Locus 15106

Sequence ID dm3.chrX
Location 17,416,213 – 17,416,326
Length 113
Max. P 0.783300
window20814 window20815

overview

Window 4

Location 17,416,213 – 17,416,326
Length 113
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 71.72
Shannon entropy 0.45825
G+C content 0.40288
Mean single sequence MFE -26.89
Consensus MFE -12.24
Energy contribution -13.55
Covariance contribution 1.31
Combinations/Pair 1.21
Mean z-score -1.98
Structure conservation index 0.46
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.68
SVM RNA-class probability 0.783300
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17416213 113 + 22422827
-----UUAGUAUUCGAAUAACAAAAGGUAUCCAGGCUGCACCUGAAUAAAUCCCGCAUUCAGGAUUAAUUUCAGUUCCUGGCUAAAGCUACUUACAAAUUCAGGUAAGCCUUGACCAC
-----....................(((....(((((..((((((((.(((((........))))).......((...((((....))))...))..)))))))).)))))..))).. ( -30.50, z-score =  -3.26, R)
>droSim1.chrX 3542225 111 - 17042790
----GGUAGUAUUCGUAUAACAAAAGGUAUU---GCUGCAUCUGGAUAAAUCCUGCAUUCAGGAUUAAUUUCAGUUUCUGGCUAAAGCUACUUACCAAUUCUGGUAAGCCCUGGCCAC
----.((((((...((((........)))))---)))))..(((((..(((((((....)))))))...)))))....((((((..(((...(((((....))))))))..)))))). ( -32.50, z-score =  -2.67, R)
>droSec1.super_17 1261673 102 + 1527944
-------------CGUAUAACAAAAGGUAUU---GCUGCAUCUGGAUAAAUCCUGCAUUCAGGAUUAAUUUCAGUUUCUGGCUAAAGCUACUUACAAAUUCUGGUAAGCCCUGGCCAC
-------------.(((..((.....))..)---)).....(((((..(((((((....)))))))...)))))....((((((..((((((..........))).)))..)))))). ( -23.60, z-score =  -0.92, R)
>droYak2.chrX 16044608 101 + 21770863
GGUAAAAGUCGCACAAAUAUCAAGAGGUACU---GCUGCACC-----AAA----GGAUUUGAAAGUAC-----AUUUCUGGCUAAAGCUACUUACAAACUCUGGCAAAUCCUCACCAU
(((.......(((((..((((....)))).)---).)))...-----..(----(((((((..((...-----.....((((....))))..........))..)))))))).))).. ( -20.97, z-score =  -1.06, R)
>consensus
______UAGUAUUCGAAUAACAAAAGGUAUU___GCUGCACCUGGAUAAAUCCUGCAUUCAGGAUUAAUUUCAGUUUCUGGCUAAAGCUACUUACAAAUUCUGGUAAGCCCUGACCAC
.........................(((......(((((..(((((..(((((((....)))))))...)))))....((((....)))).............)).)))....))).. (-12.24 = -13.55 +   1.31)

alignment

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secondary structure

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dotplot

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Window 5

Location 17,416,213 – 17,416,326
Length 113
Sequences 4
Columns 118
Reading direction reverse
Mean pairwise identity 71.72
Shannon entropy 0.45825
G+C content 0.40288
Mean single sequence MFE -27.62
Consensus MFE -14.35
Energy contribution -15.10
Covariance contribution 0.75
Combinations/Pair 1.26
Mean z-score -1.52
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.27
SVM RNA-class probability 0.623634
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17416213 113 - 22422827
GUGGUCAAGGCUUACCUGAAUUUGUAAGUAGCUUUAGCCAGGAACUGAAAUUAAUCCUGAAUGCGGGAUUUAUUCAGGUGCAGCCUGGAUACCUUUUGUUAUUCGAAUACUAA-----
(((.((.((((((((((((((..((..(((((....))(((((...........)))))..)))...))..))))))))).)))))(((((.(....).))))))).)))...----- ( -33.20, z-score =  -2.26, R)
>droSim1.chrX 3542225 111 + 17042790
GUGGCCAGGGCUUACCAGAAUUGGUAAGUAGCUUUAGCCAGAAACUGAAAUUAAUCCUGAAUGCAGGAUUUAUCCAGAUGCAGC---AAUACCUUUUGUUAUACGAAUACUACC----
.((((.((((((((((......))))...)))))).))))....(((.....(((((((....)))))))....)))....(((---((......)))))..............---- ( -28.70, z-score =  -1.89, R)
>droSec1.super_17 1261673 102 - 1527944
GUGGCCAGGGCUUACCAGAAUUUGUAAGUAGCUUUAGCCAGAAACUGAAAUUAAUCCUGAAUGCAGGAUUUAUCCAGAUGCAGC---AAUACCUUUUGUUAUACG-------------
.((((.(((((((((........)))...)))))).))))....(((.....(((((((....)))))))....)))....(((---((......))))).....------------- ( -24.20, z-score =  -1.07, R)
>droYak2.chrX 16044608 101 - 21770863
AUGGUGAGGAUUUGCCAGAGUUUGUAAGUAGCUUUAGCCAGAAAU-----GUACUUUCAAAUCC----UUU-----GGUGCAGC---AGUACCUCUUGAUAUUUGUGCGACUUUUACC
..(((((((..(((((((((((((.(((((((....))((....)-----)))))).)))))..----...-----(((((...---.)))))........)))).)))).))))))) ( -24.40, z-score =  -0.85, R)
>consensus
GUGGCCAGGGCUUACCAGAAUUUGUAAGUAGCUUUAGCCAGAAACUGAAAUUAAUCCUGAAUGCAGGAUUUAUCCAGAUGCAGC___AAUACCUUUUGUUAUACGAAUACUA______
.((((.(((((((((........)))...)))))).))))....(((.....(((((((....)))))))....)))......................................... (-14.35 = -15.10 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:53:06 2011