Locus 15044

Sequence ID dm3.chrX
Location 17,129,805 – 17,129,885
Length 80
Max. P 0.861176
window20732 window20733

overview

Window 2

Location 17,129,805 – 17,129,885
Length 80
Sequences 6
Columns 93
Reading direction forward
Mean pairwise identity 69.88
Shannon entropy 0.53711
G+C content 0.34660
Mean single sequence MFE -14.77
Consensus MFE -6.96
Energy contribution -7.60
Covariance contribution 0.64
Combinations/Pair 1.38
Mean z-score -1.42
Structure conservation index 0.47
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.43
SVM RNA-class probability 0.692622
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17129805 80 + 22422827
-----------AUAUAGAGUAUAUAUACGAAAAUCAUAGGCCGUAGAGCAAUUUGCUCUUCGCAUUGCCUUUGUUUUUAAUCACCUCAUCG--
-----------.....(((.........(((((.((.((((((.(((((.....))))).))....)))).)))))))......)))....-- ( -16.96, z-score =  -2.31, R)
>droSim1.chrX 13302347 80 + 17042790
-----------AUAUAGAGUGUAUAUAGGAAAAUCAUAGGCCGUAGAGCACUUUGCUCUUCGCAUUGCCUUUGUUUUUAAUCACCUCAUCG--
-----------.....(((.((......(((((.((.((((((.(((((.....))))).))....)))).)))))))....)))))....-- ( -20.00, z-score =  -2.59, R)
>droSec1.super_17 965768 80 + 1527944
-----------AUAUAGAGUAUAUAUAGGUAAAUCAUAGGCCGUAGAGCAUUUUGCUCUUCGCAUUGCCUUUGUUUUUAAUCACCUCAUCG--
-----------(((((.....)))))(((((((.((.((((((.(((((.....))))).))....)))).)).))).....)))).....-- ( -17.00, z-score =  -2.04, R)
>droYak2.chrX 15737809 80 + 21770863
-----------AUAUAGAGUAUAUAUAAGAAAAUCAUAGGCCGUAGAGCACUUUGCUCUUCGCAUUGACUUUGUUUUUAAUCGCCUCAUCA--
-----------.....(((.......((.(((.(((...((...(((((.....)))))..))..))).))).)).........)))....-- ( -14.39, z-score =  -0.80, R)
>droEre2.scaffold_4690 7471188 90 + 18748788
AUAAAUAUUAAACACAAAAAAUAUA-GAGUAUAUGACAGGACGUAGAGCACUUUGCUCUUCGCAUUGCCUUUGAUUUUAAUCACCUCAUCG--
.......................((-((((....(.(((..((.(((((.....))))).))..))).)....))))))............-- ( -13.80, z-score =  -1.10, R)
>droGri2.scaffold_15203 5523367 74 - 11997470
------------------GUAUAUAUCAGUCAAUAAUUCAAUAAAUAAUA-UUAGGGAAUCUUAUUGCGAACUGCUUCGAUUUUUUCACAAGG
------------------........(((((((((((((..(((......-)))..))))..)))))...))))................... (  -6.50, z-score =   0.31, R)
>consensus
___________AUAUAGAGUAUAUAUAAGAAAAUCAUAGGCCGUAGAGCACUUUGCUCUUCGCAUUGCCUUUGUUUUUAAUCACCUCAUCG__
..................................((.((((((.(((((.....))))).))....)))).)).................... ( -6.96 =  -7.60 +   0.64)

alignment

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secondary structure

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dotplot

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Window 3

Location 17,129,805 – 17,129,885
Length 80
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 69.88
Shannon entropy 0.53711
G+C content 0.34660
Mean single sequence MFE -16.09
Consensus MFE -8.27
Energy contribution -8.33
Covariance contribution 0.06
Combinations/Pair 1.54
Mean z-score -1.50
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.96
SVM RNA-class probability 0.861176
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17129805 80 - 22422827
--CGAUGAGGUGAUUAAAAACAAAGGCAAUGCGAAGAGCAAAUUGCUCUACGGCCUAUGAUUUUCGUAUAUAUACUCUAUAU-----------
--....(((...((.((((.((.((((....((.(((((.....))))).)))))).)).)))).)).......))).....----------- ( -17.10, z-score =  -1.57, R)
>droSim1.chrX 13302347 80 - 17042790
--CGAUGAGGUGAUUAAAAACAAAGGCAAUGCGAAGAGCAAAGUGCUCUACGGCCUAUGAUUUUCCUAUAUACACUCUAUAU-----------
--....((((((((.((((.((.((((....((.(((((.....))))).)))))).)).))))...)).))).))).....----------- ( -18.30, z-score =  -1.95, R)
>droSec1.super_17 965768 80 - 1527944
--CGAUGAGGUGAUUAAAAACAAAGGCAAUGCGAAGAGCAAAAUGCUCUACGGCCUAUGAUUUACCUAUAUAUACUCUAUAU-----------
--.....((((((.......((.((((....((.(((((.....))))).)))))).))..))))))...............----------- ( -18.70, z-score =  -2.85, R)
>droYak2.chrX 15737809 80 - 21770863
--UGAUGAGGCGAUUAAAAACAAAGUCAAUGCGAAGAGCAAAGUGCUCUACGGCCUAUGAUUUUCUUAUAUAUACUCUAUAU-----------
--.....((((((((........))))....((.(((((.....))))).))))))..........................----------- ( -16.80, z-score =  -1.56, R)
>droEre2.scaffold_4690 7471188 90 - 18748788
--CGAUGAGGUGAUUAAAAUCAAAGGCAAUGCGAAGAGCAAAGUGCUCUACGUCCUGUCAUAUACUC-UAUAUUUUUUGUGUUUAAUAUUUAU
--....(((.((((....))))..((((..(((.(((((.....))))).)))..)))).....)))-......................... ( -19.40, z-score =  -1.51, R)
>droGri2.scaffold_15203 5523367 74 + 11997470
CCUUGUGAAAAAAUCGAAGCAGUUCGCAAUAAGAUUCCCUAA-UAUUAUUUAUUGAAUUAUUGACUGAUAUAUAC------------------
..(((((((.............)))))))...(((((..(((-......)))..)))))................------------------ (  -6.22, z-score =   0.44, R)
>consensus
__CGAUGAGGUGAUUAAAAACAAAGGCAAUGCGAAGAGCAAAGUGCUCUACGGCCUAUGAUUUACUUAUAUAUACUCUAUAU___________
....................((.((((....((.(((((.....))))).)))))).)).................................. ( -8.27 =  -8.33 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:51:58 2011