Locus 13164

Sequence ID dm3.chrX
Location 4,755,196 – 4,755,288
Length 92
Max. P 0.894217
window18091 window18092

overview

Window 1

Location 4,755,196 – 4,755,288
Length 92
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 70.57
Shannon entropy 0.48575
G+C content 0.39727
Mean single sequence MFE -24.60
Consensus MFE -14.40
Energy contribution -13.48
Covariance contribution -0.92
Combinations/Pair 1.50
Mean z-score -1.36
Structure conservation index 0.59
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.79
SVM RNA-class probability 0.817182
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 4755196 92 + 22422827
AGUUUAGUUUGUCUUUC----UAAGGAUAGGA--UGGAU---AGUCCUCAAGCUCAUCUCGUUCAAGAAAACGAUGAGCUGUGGGUAUUCGGUACAAGUUU------------
.......((((((((..----..)))))))).--(((((---(.(((...((((((..(((((......)))))))))))..)))))))))..........------------ ( -23.20, z-score =  -1.29, R)
>droEre2.scaffold_4690 2124087 110 + 18748788
CAUUUUGUUUGACUUCCUUACGUUAAGCGGUAAGUAGG---CAGCACUCAAGCUUAUCUCGUUCAAGAAAAUGAUGAGCUGUGGAAAUUCGGGACAAGUAGUCCCUCACAUUU
.....((((.(.(((.(((((........))))).)))---))))).((.((((((((...((....))...))))))))...)).....(((((.....)))))........ ( -26.60, z-score =  -0.79, R)
>droYak2.chrX 18079575 113 - 21770863
UAUUUGGCUUGACUUUCAUUCGUUAAGCGGUAAGUAGUUCUCAGUUCUCAAGCUUUUUUCGUUCAAGAAAAAGAUGAGCUACGGAAAUUCGGGACAAGUAGUCGCUCACAUUU
((((((.(((((.((((..(((.....)))...((((((((((((......)))((((((......)))))))).))))))).)))).))))).))))))............. ( -27.00, z-score =  -1.33, R)
>droSec1.super_4 4191217 94 - 6179234
AGUUUAGAUUGUCUAUG----GAUAAGUGGUAAGUGGGU---AGUCCGCAAGCUCAUCUCGUUCAAGAAAACGAUGAGCUGUGAAAAUUCGGGACAAGUUU------------
........((((((.((----(((.........((((..---...)))).((((((..(((((......)))))))))))......)))))))))))....------------ ( -24.40, z-score =  -1.79, R)
>droSim1.chrX 3667262 94 + 17042790
AGUUUAGUUUGUCUAAG----GAUAAGUGGUAAGUGGAU---AGUUUUCAAGCUCAUCUUGUUCAAGAAAACGAUGAGCUGUGAAAAUUCGGGACAAGUUU------------
.((((....((((((..----.((.....))...)))))---)(((((((((((((((..(((......))))))))))).)))))))...))))......------------ ( -21.80, z-score =  -1.61, R)
>consensus
AGUUUAGUUUGUCUUUC____GAUAAGUGGUAAGUGGAU___AGUCCUCAAGCUCAUCUCGUUCAAGAAAACGAUGAGCUGUGGAAAUUCGGGACAAGUUU____________
......(((((((........)))))))...............((((...((((((((...((....))...)))))))).(((....))))))).................. (-14.40 = -13.48 +  -0.92)

alignment

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secondary structure

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dotplot

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Window 2

Location 4,755,196 – 4,755,288
Length 92
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 70.57
Shannon entropy 0.48575
G+C content 0.39727
Mean single sequence MFE -20.60
Consensus MFE -8.28
Energy contribution -8.92
Covariance contribution 0.64
Combinations/Pair 1.35
Mean z-score -2.36
Structure conservation index 0.40
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.12
SVM RNA-class probability 0.894217
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 4755196 92 - 22422827
------------AAACUUGUACCGAAUACCCACAGCUCAUCGUUUUCUUGAACGAGAUGAGCUUGAGGACU---AUCCA--UCCUAUCCUUA----GAAAGACAAACUAAACU
------------....((((.............((((((((((((....))))))..))))))((((((..---.....--.....))))))----.....))))........ ( -18.20, z-score =  -2.25, R)
>droEre2.scaffold_4690 2124087 110 - 18748788
AAAUGUGAGGGACUACUUGUCCCGAAUUUCCACAGCUCAUCAUUUUCUUGAACGAGAUAAGCUUGAGUGCUG---CCUACUUACCGCUUAACGUAAGGAAGUCAAACAAAAUG
...(((..(((((.....)))))((.(((((....(((.(((......)))..))).(((((.((((((...---..))))))..)))))......)))))))..)))..... ( -27.30, z-score =  -1.91, R)
>droYak2.chrX 18079575 113 + 21770863
AAAUGUGAGCGACUACUUGUCCCGAAUUUCCGUAGCUCAUCUUUUUCUUGAACGAAAAAAGCUUGAGAACUGAGAACUACUUACCGCUUAACGAAUGAAAGUCAAGCCAAAUA
.....((((((((.....))).((......))..)))))((((.((((..(.(.......).)..))))..))))..........((((.((........)).))))...... ( -20.80, z-score =  -0.94, R)
>droSec1.super_4 4191217 94 + 6179234
------------AAACUUGUCCCGAAUUUUCACAGCUCAUCGUUUUCUUGAACGAGAUGAGCUUGCGGACU---ACCCACUUACCACUUAUC----CAUAGACAAUCUAAACU
------------....(((((............((((((((((((....))))))..))))))...((...---..))..............----....)))))........ ( -18.00, z-score =  -2.58, R)
>droSim1.chrX 3667262 94 - 17042790
------------AAACUUGUCCCGAAUUUUCACAGCUCAUCGUUUUCUUGAACAAGAUGAGCUUGAAAACU---AUCCACUUACCACUUAUC----CUUAGACAAACUAAACU
------------....(((((.....((((((.((((((((((((....))))..))))))))))))))..---..............((..----..)))))))........ ( -18.70, z-score =  -4.14, R)
>consensus
____________AAACUUGUCCCGAAUUUCCACAGCUCAUCGUUUUCUUGAACGAGAUGAGCUUGAGAACU___ACCCACUUACCACUUAUC____GAAAGACAAACUAAACU
...........................(((((.((((((((((((....))))..)))))))))).)))............................................ ( -8.28 =  -8.92 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:15:48 2011