))))))...... ( -17.50, z-score =  -2.75, R)
>droSec1.super_9 1602454 77 + 3197100
UCCGAGAAAUAGAUACAACACAAACAGAUACGAAGCUCAUUUUUAUCCGUGUAGCUUAAUCUGC--GUGUGUUCGGAAG
(((((............(((((..(((((...((((((((........))).))))).))))).--.)))))))))).. ( -22.50, z-score =  -3.61, R)
>droYak2.chr2R 18044115 78 + 21139217
UCCCUGAAAUAGAUACAACACAAACAGAUAUCGAGCGCACUUUUAUCCGUGUAGCUUAAUCUGCGUGUGUGUCGGGAG-
((((.......((((((.(((...(((((...((((((((........)))).)))).))))).))))))))))))).- ( -24.41, z-score =  -3.08, R)
>droEre2.scaffold_4845 12434862 78 + 22589142
UCCGUGAAAAAGAUACAACGCAAACAGAUAUCGUUAGCAUUUUUAUCCGUGUAGCUUAAUCUGCGUGUGUGUCGGGUG-
(((.(....).((((((.(((...(((((...((((.(((........)))))))...))))).))))))))))))..- ( -16.50, z-score =  -0.31, R)
>consensus
UCCGAGAAAUAGAUACAACACAAACAGAUACCAAGCUCAUUUUUAUCCGUGUAGCUUAAUCUGCG_GUGUGUUCGGAAG
(((((............(((((..(((((...((((((((........))).))))).)))))....)))))))))).. (-11.92 = -13.32 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:43:14 2011