Locus 5611

Sequence ID dm3.chr3LHet
Location 2,047,049 – 2,047,113
Length 64
Max. P 0.764200
window7706 window7707

overview

Window 6

Location 2,047,049 – 2,047,113
Length 64
Sequences 5
Columns 65
Reading direction forward
Mean pairwise identity 66.92
Shannon entropy 0.60348
G+C content 0.43858
Mean single sequence MFE -14.52
Consensus MFE -7.58
Energy contribution -8.86
Covariance contribution 1.28
Combinations/Pair 1.27
Mean z-score -0.97
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.62
SVM RNA-class probability 0.764200
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3LHet 2047049 64 + 2555491
GAGAUAGGCGCCCUAUCGAUGGUCAACU-GUUCACGAGACUUAUCGAUAGGACGUGUUGUAAUCG
((....((((((((((((((((((....-........))).))))))))))..)))))....)). ( -21.50, z-score =  -2.44, R)
>droSim1.chrU 10617183 64 - 15797150
GAAAUAGGCGCCCUAUCGAUGGUCAACU-GUUCCCGAGACUUAUCGAUAUGACGAGUUGUAAUCG
...(((((...)))))((((...(((((-(((..(((......)))....))).)))))..)))) ( -12.70, z-score =  -0.07, R)
>droSec1.super_74 143438 63 + 162789
AAAAUAGGCGCCCUAUCGAUGGUCAACG-GUUCACGAGACUUAUCGAUAUGACGAGUU-UAAUCG
....(((((..(.(((((((((((..((-.....)).))).)))))))).)....)))-)).... ( -13.80, z-score =  -0.51, R)
>droYak2.chrU 27751680 65 - 28119190
GAAAUGAGCGCCUUAUCCAUGGUUAACUUGUUUACGAUACUAAUCGAUAGGACGGUUUGUAUUUG
.(((..((.(((........)))...))..)))..(((((.(((((......))))).))))).. ( -12.40, z-score =  -0.80, R)
>droAna3.scaffold_13469 689026 56 + 871550
--------CAGUCUCUCGUUAGACAUUAGAGUUUAAGGUGUGAUC-AUUGGUCGUGCUGGAAUUU
--------..((((......))))....((((((..((..((((.-....))))..)).)))))) ( -12.20, z-score =  -1.00, R)
>consensus
GAAAUAGGCGCCCUAUCGAUGGUCAACU_GUUCACGAGACUUAUCGAUAGGACGAGUUGUAAUCG
........((.(((((((((((((.............)))).))))))))).))........... ( -7.58 =  -8.86 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 2,047,049 – 2,047,113
Length 64
Sequences 5
Columns 65
Reading direction reverse
Mean pairwise identity 66.92
Shannon entropy 0.60348
G+C content 0.43858
Mean single sequence MFE -11.92
Consensus MFE -5.68
Energy contribution -7.00
Covariance contribution 1.32
Combinations/Pair 1.14
Mean z-score -0.87
Structure conservation index 0.48
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.04
SVM RNA-class probability 0.515250
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3LHet 2047049 64 - 2555491
CGAUUACAACACGUCCUAUCGAUAAGUCUCGUGAAC-AGUUGACCAUCGAUAGGGCGCCUAUCUC
...........((((((((((((..(((..(....)-....))).))))))))))))........ ( -20.40, z-score =  -3.11, R)
>droSim1.chrU 10617183 64 + 15797150
CGAUUACAACUCGUCAUAUCGAUAAGUCUCGGGAAC-AGUUGACCAUCGAUAGGGCGCCUAUUUC
...........((((.(((((((..(((..(....)-....))).))))))).))))........ ( -14.00, z-score =  -0.58, R)
>droSec1.super_74 143438 63 - 162789
CGAUUA-AACUCGUCAUAUCGAUAAGUCUCGUGAAC-CGUUGACCAUCGAUAGGGCGCCUAUUUU
......-....((((.(((((((..(((.((.....-))..))).))))))).))))........ ( -14.60, z-score =  -0.97, R)
>droYak2.chrU 27751680 65 + 28119190
CAAAUACAAACCGUCCUAUCGAUUAGUAUCGUAAACAAGUUAACCAUGGAUAAGGCGCUCAUUUC
...........((((.((((.((...((.(........).))...)).)))).))))........ (  -7.50, z-score =  -0.20, R)
>droAna3.scaffold_13469 689026 56 - 871550
AAAUUCCAGCACGACCAAU-GAUCACACCUUAAACUCUAAUGUCUAACGAGAGACUG--------
...................-.....................((((......))))..-------- (  -3.10, z-score =   0.53, R)
>consensus
CGAUUACAACACGUCCUAUCGAUAAGUCUCGUGAAC_AGUUGACCAUCGAUAGGGCGCCUAUUUC
...........((((.(((((((..(((.............))).))))))).))))........ ( -5.68 =  -7.00 +   1.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:51:44 2011