Locus 9591

Sequence ID dm3.chr3R
Location 7,539,001 – 7,539,133
Length 132
Max. P 0.809714
window13159 window13160

overview

Window 9

Location 7,539,001 – 7,539,095
Length 94
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.62
Shannon entropy 0.25435
G+C content 0.41770
Mean single sequence MFE -25.82
Consensus MFE -20.06
Energy contribution -21.06
Covariance contribution 1.00
Combinations/Pair 1.08
Mean z-score -1.69
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.59
SVM RNA-class probability 0.755124
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 7539001 94 + 27905053
--UGCCCAUUCAGAGCGAUCAAUGGAUGUUUUCCUUAUAUCUCGAAAUAAUAAC--------------------UGAGUGGCCAGGCAAACAUGUUUGUUCCACUCAAGGGCAUCU----
--(((((.(((.(((........(((.....)))......))))))........--------------------(((((((.((((((....))))))..))))))).)))))...---- ( -29.44, z-score =  -2.96, R)
>droEre2.scaffold_4770 3668508 98 - 17746568
--UUCCCAUUCAGAGCGAUCAAUGGAUGUUUUCCUUGUAUUUCGAAAUAAUAAC--------------------UGAGUGCCCAGGCAAACGUGUUUGUCCCACUCAAGGGCAUCUAUCU
--..(((........(((.(((.(((.....))))))....)))..........--------------------((((((....((((((....)))))).)))))).)))......... ( -22.20, z-score =  -0.84, R)
>droYak2.chr3R 11949124 116 - 28832112
UUUUGCCAUUCGUAGCGAUCAAUGGAUGUUUUCCUUAUAUCUCGAAAUAAUAACGUAUAUCUCGAAAUAAUAACUGAGUGAAGAGGCAAACAUGUUUGUUCCACUCAAGGGCAUCU----
...((((((((((........)))))))....((((.(((.((((.(((........))).)))).)))......(((((((.(((((....))))).)).))))))))))))...---- ( -24.90, z-score =  -1.13, R)
>droSec1.super_0 6693844 94 - 21120651
--UGCCCAUUCAGAGCGAUCAGUGGAUGUUUUCCUUAUAUCUCGAAAUAAUAAG--------------------UGAGUGGCCAGGCAAACAUGUUUGUCCCACUCAAGGGCAUCU----
--(((((.(((.(((........(((.....)))......))))))........--------------------(((((((.((((((....))))))..))))))).)))))...---- ( -29.84, z-score =  -2.70, R)
>droSim1.chr3R 13660317 94 - 27517382
--UGGCCAUUCAGAGCGAUCAAUGUAUGUUUUCCUUAUAUCUCGAAAUAAUAAG--------------------UGAGUGGCCAGGCAAACAUGUUUGUCCCACUCAAGGGCAUCU----
--((((((((((((....)).............(((((...........)))))--------------------))))))))))((((((....))))))((......))......---- ( -22.70, z-score =  -0.83, R)
>consensus
__UGCCCAUUCAGAGCGAUCAAUGGAUGUUUUCCUUAUAUCUCGAAAUAAUAAC____________________UGAGUGGCCAGGCAAACAUGUUUGUCCCACUCAAGGGCAUCU____
..(((((.......(.(((....(((.....)))....))).)...............................(((((((...((((((....))))))))))))).)))))....... (-20.06 = -21.06 +   1.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 7,539,034 – 7,539,133
Length 99
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 87.76
Shannon entropy 0.19770
G+C content 0.39310
Mean single sequence MFE -25.44
Consensus MFE -21.86
Energy contribution -22.22
Covariance contribution 0.36
Combinations/Pair 1.03
Mean z-score -1.64
Structure conservation index 0.86
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.76
SVM RNA-class probability 0.809714
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 7539034 99 + 27905053
---------------UAUAUCUCGAAAUAAUAACUGAGUGGCCAGGCAAACAUGUUUGUUCCACUCAAGGGCAUCUAU----GCAAAAAAGGAAACCCCUUUUU-GCUGCAGCUAUUUA
---------------...................(((((((.((((((....))))))..)))))))..(((......----(((((((.((....)).)))))-))....)))..... ( -25.40, z-score =  -1.80, R)
>droEre2.scaffold_4770 3668541 104 - 17746568
---------------UGUAUUUCGAAAUAAUAACUGAGUGCCCAGGCAAACGUGUUUGUCCCACUCAAGGGCAUCUAUCUAUGCAAAAAAGGAAACCCCUUUUUUGCUGCAGCUAUUUA
---------------.............((((.(((.((((((.((((((....))))))........))))))........((((((((((.....))))))))))..))).)))).. ( -27.20, z-score =  -2.14, R)
>droYak2.chr3R 11949164 114 - 28832112
CUCGAAAUAAUAACGUAUAUCUCGAAAUAAUAACUGAGUGAAGAGGCAAACAUGUUUGUUCCACUCAAGGGCAUCUAU----GCAAAAAAGGAUAACCCAUUUU-GCUGCAGCUAUUUA
.((((.(((........))).)))).........((((((((.(((((....))))).)).))))))..(((......----((((((..((....))..))))-))....)))..... ( -23.00, z-score =  -1.04, R)
>droSec1.super_0 6693877 99 - 21120651
---------------UAUAUCUCGAAAUAAUAAGUGAGUGGCCAGGCAAACAUGUUUGUCCCACUCAAGGGCAUCUAU----GCAAAAAAGGAAACCCCUUUUU-GCUGCAGCUAUUUA
---------------...................(((((((.((((((....))))))..)))))))..(((......----(((((((.((....)).)))))-))....)))..... ( -25.80, z-score =  -1.61, R)
>droSim1.chr3R 13660350 99 - 27517382
---------------UAUAUCUCGAAAUAAUAAGUGAGUGGCCAGGCAAACAUGUUUGUCCCACUCAAGGGCAUCUAU----GCAAAAAAGGAAACCCCUUUUU-GCUGCAGCUAUUUA
---------------...................(((((((.((((((....))))))..)))))))..(((......----(((((((.((....)).)))))-))....)))..... ( -25.80, z-score =  -1.61, R)
>consensus
_______________UAUAUCUCGAAAUAAUAACUGAGUGGCCAGGCAAACAUGUUUGUCCCACUCAAGGGCAUCUAU____GCAAAAAAGGAAACCCCUUUUU_GCUGCAGCUAUUUA
........................(((((.....(((((((...((((((....)))))))))))))...(((.........((.(((((((.....))))))).)))))...))))). (-21.86 = -22.22 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:07:22 2011