Locus 10037

Sequence ID dm3.chr3R
Location 10,730,079 – 10,730,154
Length 75
Max. P 0.909307
window13792 window13793

overview

Window 2

Location 10,730,079 – 10,730,154
Length 75
Sequences 5
Columns 76
Reading direction forward
Mean pairwise identity 73.58
Shannon entropy 0.47721
G+C content 0.40172
Mean single sequence MFE -14.60
Consensus MFE -8.22
Energy contribution -9.42
Covariance contribution 1.20
Combinations/Pair 1.19
Mean z-score -1.73
Structure conservation index 0.56
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.20
SVM RNA-class probability 0.909307
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 10730079 75 + 27905053
CAUGGCCUCACACCAAUACUAAA-AACGAUAUCGACUUAGUAUCAGAAAUCGAUAUAAUUUAGCACCUUAGUGCAA
..(((.......))).......(-((..(((((((.((........)).)))))))..))).((((....)))).. ( -11.90, z-score =  -1.87, R)
>droEre2.scaffold_4770 10266189 76 + 17746568
CACGGGCUCACACCGAUUGCCUAAAUAGGUAUCGAUAAGAUAUACGCAAUCGACCUGAUUUAGCAUCUUAGUCCAC
...(((((.....(((((((((....))(((((.....)))))..)))))))....(((.....)))..))))).. ( -18.00, z-score =  -2.09, R)
>droYak2.chr3R 13134335 66 - 28832112
UAAGGGUUCACACCGAUGGCCGACAGAGGUAUCGAUAA----------AUCGAAAUGAUUUAGCAGCUUAGUGCAC
.....((.(((..(((((.((......))))))).(((----------(((.....))))))........))).)) ( -12.50, z-score =  -0.37, R)
>droSec1.super_0 9915386 75 - 21120651
CAUGGCCUCACACCAUUAGUCAA-AACGAUAUCGAUUUAGUAUCAGCAAUCGAUAUGAUUUAGCACAUUAGUGCAA
.((((.......)))).......-....(((((((((..((....)))))))))))......((((....)))).. ( -14.50, z-score =  -1.81, R)
>droSim1.chr3R 16786225 75 - 27517382
CAUGGCCUCACACCAUAAGUCAA-AACGAUAUCGAUUUAGUAUCAGCAAUCGAUAUGAUUUAGCACAUUAGUGCAA
..(((.......)))(((((((.-.....((((((((..((....)))))))))))))))))((((....)))).. ( -16.10, z-score =  -2.50, R)
>consensus
CAUGGCCUCACACCAAUAGUCAA_AACGAUAUCGAUUUAGUAUCAGCAAUCGAUAUGAUUUAGCACCUUAGUGCAA
..(((.......))).............(((((((((..........)))))))))......((((....)))).. ( -8.22 =  -9.42 +   1.20)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 3

Location 10,730,079 – 10,730,154
Length 75
Sequences 5
Columns 76
Reading direction reverse
Mean pairwise identity 73.58
Shannon entropy 0.47721
G+C content 0.40172
Mean single sequence MFE -17.76
Consensus MFE -7.98
Energy contribution -10.70
Covariance contribution 2.72
Combinations/Pair 1.11
Mean z-score -1.70
Structure conservation index 0.45
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.20
SVM RNA-class probability 0.591196
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 10730079 75 - 27905053
UUGCACUAAGGUGCUAAAUUAUAUCGAUUUCUGAUACUAAGUCGAUAUCGUU-UUUAGUAUUGGUGUGAGGCCAUG
(..(((((..((((((((..((((((((((........))))))))))....-)))))))))))))..)....... ( -22.20, z-score =  -3.35, R)
>droEre2.scaffold_4770 10266189 76 - 17746568
GUGGACUAAGAUGCUAAAUCAGGUCGAUUGCGUAUAUCUUAUCGAUACCUAUUUAGGCAAUCGGUGUGAGCCCGUG
((.((((..(((.....))).)))).)).(((....((.(((((((.(((....)))..))))))).))...))). ( -16.30, z-score =   0.19, R)
>droYak2.chr3R 13134335 66 + 28832112
GUGCACUAAGCUGCUAAAUCAUUUCGAU----------UUAUCGAUACCUCUGUCGGCCAUCGGUGUGAACCCUUA
..(((......)))....((((.(((((----------...((((((....))))))..))))).))))....... ( -13.30, z-score =  -1.04, R)
>droSec1.super_0 9915386 75 + 21120651
UUGCACUAAUGUGCUAAAUCAUAUCGAUUGCUGAUACUAAAUCGAUAUCGUU-UUGACUAAUGGUGUGAGGCCAUG
..((((....)))).((((.(((((((((..........))))))))).)))-)......(((((.....))))). ( -18.40, z-score =  -2.14, R)
>droSim1.chr3R 16786225 75 + 27517382
UUGCACUAAUGUGCUAAAUCAUAUCGAUUGCUGAUACUAAAUCGAUAUCGUU-UUGACUUAUGGUGUGAGGCCAUG
..((((....)))).((((.(((((((((..........))))))))).)))-).....((((((.....)))))) ( -18.60, z-score =  -2.13, R)
>consensus
UUGCACUAAGGUGCUAAAUCAUAUCGAUUGCUGAUACUAAAUCGAUAUCGUU_UUGACUAUUGGUGUGAGGCCAUG
..(((((((.......(((.(((((((((..........))))))))).)))........)))))))......... ( -7.98 = -10.70 +   2.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:16:09 2011