Locus 14188

Sequence ID dm3.chrX
Location 11,771,222 – 11,771,358
Length 136
Max. P 0.999404
window19535 window19536

overview

Window 5

Location 11,771,222 – 11,771,358
Length 136
Sequences 4
Columns 136
Reading direction forward
Mean pairwise identity 79.80
Shannon entropy 0.32032
G+C content 0.37400
Mean single sequence MFE -31.58
Consensus MFE -21.95
Energy contribution -24.33
Covariance contribution 2.37
Combinations/Pair 1.10
Mean z-score -2.53
Structure conservation index 0.70
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.04
SVM RNA-class probability 0.980224
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11771222 136 + 22422827
AGCCCAGCGUGUGCAGAUUGGGGCGAGGUAAGUGGCACACACUGCGGGCAAAUGUUCAUAGUAGAUCAAAAAAUAUAUAUAUGAUAUUUUCAAUAAUCAUAGGACAAACUAAGAAAAUUGAAAAUAUAGCAGAGAU
.((((((.((((((...(((........)))...)))))).))..))))...((((((((...................))))(((((((((((..((.(((......))).))..)))))))))))))))..... ( -32.01, z-score =  -2.38, R)
>droSim1.chrX 9071526 128 + 17042790
AGCCCAGCGUGUGCAGAUUGGGGCGAGGUAAGUGGCACACACUGCGGGCAAAU------AGUAGAUCAAAA--UAUAUAUAUGAUAUUUUCAAAAAUCUUAGUACAAACUAAGAAAAUUGAAAAUAUAGCAGAGAU
.((((((.((((((...(((........)))...)))))).))..))))....------............--..........((((((((((...(((((((....)))))))...))))))))))......... ( -33.90, z-score =  -3.52, R)
>droSec1.super_36 444253 128 + 449511
AGCCCAGCGUGUGCAGAUUGUGGCGAGGUAAGUGGCACACACUGCGGGCAAAU------AGUAGAUCAAAA--UAUAUAUAUGAUAUUUUCAAAAAUCUUAGUACAAACUAAGAAAAUUGAAAAUAUAGCAGAGAU
.((((.(((((((.....(((.((.......)).)))))))).))))))....------............--..........((((((((((...(((((((....)))))))...))))))))))......... ( -35.10, z-score =  -3.81, R)
>droYak2.chrX 6844080 112 - 21770863
AGUCCAGUGCAUGCAGAUUGGGGCGAGGUAAGUGGCGCACACUGUU--CAAAA--------UAGAUUCAAA--UAGAUGUAU----UUUCCAAAAAU----GCAUGAUCUAGAGUAGUUGGUACU----CAAAGAU
.....((..((((((..((((...(((...((((.....)))).))--)((((--------((.(((....--..))).)))----)))))))...)----)))))..)).(((((.....))))----)...... ( -25.30, z-score =  -0.41, R)
>consensus
AGCCCAGCGUGUGCAGAUUGGGGCGAGGUAAGUGGCACACACUGCGGGCAAAU______AGUAGAUCAAAA__UAUAUAUAUGAUAUUUUCAAAAAUCUUAGUACAAACUAAGAAAAUUGAAAAUAUAGCAGAGAU
.((((((.((((((...(((........)))...)))))).)))..)))..................................((((((((((...((((((......))))))...))))))))))......... (-21.95 = -24.33 +   2.37)

alignment

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secondary structure

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dotplot

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Window 6

Location 11,771,222 – 11,771,358
Length 136
Sequences 4
Columns 136
Reading direction reverse
Mean pairwise identity 79.80
Shannon entropy 0.32032
G+C content 0.37400
Mean single sequence MFE -30.84
Consensus MFE -22.66
Energy contribution -24.85
Covariance contribution 2.19
Combinations/Pair 1.14
Mean z-score -4.08
Structure conservation index 0.73
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.86
SVM RNA-class probability 0.999404
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11771222 136 - 22422827
AUCUCUGCUAUAUUUUCAAUUUUCUUAGUUUGUCCUAUGAUUAUUGAAAAUAUCAUAUAUAUAUUUUUUGAUCUACUAUGAACAUUUGCCCGCAGUGUGUGCCACUUACCUCGCCCCAAUCUGCACACGCUGGGCU
..........((((((((((..((.(((......))).))..))))))))))(((((.....(((....)))....)))))......((((..(((((((((....................))))))))))))). ( -31.75, z-score =  -3.91, R)
>droSim1.chrX 9071526 128 - 17042790
AUCUCUGCUAUAUUUUCAAUUUUCUUAGUUUGUACUAAGAUUUUUGAAAAUAUCAUAUAUAUA--UUUUGAUCUACU------AUUUGCCCGCAGUGUGUGCCACUUACCUCGCCCCAAUCUGCACACGCUGGGCU
.........((((((((((...(((((((....)))))))...))))))))))..........--............------....((((..(((((((((....................))))))))))))). ( -35.05, z-score =  -5.59, R)
>droSec1.super_36 444253 128 - 449511
AUCUCUGCUAUAUUUUCAAUUUUCUUAGUUUGUACUAAGAUUUUUGAAAAUAUCAUAUAUAUA--UUUUGAUCUACU------AUUUGCCCGCAGUGUGUGCCACUUACCUCGCCACAAUCUGCACACGCUGGGCU
.........((((((((((...(((((((....)))))))...))))))))))..........--............------....((((..(((((((((....................))))))))))))). ( -35.05, z-score =  -5.37, R)
>droYak2.chrX 6844080 112 + 21770863
AUCUUUG----AGUACCAACUACUCUAGAUCAUGC----AUUUUUGGAAA----AUACAUCUA--UUUGAAUCUA--------UUUUG--AACAGUGUGCGCCACUUACCUCGCCCCAAUCUGCAUGCACUGGACU
((((..(----((((.....))))).))))(((((----(...((((...----..(((.((.--((..((....--------.))..--)).)))))(((..........))).))))..))))))......... ( -21.50, z-score =  -1.43, R)
>consensus
AUCUCUGCUAUAUUUUCAAUUUUCUUAGUUUGUACUAAGAUUUUUGAAAAUAUCAUAUAUAUA__UUUUGAUCUACU______AUUUGCCCGCAGUGUGUGCCACUUACCUCGCCCCAAUCUGCACACGCUGGGCU
.........((((((((((...((((((......))))))...))))))))))..................................(((..((((((((((....................))))))))))))). (-22.66 = -24.85 +   2.19)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:35:33 2011