Locus 13987

Sequence ID dm3.chrX
Location 10,431,129 – 10,431,274
Length 145
Max. P 0.942729
window19236 window19237

overview

Window 6

Location 10,431,129 – 10,431,249
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 88.85
Shannon entropy 0.19566
G+C content 0.38872
Mean single sequence MFE -26.00
Consensus MFE -21.70
Energy contribution -22.14
Covariance contribution 0.44
Combinations/Pair 1.10
Mean z-score -1.54
Structure conservation index 0.83
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.31
SVM RNA-class probability 0.640107
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10431129 120 - 22422827
CCAUCCAUAAAAAAAAGCCCCAAAUGAAAGCCCCAUUUGGGGUUAUGGACUUUCGUAAUAAGAAUUAAGCGCACCCAAUUGAUUUCCAAGAUGUUUACAACUCUAUGGAAACGAAUCGUU
...((((((.......((((((((((.......))))))))))))))))..(((((......((((((..........))))))(((((((.((.....))))).)))).)))))..... ( -29.01, z-score =  -2.57, R)
>droSim1.chrX_random 2949504 118 - 5698898
CCAUCCAU--AAAAAAGCCUCAAAUGAAAGCCCCAUUUGGGGCUAUGGACUUUCGUAAUAAGAAUUAAGCGCACCCAAUUGAUUUCCAAGAUGUUUACAACUCUAUGGAAACGAAUCGUU
...(((((--.....(((((((((((.......))))))))))))))))..(((((......((((((..........))))))(((((((.((.....))))).)))).)))))..... ( -28.30, z-score =  -2.28, R)
>droSec1.super_15 1130934 117 - 1954846
CCAUCCAU---AAAAAGCCUCAAAUGAAGGCCCCAUUUGGGGCUAUGGACUUUCGUAAUAAGAAUUAAGCGCACCCAAUUGAUUUCCAAGAUGUUUACAACUCUAUGGAAACGAAUCGUU
...(((((---....(((((((((((.......))))))))))))))))..(((((......((((((..........))))))(((((((.((.....))))).)))).)))))..... ( -28.70, z-score =  -1.84, R)
>droEre2.scaffold_4690 14047896 115 + 18748788
-CAGCUAU---AAAAAGCCCC-AAUGAAAGCCCCAUUUGGGGUUAUGGACUUUCGUAAUAAGAAUUAAGCACACACAAUUGAUUUCCAAGAUGUUUACAACUCUAUGGGAACGAAUCGUU
-..(((..---....((((((-((((.......)).)))))))).......(((.......)))...)))........(((.(((((((((.((.....))))).)))))))))...... ( -22.30, z-score =  -0.32, R)
>droYak2.chrX 18997419 101 - 21770863
-------------------CCAAAUGAAAGCCCCAUUUGGGGUUAUGGACUUUCGUAAUAGGAAUAUAGCACACCCAAUUGAUUUCCAAGAUGUUUACAACUCUAUGGAAACGAAUCGUU
-------------------...(((((.((((((....)))))).......(((((....((............)).......((((((((.((.....))))).))))))))))))))) ( -21.70, z-score =  -0.70, R)
>consensus
CCAUCCAU___AAAAAGCCCCAAAUGAAAGCCCCAUUUGGGGUUAUGGACUUUCGUAAUAAGAAUUAAGCGCACCCAAUUGAUUUCCAAGAUGUUUACAACUCUAUGGAAACGAAUCGUU
...............(((((((((((.......)))))))))))...(((.(((((...............((......))..((((((((.((.....))))).))))))))))..))) (-21.70 = -22.14 +   0.44)

alignment

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secondary structure

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dotplot

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Window 7

Location 10,431,154 – 10,431,274
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.13
Shannon entropy 0.26066
G+C content 0.41990
Mean single sequence MFE -26.68
Consensus MFE -22.34
Energy contribution -22.06
Covariance contribution -0.28
Combinations/Pair 1.09
Mean z-score -1.95
Structure conservation index 0.84
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.48
SVM RNA-class probability 0.942729
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10431154 120 - 22422827
GAAUCGCAUCUUAAGCCUAAGCUGCCCAUCCAUAAAAAAAAGCCCCAAAUGAAAGCCCCAUUUGGGGUUAUGGACUUUCGUAAUAAGAAUUAAGCGCACCCAAUUGAUUUCCAAGAUGUU
.....(((((((.(((....)))((.(.((((((.......((((((((((.......))))))))))))))))..(((.......)))....).))...............))))))). ( -30.11, z-score =  -2.78, R)
>droSim1.chrX_random 2949529 117 - 5698898
GAACCGCAUCUCAAGCCUAAGCC-UCCAUCCAU--AAAAAAGCCUCAAAUGAAAGCCCCAUUUGGGGCUAUGGACUUUCGUAAUAAGAAUUAAGCGCACCCAAUUGAUUUCCAAGAUGUU
.....(((((....((((.....-....(((((--.....(((((((((((.......))))))))))))))))..(((.......)))...)).))......(((.....)))))))). ( -26.30, z-score =  -1.73, R)
>droSec1.super_15 1130959 116 - 1954846
GAAACGCAUCUCAAGACUAAGCC-UCCAUCCAU---AAAAAGCCUCAAAUGAAGGCCCCAUUUGGGGCUAUGGACUUUCGUAAUAAGAAUUAAGCGCACCCAAUUGAUUUCCAAGAUGUU
.....((((((............-....(((((---....(((((((((((.......))))))))))))))))............(((((((..........)))))))...)))))). ( -26.10, z-score =  -1.25, R)
>droEre2.scaffold_4690 14047921 113 + 18748788
GAACGCCAUCUUAAGCCUAAG---CCCAGCUAU---AAAAAGCCCC-AAUGAAAGCCCCAUUUGGGGUUAUGGACUUUCGUAAUAAGAAUUAAGCACACACAAUUGAUUUCCAAGAUGUU
......((((((..((..(((---.((((((..---....)))...-......((((((....)))))).))).)))..)).....(((((((..........)))))))..)))))).. ( -23.30, z-score =  -1.16, R)
>droYak2.chrX 18997444 99 - 21770863
GAACCCCAUCUUGAGCCU---------------------AAGCCCCAAAUGAAAGCCCCAUUUGGGGUUAUGGACUUUCGUAAUAGGAAUAUAGCACACCCAAUUGAUUUCCAAGAUGUU
......(((((((((((.---------------------.(((((((((((.......)))))))))))..)).))...((.(((....))).))................))))))).. ( -27.60, z-score =  -2.80, R)
>consensus
GAACCGCAUCUUAAGCCUAAGC__CCCAUCCAU___AAAAAGCCCCAAAUGAAAGCCCCAUUUGGGGUUAUGGACUUUCGUAAUAAGAAUUAAGCGCACCCAAUUGAUUUCCAAGAUGUU
......(((((.............................(((((((((((.......))))))))))).((((...(((........................)))..))))))))).. (-22.34 = -22.06 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:31:29 2011