Locus 13167

Sequence ID dm3.chrX
Location 4,781,163 – 4,781,257
Length 94
Max. P 0.895959
window18096 window18097

overview

Window 6

Location 4,781,163 – 4,781,257
Length 94
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 87.45
Shannon entropy 0.20938
G+C content 0.45058
Mean single sequence MFE -27.48
Consensus MFE -15.43
Energy contribution -15.27
Covariance contribution -0.16
Combinations/Pair 1.05
Mean z-score -2.81
Structure conservation index 0.56
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.72
SVM RNA-class probability 0.796264
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 4781163 94 + 22422827
CGCUUAUUAAACUCAAGAUAAAC----GCCCGAAAGGCAAACGAAAAGAAUAA-AGGAUUUGUGGGCGUU-UAUGGAGGCGUGGCAGACCACUAAUAGCA
.(((.((((..(((...((((((----((((.....((((((...........-..).))))))))))))-))).)))..((((....))))))))))). ( -26.62, z-score =  -2.75, R)
>droSim1.chrX 3693430 94 + 17042790
CGCUUAUUAAACUCAAGAUAAAC----GCCCGAAAGGCAAAACGAAACGAAAA-AGGAUUUGUGGGCGUU-UAUGGAGGCGUGGCAGACCACUAAUAGCA
.(((.((((..(((...((((((----((((....(......)...(((((..-....))))))))))))-))).)))..((((....))))))))))). ( -28.70, z-score =  -3.32, R)
>droSec1.super_4 4216833 94 - 6179234
CGCUUAUUAAACUCAAGAUAAAC----GCCCGAAAGGCAAAACGAAACGAAAA-AGGAUUUGUGGGCGUU-UAUGGAGGCGUGGCAGACCACUAAUAGCA
.(((.((((..(((...((((((----((((....(......)...(((((..-....))))))))))))-))).)))..((((....))))))))))). ( -28.70, z-score =  -3.32, R)
>droYak2.chrX 18105559 100 - 21770863
CGCUUAUUAAACUCUAGAUAAACAAACGCCCGAAAGAAUAACGAAAAGAAAAACGGGAUUUGUGGGCGCUGUGAGGAGGCGUGGCAGACCACUAAUAGCA
.(((.((((..((((......(((..((((((...((((..((..........))..)))).)))))).)))..))))..((((....))))))))))). ( -26.80, z-score =  -2.45, R)
>droEre2.scaffold_4690 2152241 93 + 18748788
CGCUUAUUAAACGCAAGAUAAAC----GCCCGGGAGAAAAUCGAAAAGAAAAC--GGAUUUGUGGGCGUU-UGAGGAGGCGUGGCAGACCACUAAUAGCA
.(((.((((...((....(((((----(((((.(((....(((.........)--)).))).))))))))-)).....))((((....))))))))))). ( -26.60, z-score =  -2.20, R)
>consensus
CGCUUAUUAAACUCAAGAUAAAC____GCCCGAAAGGCAAACGAAAAGAAAAA_AGGAUUUGUGGGCGUU_UAUGGAGGCGUGGCAGACCACUAAUAGCA
.(((.((((..................(((((.(((......................))).))))).............((((....))))))))))). (-15.43 = -15.27 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 7

Location 4,781,163 – 4,781,257
Length 94
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 87.45
Shannon entropy 0.20938
G+C content 0.45058
Mean single sequence MFE -23.52
Consensus MFE -14.47
Energy contribution -14.51
Covariance contribution 0.04
Combinations/Pair 1.05
Mean z-score -2.80
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.13
SVM RNA-class probability 0.895959
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 4781163 94 - 22422827
UGCUAUUAGUGGUCUGCCACGCCUCCAUA-AACGCCCACAAAUCCU-UUAUUCUUUUCGUUUGCCUUUCGGGC----GUUUAUCUUGAGUUUAAUAAGCG
.(((((((((((....))))..(((.(((-(((((((.(((((...-...........)))))......))))----))))))...)))..)))).))). ( -24.64, z-score =  -3.43, R)
>droSim1.chrX 3693430 94 - 17042790
UGCUAUUAGUGGUCUGCCACGCCUCCAUA-AACGCCCACAAAUCCU-UUUUCGUUUCGUUUUGCCUUUCGGGC----GUUUAUCUUGAGUUUAAUAAGCG
.(((((((((((....))))..(((.(((-(((((((.........-......................))))----))))))...)))..)))).))). ( -24.58, z-score =  -3.04, R)
>droSec1.super_4 4216833 94 + 6179234
UGCUAUUAGUGGUCUGCCACGCCUCCAUA-AACGCCCACAAAUCCU-UUUUCGUUUCGUUUUGCCUUUCGGGC----GUUUAUCUUGAGUUUAAUAAGCG
.(((((((((((....))))..(((.(((-(((((((.........-......................))))----))))))...)))..)))).))). ( -24.58, z-score =  -3.04, R)
>droYak2.chrX 18105559 100 + 21770863
UGCUAUUAGUGGUCUGCCACGCCUCCUCACAGCGCCCACAAAUCCCGUUUUUCUUUUCGUUAUUCUUUCGGGCGUUUGUUUAUCUAGAGUUUAAUAAGCG
.(((((((((((....)))).....((((((((((((...(((..((..........))..))).....))))).)))).......)))..)))).))). ( -21.11, z-score =  -1.67, R)
>droEre2.scaffold_4690 2152241 93 - 18748788
UGCUAUUAGUGGUCUGCCACGCCUCCUCA-AACGCCCACAAAUCC--GUUUUCUUUUCGAUUUUCUCCCGGGC----GUUUAUCUUGCGUUUAAUAAGCG
.(((((((((((....))))((......(-(((((((..(((((.--(........).)))))......))))----)))).....))...)))).))). ( -22.70, z-score =  -2.80, R)
>consensus
UGCUAUUAGUGGUCUGCCACGCCUCCAUA_AACGCCCACAAAUCCU_UUUUUCUUUUCGUUUGCCUUUCGGGC____GUUUAUCUUGAGUUUAAUAAGCG
.(((((((((((....))))..(((.....(((((((................................))))....)))......)))..)))).))). (-14.47 = -14.51 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:15:52 2011