Locus 9474

Sequence ID	dm3.chr3R
Location	6,883,865 – 6,883,963
Length	98
Max. P	0.775377

overview

Window 1

Location	6,883,865 – 6,883,963
Length	98
Sequences	10
Columns	101
Reading direction	forward
Mean pairwise identity	95.04
Shannon entropy	0.10597
G+C content	0.43473
Mean single sequence MFE	-22.27
Consensus MFE	-20.77
Energy contribution	-20.49
Covariance contribution	-0.28
Combinations/Pair	1.17
Mean z-score	-1.46
Structure conservation index	0.93
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.65
SVM RNA-class probability	0.775377
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 6883865 98 + 27905053
CGGACGACAAAGCGUGUGACAGCAUUUUGCAUACGCUGAUGAAUCCAUCAUCUUUACUCAACGUCACAUCAUCAAAUCCGCAGCGCUUAGUUAUACUU---
..((((....((((((((.(((....)))))))))))(((((.....))))).........))))................(((.....)))......--- ( -21.80, z-score =  -1.25, R)
>droSim1.chr3R 13038871 98 - 27517382
CGGACGACAAAGCGUGUGACAGCAUUUUGCAUACGCUGAUGAAUCCAUCAUCUUUACUCAACGUCACAUCAUCAAAUCCGCAGCGCUUAGUUAUACUU---
..((((....((((((((.(((....)))))))))))(((((.....))))).........))))................(((.....)))......--- ( -21.80, z-score =  -1.25, R)
>droSec1.super_0 6046061 98 - 21120651
CGGACGACAAAGCGUGUGACAGCAUUUUGCAUACGCUGAUGAAUCCAUCAUCUUUACUCAACGUCACAUCAUCAAAUCCGCAGCGCUUAGUUAUACUU---
..((((....((((((((.(((....)))))))))))(((((.....))))).........))))................(((.....)))......--- ( -21.80, z-score =  -1.25, R)
>droYak2.chr3R 10919081 98 + 28832112
CGGACGACAAAGCGUGUGACAGCAUUUUGCAUACGCUGAUGAAUCCAUCAUCUUUACUCAACGUCACAUCAUCAAAUCCGCAGCGCUUAGUUAUACUU---
..((((....((((((((.(((....)))))))))))(((((.....))))).........))))................(((.....)))......--- ( -21.80, z-score =  -1.25, R)
>droEre2.scaffold_4770 3018796 98 - 17746568
CGGACGACAAAGCGUGUGACAGCAUUUUGCAUACGCUGAUGAAUCCAUCAUCUUUACUCAACGUCACAUCAUCAAAUCCGCAGCGCUUAGUUUUACUU---
..((((....((((((((.(((....)))))))))))(((((.....))))).........)))).................................--- ( -21.60, z-score =  -1.20, R)
>droAna3.scaffold_13340 11450592 98 - 23697760
CGGACGACAAAGCGUGGGACAGCAUUUUGCAUACGCUGAUGAAUCCAUCAUCUUUACUCAACGUCACAUCAUCAAAUCCACAGCGCUUAGUUAUACUU---
.....(((.((((((.(((..((.....))....(.(((((....))))).)........................)))...)))))).)))......--- ( -19.90, z-score =  -1.15, R)
>droWil1.scaffold_181130 7612023 98 + 16660200
CUGAGGACAAAGCGUGUGACAGCAUUUUGCAUACGCUGAUGAAUCCAUCAUCUUUACUCAACGUCACAUCAUCAAAUCCGCAACGCUUAGUUAUACUU---
.(((.(((..((((((((.(((....)))))))))))(((((.....)))))..........)))...)))..........(((.....)))......--- ( -21.60, z-score =  -1.57, R)
>droVir3.scaffold_13047 14213935 97 - 19223366
-CGGCGACAAAGCGUGUGACAGCAUUUUGCAUACGCUGAUGAAUCCAUCAUCUUUACUCAACGUCACAUCAUCAAAUCCGUGGCGUUUAGUUUUACUU---
-.(....)..((((((((.(((....)))))))))))(((((.....)))))...(((.((((((((............)))))))).))).......--- ( -27.20, z-score =  -2.82, R)
>droMoj3.scaffold_6540 21418545 97 + 34148556
-CGACGACAAAGCGUGUGACAGCAUUUUGCAUACGCUGAUGAAUCCAUCAUCUUUACUCAAUGUCACAUCAUCAAAUCCGCGGCGCUUAGUUUGACUU---
-....((((.((((((((.(((....)))))))))))(((((.....))))).........))))......((((((..((...))...))))))...--- ( -23.30, z-score =  -1.05, R)
>droGri2.scaffold_14906 3755088 100 - 14172833
-CGACGACAAAGCGUGUGACAGCAUUUUGCAUACGCUGAUGAAUCCAUCAUCUUUACUCAACGUCACAUCAUCAAAUCCGCGGCUUUUAGUUCUACUUUAU
-.((((....((((((((.(((....)))))))))))(((((.....))))).........)))).................................... ( -21.90, z-score =  -1.82, R)
>consensus
CGGACGACAAAGCGUGUGACAGCAUUUUGCAUACGCUGAUGAAUCCAUCAUCUUUACUCAACGUCACAUCAUCAAAUCCGCAGCGCUUAGUUAUACUU___
..((((....((((((((.(((....)))))))))))(((((.....))))).........))))................(((.....)))......... (-20.77 = -20.49 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:05:04 2011