Locus 4191

Sequence ID dm3.chr2R
Location 11,105,810 – 11,105,861
Length 51
Max. P 0.891616
window5745 window5746

overview

Window 5

Location 11,105,810 – 11,105,861
Length 51
Sequences 5
Columns 56
Reading direction forward
Mean pairwise identity 67.84
Shannon entropy 0.56634
G+C content 0.34412
Mean single sequence MFE -10.96
Consensus MFE -4.37
Energy contribution -5.37
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.63
Structure conservation index 0.40
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.43
SVM RNA-class probability 0.690231
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 11105810 51 + 21146708
ACAUCGAUGAU-----UCCUCGAAAACAUCGAUGAAUGCGAUUUUUUGAAAACAUU
.((((((((.(-----(......)).))))))))...................... (  -9.80, z-score =  -1.24, R)
>droSim1.chr2R 9844261 52 + 19596830
ACAUCGAUGGUU----CCUUAAAAAGGAUCGAUUAUUGUGAUUUUUCGAAAACAUC
.....((((..(----(((.....))))((((..(.......)..))))...)))) (  -8.10, z-score =   0.03, R)
>droSec1.super_1 8599197 51 + 14215200
ACAACGAUGAUU----CCUUGAAAAACAUCGAUUAUUGUGAUUUU-CGAACACAGC
....(((((...----..........)))))....(((((.....-....))))). (  -5.92, z-score =  -0.02, R)
>droYak2.chr4 884476 56 + 1374474
ACAUCGAUGUUAUGAACUUCCAUAAACAUCAAUGUUAGCGAUGAUUGAAAAACAUU
.(((((((((((((......))).))))))...(....)))))............. ( -10.40, z-score =  -1.86, R)
>droAna3.scaffold_3805 8894 52 - 10702
ACAUCGAUGUU---GGCUUGC-CAAACAUCGAUGUCAACGAUGUUUUCAAAACAUC
(((((((((((---((....)-).)))))))))))....((((((.....)))))) ( -20.60, z-score =  -5.06, R)
>consensus
ACAUCGAUGAU_____CCUUCAAAAACAUCGAUGAUUGCGAUUUUUCGAAAACAUC
.((((((((.................))))))))...................... ( -4.37 =  -5.37 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 11,105,810 – 11,105,861
Length 51
Sequences 5
Columns 56
Reading direction reverse
Mean pairwise identity 67.84
Shannon entropy 0.56634
G+C content 0.34412
Mean single sequence MFE -12.56
Consensus MFE -5.25
Energy contribution -5.89
Covariance contribution 0.64
Combinations/Pair 1.12
Mean z-score -1.86
Structure conservation index 0.42
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.10
SVM RNA-class probability 0.891616
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 11105810 51 - 21146708
AAUGUUUUCAAAAAAUCGCAUUCAUCGAUGUUUUCGAGGA-----AUCAUCGAUGU
......................((((((((.(((....))-----).)))))))). ( -11.60, z-score =  -1.38, R)
>droSim1.chr2R 9844261 52 - 19596830
GAUGUUUUCGAAAAAUCACAAUAAUCGAUCCUUUUUAAGG----AACCAUCGAUGU
((((...((((.............))))((((.....)))----)..))))..... (  -7.72, z-score =  -0.39, R)
>droSec1.super_1 8599197 51 - 14215200
GCUGUGUUCG-AAAAUCACAAUAAUCGAUGUUUUUCAAGG----AAUCAUCGUUGU
..((((....-.....))))((((.(((((..(((....)----)).))))))))) (  -7.70, z-score =  -0.20, R)
>droYak2.chr4 884476 56 - 1374474
AAUGUUUUUCAAUCAUCGCUAACAUUGAUGUUUAUGGAAGUUCAUAACAUCGAUGU
.....................(((((((((((.((((....))))))))))))))) ( -13.50, z-score =  -2.51, R)
>droAna3.scaffold_3805 8894 52 + 10702
GAUGUUUUGAAAACAUCGUUGACAUCGAUGUUUG-GCAAGCC---AACAUCGAUGU
((((((.....))))))....(((((((((((.(-(....))---))))))))))) ( -22.30, z-score =  -4.84, R)
>consensus
GAUGUUUUCAAAAAAUCGCAAUCAUCGAUGUUUUUGAAGG_____AACAUCGAUGU
......................((((((((.................)))))))). ( -5.25 =  -5.89 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:24:29 2011