Locus 9008

Sequence ID dm3.chr3R
Location 3,379,703 – 3,379,819
Length 116
Max. P 0.634509
window12368

overview

Window 8

Location 3,379,703 – 3,379,819
Length 116
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 77.16
Shannon entropy 0.36256
G+C content 0.31893
Mean single sequence MFE -25.58
Consensus MFE -13.29
Energy contribution -13.22
Covariance contribution -0.06
Combinations/Pair 1.29
Mean z-score -2.02
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.30
SVM RNA-class probability 0.634509
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 3379703 116 + 27905053
UUCGGUUCAUUAUACCCUAGCACAGGGUAUUUUAAAGCCCCAAUAAUCCCGAAUUUAUUCCUGGAAAAAAAACCUAGAUAAUACAGUACAUAUAUAAUUAUGUUAUAUAGUGAUUG----
...((((....(((((((.....))))))).....)))).......(((.(((....)))..)))..................((((...((((((((...))))))))...))))---- ( -19.60, z-score =  -0.86, R)
>droSim1.chr3R 3432615 115 + 27517382
UUCGGUUCAUUAUACCCUAGCACAGGGUAUUCUCAAGACCCAAUAAUCCCGAAUUUAUUUCUAGGGUAAAUAC-UAGAUACUAUAGUACAUAUAUAAUUAUGUUAUAUAGUGAUUG----
...((((....(((((((.....)))))))......))))((((...............(((((........)-))))(((((((..(((((......)))))..)))))))))))---- ( -26.60, z-score =  -2.21, R)
>droSec1.super_6 3475918 115 + 4358794
UUUGGUUCAUUAUACCCUAGCACAGGGUAUUCUCAAGACCCAAUAAUCCCGAAUUUAUUUCUAGGGUAAAUAC-UAGAUACUAUAGUACAUAUAUAAUUAUGUUAUAUAGGGAUUG----
.((((.((...(((((((.....)))))))......)).))))(((((((.........(((((........)-))))...((((..(((((......)))))..)))))))))))---- ( -30.10, z-score =  -2.75, R)
>droYak2.chr3R_random 1037064 112 + 3277457
UUUGGUUCAUUAUACCCUAGAACGGGGUAGCGCAGAUAUUUCCCAAUCU-GCCUUUAUUCUCAGAGU-------UAAAAACAUUCGUUUAUAUAUAGCUAUGUUAUAUAGUGAUUGUUUC
.((..(((....((((((.....))))))..((((((........))))-))...........))).-------.))(((((.(((....((((((((...)))))))).))).))))). ( -26.00, z-score =  -2.25, R)
>consensus
UUCGGUUCAUUAUACCCUAGCACAGGGUAUUCUAAAGACCCAAUAAUCCCGAAUUUAUUCCUAGAGUAAAUAC_UAGAUACUAUAGUACAUAUAUAAUUAUGUUAUAUAGUGAUUG____
...((((....(((((((.....)))))))......))))...(((((.....(((((((...)))))))....................((((((((...))))))))..))))).... (-13.29 = -13.22 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:56:24 2011