Locus 12303

Sequence ID dm3.chr3R
Location 27,236,196 – 27,236,263
Length 67
Max. P 0.961562
window16914

overview

Window 4

Location 27,236,196 – 27,236,263
Length 67
Sequences 7
Columns 68
Reading direction reverse
Mean pairwise identity 66.81
Shannon entropy 0.68341
G+C content 0.31729
Mean single sequence MFE -11.47
Consensus MFE -4.54
Energy contribution -5.90
Covariance contribution 1.35
Combinations/Pair 1.60
Mean z-score -1.76
Structure conservation index 0.40
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.70
SVM RNA-class probability 0.961562
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 27236196 67 - 27905053
CUCGUCAAU-CAAAUGAUUCUAUAUAUGUCGCUGGCUUUUAUAGGUUCUAUCUAUGACAUAAUUUAUG
...((((..-.....((..(((((...((.....))...)))))..))......)))).......... ( -10.82, z-score =  -1.58, R)
>droSim1.chr3R 26871581 67 - 27517382
CUCGUCAAU-CAAAUGAAUCUAUAUAUGUCGCUGGCUUUUAUAGGUUCUAUCUAUGACAUAAUUUAUG
...((((..-.....(((((((((...((.....))...)))))))))......)))).......... ( -14.72, z-score =  -3.39, R)
>droSec1.super_4 6041341 67 - 6179234
CUCGUCAAU-CAAAUGAUUCUAUAUAUGUCGCUGGCUUUUAUAGGUUCUAUCUAUGACAUAAUUUAUG
...((((..-.....((..(((((...((.....))...)))))..))......)))).......... ( -10.82, z-score =  -1.58, R)
>droYak2.chr3R 28167818 67 - 28832112
CUCGUCAAU-CAAAUGAUUCUAUAUAUGUAAGCAGCUUUUAUAGGGUCUAUCUAUGACAUAAUUUAUG
...((((..-.....(((((((((...((.....))...)))))))))......)))).......... ( -13.12, z-score =  -2.24, R)
>droEre2.scaffold_4820 9724430 67 + 10470090
CUCGUCAAU-CAAAUGAUUCUAUAUAUGUCAGUAGUUUUUAUAGGGUCUAUCUAUGACAUAAUUUAUG
...((((..-.....(((((((((...............)))))))))......)))).......... ( -11.18, z-score =  -1.40, R)
>dp4.chr2 4436252 54 - 30794189
CUCAUCAAU-CAAA-GAGUCUGGCAGUCCAACGAGCUAUCAAAAACACGAUUAUCG------------
......(((-(...-..((.(((....)))))((....))........))))....------------ (  -3.70, z-score =   0.67, R)
>droVir3.scaffold_13047 12639684 66 - 19223366
-UUUUCGAUACGUAUGAAUGAAUGCUAGUAA-AAUUUAUUAGUAUCUCAGCGUGUAUGUUAUUUUGAA
-..(((((.(((((((..((((((((((((.-....))))))))).)))...)))))))....))))) ( -15.90, z-score =  -2.82, R)
>consensus
CUCGUCAAU_CAAAUGAUUCUAUAUAUGUCACUAGCUUUUAUAGGUUCUAUCUAUGACAUAAUUUAUG
...((((........(((((((((...((.....))...)))))))))......)))).......... ( -4.54 =  -5.90 +   1.35)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:59:35 2011