Locus 11299

Sequence ID dm3.chr3R
Location 20,131,340 – 20,131,459
Length 119
Max. P 0.882690
window15529 window15530

overview

Window 9

Location 20,131,340 – 20,131,440
Length 100
Sequences 7
Columns 121
Reading direction reverse
Mean pairwise identity 63.07
Shannon entropy 0.64861
G+C content 0.41788
Mean single sequence MFE -18.31
Consensus MFE -8.45
Energy contribution -9.38
Covariance contribution 0.93
Combinations/Pair 1.44
Mean z-score -1.14
Structure conservation index 0.46
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.81
SVM RNA-class probability 0.823380
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 20131340 100 - 27905053
--------ACCUCUAUUCAGUUAGCCAGCACAAUUACUUAACAUGCAUUACUUAACCCUCGUGAUGUGAUUCACUUCCAUGUGCUUU-GCUGCAUGGCACGAUUGUCCA------------
--------.........(((((.((((((((((...........(((((((.........)))))))....(((......)))..))-).))).))))..)))))....------------ ( -19.80, z-score =  -0.81, R)
>dp4.chrXL_group1e 2563236 118 - 12523060
UACUCUAGAUCGAUAUAUAUCUGAUUAAUACAGAUAUACAA-AAAUAAUGCUUAUCAUAUAUAAAAUCAUAUACAUAUAUAAGAUCA-UCUGC-UUAUGUAUUCCUAUAGGACCUUCUCUG
.....(((((.(((.((((((((.......))))))))...-........(((((.((((.((........)).)))))))))))))-))))(-(((((......)))))).......... ( -15.70, z-score =  -0.06, R)
>droAna3.scaffold_13088 169468 89 - 569066
-----------CCGUCCCAAUUAGCGGGCACAAU---------UGCAUUACUCAACCCUCGUGAUGUGAUUCACUCCCAUUCGAUUCGGCAACAUUUCACGUUUGUUUA------------
-----------.......(((.((((((...(((---------..((((((.........))))))..)))....)))....((...(....)...))..))).)))..------------ ( -16.50, z-score =  -0.48, R)
>droYak2.chr3R 2457734 78 + 28832112
--------GCCUCUAUUCAGUUAGCCAGCACAAU---------UGCAUUACUUAACCCUCGUGCUGUGAUUCACAUCCAUGUGCUUU-GCUGUCCA-------------------------
--------.............((((.((((((..---------.((((............))))((((...))))....))))))..-))))....------------------------- ( -14.10, z-score =  -0.64, R)
>droEre2.scaffold_4820 2540551 91 + 10470090
--------CCCUCUAUUUAGUUAGCCAGCACAAU---------UGCAUUACUUAACCCUCGUGAUGUGAUUCACUUCCAUGUGCUGU-GCUGCAUUUCACGUUUGUUCA------------
--------...........((.((((((((((((---------..((((((.........))))))..)).........))))))).-)))))................------------ ( -22.50, z-score =  -3.08, R)
>droSec1.super_0 20469873 91 - 21120651
--------CCCUCUAUUUAGUUAGCCAGCACAAU---------UGCAUUACUUAACCCUCGUGAUGUGAUUCACUUCCAUGUGCUUU-GCUGCAUUGCACGAUUGUCCA------------
--------.........((((((((.((((((((---------..((((((.........))))))..)).........))))))..-)))).))))............------------ ( -18.00, z-score =  -1.28, R)
>droSim1.chr3R 19965941 91 - 27517382
--------CCCUCUAUUCAGUUAGCAAGCACAAU---------UGCAUUACUUAGCCCUCGUGAUGUGAUUCACUUCCAUGUGCUUU-GCUGCAUUGCACGAUUGUCCA------------
--------.........(((((((((((((((((---------..((((((.........))))))..)).........))))).))-)))).))))............------------ ( -21.60, z-score =  -1.65, R)
>consensus
________CCCUCUAUUCAGUUAGCCAGCACAAU_________UGCAUUACUUAACCCUCGUGAUGUGAUUCACUUCCAUGUGCUUU_GCUGCAUUGCACGAUUGUCCA____________
.....................((((.((((((...........((((((((.........))))))))...........))))))...))))............................. ( -8.45 =  -9.38 +   0.93)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 20,131,354 – 20,131,459
Length 105
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 82.21
Shannon entropy 0.32227
G+C content 0.43965
Mean single sequence MFE -18.25
Consensus MFE -12.39
Energy contribution -12.95
Covariance contribution 0.56
Combinations/Pair 1.11
Mean z-score -2.01
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.06
SVM RNA-class probability 0.882690
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 20131354 105 - 27905053
UCAUCUCUACCCAUUUUCUACCUCUAUUCAGUUAGCCAGCACAAUUACUUAACAUGCAUUACUUAACCCUCGUGAUGUGAUUCACUUCCAUGUGCUUU-GCUGCAU
..............................((.(((.((((((............(((((((.........)))))))((......))..))))))..-))))).. ( -16.50, z-score =  -2.05, R)
>droAna3.scaffold_13088 169482 93 - 569066
---CCGUCACUCCGUUUCUCACCGU-CCCAAUUAGCGGGCACAAU---------UGCAUUACUCAACCCUCGUGAUGUGAUUCACUCCCAUUCGAUUCGGCAACAU
---........(((..((.....((-(((.......))).))(((---------..((((((.........))))))..)))...........))..)))...... ( -19.00, z-score =  -1.35, R)
>droYak2.chr3R 2457738 93 + 28832112
UCAUCAUUACCCCUUUUCUGCCUCUAUUCAGUUAGCCAGCACAAU---------UGCAUUACUUAACCCUCGUGCUGUGAUUCACAUCCAUGUGCUUU-GCUG---
................................((((.((((((..---------.((((............))))((((...))))....))))))..-))))--- ( -13.50, z-score =  -0.98, R)
>droEre2.scaffold_4820 2540565 96 + 10470090
UCAUCAUUACCCAUUUUCUCCCUCUAUUUAGUUAGCCAGCACAAU---------UGCAUUACUUAACCCUCGUGAUGUGAUUCACUUCCAUGUGCUGU-GCUGCAU
..............................((.((((((((((((---------..((((((.........))))))..)).........))))))).-))))).. ( -22.50, z-score =  -3.98, R)
>droSec1.super_0 20469887 96 - 21120651
UCAUCACUGCCCAUGUUCUCCCUCUAUUUAGUUAGCCAGCACAAU---------UGCAUUACUUAACCCUCGUGAUGUGAUUCACUUCCAUGUGCUUU-GCUGCAU
..............................((.(((.((((((((---------..((((((.........))))))..)).........))))))..-))))).. ( -17.90, z-score =  -1.61, R)
>droSim1.chr3R 19965955 96 - 27517382
UCAUCACUGCCCAUUUUCUCCCUCUAUUCAGUUAGCAAGCACAAU---------UGCAUUACUUAGCCCUCGUGAUGUGAUUCACUUCCAUGUGCUUU-GCUGCAU
..............................((.((((((((((((---------..((((((.........))))))..)).........))))).))-))))).. ( -20.10, z-score =  -2.12, R)
>consensus
UCAUCACUACCCAUUUUCUCCCUCUAUUCAGUUAGCCAGCACAAU_________UGCAUUACUUAACCCUCGUGAUGUGAUUCACUUCCAUGUGCUUU_GCUGCAU
................................((((.((((((...........((((((((.........))))))))...........))))))...))))... (-12.39 = -12.95 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:40:15 2011