Locus 15788

Sequence ID dm3.chrX
Location 21,067,162 – 21,067,275
Length 113
Max. P 0.906439
window21758 window21759

overview

Window 8

Location 21,067,162 – 21,067,264
Length 102
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 78.87
Shannon entropy 0.34967
G+C content 0.48322
Mean single sequence MFE -33.28
Consensus MFE -23.86
Energy contribution -24.26
Covariance contribution 0.40
Combinations/Pair 1.20
Mean z-score -1.32
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.25
SVM RNA-class probability 0.613525
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 21067162 102 + 22422827
------------------AGCCCAGCAAAACUCCAUCAAGACUUGGGAAAUAGUCUGAAGUCGGUCCGGUGGAGUUAAAGCCAUUAUUCGUUGGCUGUUGCCAUAGAGCAGUGGAGCAUU
------------------......((..(((((((((..(((((.(((.....))).))))).....)))))))))....(((((.(((..((((....))))..))).))))).))... ( -37.00, z-score =  -3.30, R)
>droEre2.scaffold_4690 17598114 103 + 18748788
----------------CUGGCCCAGCAAAACUGCAUCAGGACUUGGCAGGUAGUCCGAAGUCGGUCCGGUGGAGUUAAAGCCCUUCUUCGU-GGCUGUUGCCAUAGUGCAGUGGAGCAUU
----------------...((((((((.((((.((((.(((((.(((.((....))...)))))))))))).)))).............((-(((....)))))..)))..))).))... ( -34.70, z-score =  -0.39, R)
>droYak2.chrX 20238131 98 + 21770863
----------------------CUGUGAAACUCCAUCAAGACUCGGGAAAUAUUCUGAAUUGGGUUCGGAGGAGUUAAAGCCAUUAUUUGCUGGCUGUUGCCAUAGUGCAGUGGAGUAGU
----------------------(((((.((((((.((..(((((((.............)))))))..))))))))..(((((........))))).....)))))(((......))).. ( -24.82, z-score =  -0.12, R)
>droSec1.super_8 3375309 120 + 3762037
CUAUGAAAUUGCGCCUCCAGCCCAGCGAAACUCCAUCAAGACUUGGAAAAUAGUCUGAAGUUGGUCCGGUGGAGUUAAAGUCAUUAUUCGUUGGCUGUUGCCAUAGACCAGUGGAGCAUU
.........(((.....(((((.((((((((((((((.(((((........)))))((......)).))))))))...........)))))))))))...((((......)))).))).. ( -34.20, z-score =  -1.26, R)
>droSim1.chrX 16247940 120 + 17042790
CUAUGAAAUUGCGCCUCCAGCCCAGCGAAACUCCAUCAAGACUUGGAAAAUAGUCUGAAGUUGGUCCGGUGGAGUUAAAGUCAUUAUUCGUUGGCUGUUGCCAUAGAGCAGUGGAGCAUU
.........(((.((..(((((.((((((((((((((.(((((........)))))((......)).))))))))...........)))))))))))((((......)))).)).))).. ( -35.70, z-score =  -1.51, R)
>consensus
________________C_AGCCCAGCGAAACUCCAUCAAGACUUGGAAAAUAGUCUGAAGUCGGUCCGGUGGAGUUAAAGCCAUUAUUCGUUGGCUGUUGCCAUAGAGCAGUGGAGCAUU
........................((..(((((((((.(((((........)))))((......)).)))))))))....(((((.(((..((((....))))..))).))))).))... (-23.86 = -24.26 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 21,067,163 – 21,067,275
Length 112
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 82.52
Shannon entropy 0.30152
G+C content 0.50594
Mean single sequence MFE -39.46
Consensus MFE -27.60
Energy contribution -29.00
Covariance contribution 1.40
Combinations/Pair 1.17
Mean z-score -2.11
Structure conservation index 0.70
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.19
SVM RNA-class probability 0.906439
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 21067163 112 + 22422827
GCCCAGCAAAACUCCAUCAAGACUUGGGAAAUAGUCUGAAGUCGGUCCGGUGGAGUUAAAGCCAUUAUUCGUUGGCUGUUGCCAUAGAGCAGUGGAGCAUUGGGC-AG-AUGCC------
(((((((..(((((((((..(((((.(((.....))).))))).....)))))))))....(((((.(((..((((....))))..))).))))).))..)))))-..-.....------ ( -45.60, z-score =  -3.96, R)
>droEre2.scaffold_4690 17598117 116 + 18748788
GCCCAGCAAAACUGCAUCAGGACUUGGCAGGUAGUCCGAAGUCGGUCCGGUGGAGUUAAAGCCCUUCUUCGU-GGCUGUUGCCAUAGUGCAGUGGAGCAUUGGGCCAG-GAGAAGAUG--
.....((..((((.((((.(((((.(((.((....))...)))))))))))).))))...)).(((((((((-(((....))))).((.(((((...))))).))..)-))))))...-- ( -41.50, z-score =  -0.93, R)
>droYak2.chrX 20238133 115 + 21770863
-----GUGAAACUCCAUCAAGACUCGGGAAAUAUUCUGAAUUGGGUUCGGAGGAGUUAAAGCCAUUAUUUGCUGGCUGUUGCCAUAGUGCAGUGGAGUAGUGGAGUAGUGGGCAGAUGCC
-----....((((((.((..(((((((.............)))))))..))))))))....((((((((..(((.(..((((......))))..)..)))..)).))))))((....)). ( -33.82, z-score =  -1.01, R)
>droSec1.super_8 3375328 112 + 3762037
GCCCAGCGAAACUCCAUCAAGACUUGGAAAAUAGUCUGAAGUUGGUCCGGUGGAGUUAAAGUCAUUAUUCGUUGGCUGUUGCCAUAGACCAGUGGAGCAUUGGGC-AG-AUGCC------
((((((.(...((((((((.((((........)))))))..((((((..((((......(((((........)))))....)))).)))))))))))).))))))-..-.....------ ( -38.00, z-score =  -2.27, R)
>droSim1.chrX 16247959 112 + 17042790
GCCCAGCGAAACUCCAUCAAGACUUGGAAAAUAGUCUGAAGUUGGUCCGGUGGAGUUAAAGUCAUUAUUCGUUGGCUGUUGCCAUAGAGCAGUGGAGCAUUGGGC-AG-AUGCC------
(((((((..(((((((((.(((((........)))))((......)).)))))))))....(((((.(((..((((....))))..))).))))).))..)))))-..-.....------ ( -38.40, z-score =  -2.36, R)
>consensus
GCCCAGCGAAACUCCAUCAAGACUUGGAAAAUAGUCUGAAGUCGGUCCGGUGGAGUUAAAGCCAUUAUUCGUUGGCUGUUGCCAUAGAGCAGUGGAGCAUUGGGC_AG_AUGCC______
(((((((..(((((((((.(((((........)))))((......)).)))))))))....(((((.(((..((((....))))..))).))))).))..)))))............... (-27.60 = -29.00 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:05:56 2011