Locus 15616

Sequence ID dm3.chrX
Location 19,970,294 – 19,970,438
Length 144
Max. P 0.935636
window21530 window21531

overview

Window 0

Location 19,970,294 – 19,970,404
Length 110
Sequences 3
Columns 118
Reading direction reverse
Mean pairwise identity 82.49
Shannon entropy 0.24125
G+C content 0.30159
Mean single sequence MFE -25.77
Consensus MFE -17.48
Energy contribution -18.93
Covariance contribution 1.45
Combinations/Pair 1.11
Mean z-score -2.58
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.40
SVM RNA-class probability 0.935636
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19970294 110 - 22422827
--UUUGUUAGGUUUUU-AAAAAUGUGUAAUCAUACGGUUUUUGAAAUCAAAU---UAAUCG--CGCGGAAUGUCAAUUUGUUGUACUCCGUGAAAGCCUUGCAUUAACGACACGACAU
--..(((.(((((((.-.....((((....))))(((((((((....)))).---.)))))--((((((.((.(((....))))).))))))))))))).)))............... ( -22.20, z-score =  -0.21, R)
>droSec1.super_8 2196036 118 - 3762037
UUAUUGUUAGAUUUUUAAAAAAUGUGUAAUUAUACAUUUUUUGAAAUCAAAUAUUAAAUUAAUCGCGGAGUGCCAACUCUGUGUACAUCGUUAAAGUCUUGCAUUAACAACGCGACAU
(((.((((.((((((.(((((((((((....))))))))))))))))).)))).))).....(((((((((((((....)).)))).))(((((.(.....).)))))..)))))... ( -30.00, z-score =  -3.94, R)
>droSim1.chrX_random 5179146 118 - 5698898
UUAUUGUUAGAUUUUUAAAAAAUGUGUAAUUAUACAUUUCUUGAAAUCAAAUAUUAAAUUAAUCGCGGAAUGCCAACACUUUGUACUUCCUUAAAGCCUUGCAUUAACAACGCGACAU
(((.((((.((((((....((((((((....))))))))...)))))).)))).))).....(((((.(((((.((..(((((........)))))..))))))).....)))))... ( -25.10, z-score =  -3.58, R)
>consensus
UUAUUGUUAGAUUUUUAAAAAAUGUGUAAUUAUACAUUUUUUGAAAUCAAAUAUUAAAUUAAUCGCGGAAUGCCAACUCUUUGUACUUCGUUAAAGCCUUGCAUUAACAACGCGACAU
....((((.((((((.(((((((((((....)))))))))))))))))................(((.((((.(((..(((((........)))))..))))))).....))))))). (-17.48 = -18.93 +   1.45)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location 19,970,334 – 19,970,438
Length 104
Sequences 3
Columns 118
Reading direction reverse
Mean pairwise identity 78.51
Shannon entropy 0.29359
G+C content 0.31185
Mean single sequence MFE -22.33
Consensus MFE -15.70
Energy contribution -16.80
Covariance contribution 1.09
Combinations/Pair 1.18
Mean z-score -2.20
Structure conservation index 0.70
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.28
SVM RNA-class probability 0.920853
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19970334 104 - 22422827
ACCGUCAACCACUU------GUUCCCCAUUAAGAGGUGUUUU--UGUUAGGUUUUU-AAAAAUGUGUAAUCAUACGGUUUUUGAAAUCAAAUU---AAUCG--CGCGGAAUGUCAAUU
.((((..(((.(((------(........)))).)))((..(--((....(.((((-((((((((((....)))).)))))))))).)....)---))..)--))))).......... ( -18.40, z-score =  -0.07, R)
>droSec1.super_8 2196076 113 - 3762037
ACCGCCAAGAAACUC-----GUUCCCCUUCCAGAGUUGUUUUAUUGUUAGAUUUUUAAAAAAUGUGUAAUUAUACAUUUUUUGAAAUCAAAUAUUAAAUUAAUCGCGGAGUGCCAACU
.((((.....(((((-----............)))))..((((.((((.((((((.(((((((((((....))))))))))))))))).)))).))))......)))).......... ( -26.20, z-score =  -4.16, R)
>droSim1.chrX_random 5179186 118 - 5698898
ACCGCCAAGAAACUUUAAGAGUUGCCCUUUAAGACUUGUUUUAUUGUUAGAUUUUUAAAAAAUGUGUAAUUAUACAUUUCUUGAAAUCAAAUAUUAAAUUAAUCGCGGAAUGCCAACA
.((((((((...(((.(((.......))).))).)))).((((.((((.((((((....((((((((....))))))))...)))))).)))).))))......)))).......... ( -22.40, z-score =  -2.36, R)
>consensus
ACCGCCAAGAAACU______GUUCCCCUUUAAGAGUUGUUUUAUUGUUAGAUUUUUAAAAAAUGUGUAAUUAUACAUUUUUUGAAAUCAAAUAUUAAAUUAAUCGCGGAAUGCCAACU
.((((.....(((((.................)))))..((((.((((.((((((.(((((((((((....))))))))))))))))).)))).))))......)))).......... (-15.70 = -16.80 +   1.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:02:47 2011