Locus 14481

Sequence ID dm3.chrX
Location 13,588,915 – 13,589,080
Length 165
Max. P 0.884813
window19930 window19931

overview

Window 0

Location 13,588,915 – 13,589,014
Length 99
Sequences 5
Columns 102
Reading direction forward
Mean pairwise identity 81.26
Shannon entropy 0.33727
G+C content 0.42247
Mean single sequence MFE -26.80
Consensus MFE -15.52
Energy contribution -16.24
Covariance contribution 0.72
Combinations/Pair 1.17
Mean z-score -2.30
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.07
SVM RNA-class probability 0.884813
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 13588915 99 + 22422827
-GUAAGCAAACUACGCAGAUUACC-UCGGUGAUUCGAUGAUUAUAUUAAUCGAUAC-UUGGCAAUCGCAGAUUAUCUUUUACGAUUAGUGAUUGCUGGGGCG
-............(((..(((((.-...)))))(((((..........)))))..(-(..((((((((.((((.........)))).))))))))..))))) ( -27.10, z-score =  -2.37, R)
>droSim1.chrX 10416969 99 + 17042790
-AACUACGAACUACGCAGAUUACC-ACGGUGAUUCGAUGAUUAUAUUAAUCGAUAC-GUGGCAAUCGCAGAUUAUCUUUUACGAUUAGUGAUUGCUGCGGCG
-............(((..(((((.-...)))))(((((..........)))))..(-(..((((((((.((((.........)))).))))))))..))))) ( -28.30, z-score =  -2.76, R)
>droSec1.super_20 227513 101 + 1148123
AACCUACGAACUACGCAGAUUACC-ACGGUGAUUCGAUGAAUAUAUUAAUCGAUCCCGUGGCAAUCGCAGAUUAUCUUUUACGAUUAGUGAUUGCUGGGGCG
......((..(((.(((((((.((-((((.(((.((((..........))))))))))))).))))............((((.....)))).))))))..)) ( -29.90, z-score =  -2.73, R)
>droYak2.chrX 7872375 96 + 21770863
---CAACGAACUACGCAGAUUGCAGAUUAUAUCGCGGUGAUU--AUUAAUCGAUAC-AUGGCAAUCACAGAUUAUCGUUUACGAUUAGUGAUUGCUGCGGCG
---...........((.....))........((((((..(((--((((((((.((.-(((..((((...))))..))).)))))))))))))..)))))).. ( -30.20, z-score =  -3.27, R)
>droEre2.scaffold_4690 5453552 86 - 18748788
----AACGAACUACGCAGAUUACC-GCGCUGAUU----------AUUAAUCGAUAC-GUGGCAAUCAGAGAUUAUCUUUUACGAUUAGUGACGGCUGAGGCG
----.........(((...(((((-(((((((((----------.......(((..-......)))((((.....))))...)))))))).))).))).))) ( -18.50, z-score =  -0.35, R)
>consensus
___CAACGAACUACGCAGAUUACC_ACGGUGAUUCGAUGAUUAUAUUAAUCGAUAC_GUGGCAAUCGCAGAUUAUCUUUUACGAUUAGUGAUUGCUGCGGCG
.............(((.(((((((...))))))).........................(((((((((.((((.........)))).)))))))))...))) (-15.52 = -16.24 +   0.72)

alignment

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secondary structure

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dotplot

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Window 1

Location 13,588,978 – 13,589,080
Length 102
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 80.06
Shannon entropy 0.34131
G+C content 0.41652
Mean single sequence MFE -12.76
Consensus MFE -10.80
Energy contribution -11.44
Covariance contribution 0.64
Combinations/Pair 1.14
Mean z-score -0.88
Structure conservation index 0.85
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.20
SVM RNA-class probability 0.592324
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 13588978 102 - 22422827
--UAACCCCAUAUAGU-CGAAAUACCCGUACUACCGAAUGUCACAAGUAUCAUACUCGUAAUACCAUCGCGCCCCAGCAAUCACUAAUCGUAAAAGAUAAUCUGC
--..........((((-((.......)).))))..((.((((((.((((...)))).)).........((......)).................)))).))... ( -10.00, z-score =  -0.15, R)
>droSim1.chrX 10417032 102 - 17042790
--AAACCCUAUAUAGU-CUAAAUACCCAUACUACCGAUUGUCACGAGAAUCAUACUCGUAAUACCAUCGCGCCGCAGCAAUCACUAAUCGUAAAAGAUAAUCUGC
--..............-..................((((((((((((.......))))).........((......)).................)))))))... ( -15.00, z-score =  -1.57, R)
>droSec1.super_20 227578 103 - 1148123
--UAACCCUAUAUAGUCCAAAAUACCCAUACUACCGAUUGUCACGAGAAUCAUACUCGUAAUACCAUCGCGCCCCAGCAAUCACUAAUCGUAAAAGAUAAUCUGC
--.................................((((((((((((.......))))).........((......)).................)))))))... ( -15.00, z-score =  -2.53, R)
>droYak2.chrX 7872435 94 - 21770863
UAUAACCCUCUACUGC-CG----CCUAAUACUACCGAUUGUCACGUGA------UGCGUAAUACUAACGCGCCGCAGCAAUCACUAAUCGUAAACGAUAAUCUGU
................-..----............((((((...(((.------(((((.......))))).))).))))))....((((....))))....... ( -17.10, z-score =  -1.21, R)
>droEre2.scaffold_4690 5453602 89 + 18748788
--UAACCCUAUAUAGC--------CUAAUACUACCGAAUGUCACGUGAA------UCGUAAUACAAUCGCGCCUCAGCCGUCACUAAUCGUAAAAGAUAAUCUCU
--..............--------..........(((..((.((((((.------.(((.........)))..)))..))).))...)))............... (  -6.70, z-score =   1.04, R)
>consensus
__UAACCCUAUAUAGU_CGAAAUACCCAUACUACCGAUUGUCACGAGAAUCAUACUCGUAAUACCAUCGCGCCCCAGCAAUCACUAAUCGUAAAAGAUAAUCUGC
...................................((((((((((((.......))))).........((......)).................)))))))... (-10.80 = -11.44 +   0.64)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:40:53 2011