Locus 15468

Sequence ID dm3.chrX
Location 19,208,133 – 19,208,269
Length 136
Max. P 0.933386
window21322 window21323

overview

Window 2

Location 19,208,133 – 19,208,234
Length 101
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 75.87
Shannon entropy 0.40320
G+C content 0.36390
Mean single sequence MFE -23.54
Consensus MFE -17.08
Energy contribution -18.68
Covariance contribution 1.60
Combinations/Pair 1.08
Mean z-score -1.65
Structure conservation index 0.73
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.38
SVM RNA-class probability 0.933386
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19208133 101 - 22422827
UACCUAAUGAAAAGUGUGGAUGC-CUUUUAAUUUACACGAUUUACUCAGCAAUUUGCACUUUAAAGUGGUGGG-AAAUCGAAGUCAAGCACUAAGAUUCUUGA-----------------
.............((((((((..-......))))))))(((((.((((.((.((((.....)))).)).))))-)))))....(((((..........)))))----------------- ( -19.70, z-score =  -0.31, R)
>droSim1.chrX 14847653 119 - 17042790
UACCUAAUGAAAAGUGUGGAUGUGCUUUUAAUUUACACGAUUUACUCAGCACUUUGCACUUUAAAGUGGUGGG-AAAUCGUAGUCAAACACUAAGAUUCCUCACGUUCUUUAAGUUCCCA
.((.(((.(((..(((.(((....(((....((((((((((((.((((.(((((((.....))))))).))))-))))))).)).)))....)))..))).))).))).))).))..... ( -30.00, z-score =  -2.32, R)
>droSec1.super_8 1501472 119 - 3762037
UACCUAAUGAAAAGUGUGGAUGUGCUUUUAAUUUACACGAUUUACUCAGCACUUGGCACUUUAAAGUGGUGGG-AAAUCGAAGUCAAACACUAAGAUUCCUCACGUUCUUUAAGUUCUCA
........(((.(((((.((.(((((...((((.....)))).....))))))).)))))((((((..(((((-.((((..(((.....)))..)))).)))))...)))))).)))... ( -26.80, z-score =  -1.13, R)
>droYak2.chrX 9653498 102 + 21770863
UACCUAAUGAAAAGUGUGAAUGC-AUUUUAAUUCACACAAUUUACUCAGCACUUUGUACCUUAAAGUGGUGGGAAAACCGAAGUCAAACACCAAGAUUCCACA-----------------
.......(((...((((((((..-......))))))))......((((.(((((((.....))))))).))))..........))).................----------------- ( -24.70, z-score =  -2.57, R)
>droEre2.scaffold_4690 9465690 97 - 18748788
UACCCAAUGAAAAGUGUGAAUGC-AUUUUAAUUUACACUAUUUACCCAGCACUUUGCACUUUUAAGUACUGC--AAUUC-----CUCACGUUAGCAGUUCCCAAA---------------
.......((((.(((((((((..-......))))))))).))))....((.....))........(.(((((--(((..-----.....))).))))).).....--------------- ( -16.50, z-score =  -1.95, R)
>consensus
UACCUAAUGAAAAGUGUGGAUGC_CUUUUAAUUUACACGAUUUACUCAGCACUUUGCACUUUAAAGUGGUGGG_AAAUCGAAGUCAAACACUAAGAUUCCUCA_________________
.............((((((((.........))))))))(((((.((((.(((((((.....))))))).)))).)))))......................................... (-17.08 = -18.68 +   1.60)

alignment

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secondary structure

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dotplot

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Window 3

Location 19,208,156 – 19,208,269
Length 113
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 82.98
Shannon entropy 0.30284
G+C content 0.39571
Mean single sequence MFE -28.80
Consensus MFE -18.58
Energy contribution -19.58
Covariance contribution 1.00
Combinations/Pair 1.07
Mean z-score -1.85
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.37
SVM RNA-class probability 0.662222
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19208156 113 - 22422827
CGCAUUGUGAGAGAGGUCUCAGGAAAAAUAGGUGUUACCUAAUGAAAAGUGUGGAUGC-CUUUUAAUUUACACGAUUUACUCAGCAAUUUGCACUUUAAAGUGGUGGGAAAUCG-
....((.(((((....))))).))....((((.....)))).......((((((((..-......))))))))(((((.((((.((.((((.....)))).)).))))))))).- ( -28.00, z-score =  -1.41, R)
>droSim1.chrX 14847693 108 - 17042790
------GUGAGAGAGCUCUCGGGAAAAAUAGGUGUUACCUAAUGAAAAGUGUGGAUGUGCUUUUAAUUUACACGAUUUACUCAGCACUUUGCACUUUAAAGUGGUGGGAAAUCG-
------.(((((....))))).......((((.....)))).......((((((((.........))))))))(((((.((((.(((((((.....))))))).))))))))).- ( -31.70, z-score =  -2.93, R)
>droSec1.super_8 1501512 108 - 3762037
------GUGACAGAGCUCUCGGGAAAAAUAGGUGUUACCUAAUGAAAAGUGUGGAUGUGCUUUUAAUUUACACGAUUUACUCAGCACUUGGCACUUUAAAGUGGUGGGAAAUCG-
------......................((((.....)))).......((((((((.........))))))))(((((.((((.(((((.........))))).))))))))).- ( -25.80, z-score =  -0.84, R)
>droYak2.chrX 9653521 108 + 21770863
-----AGUGAAAGAGUUCUCCGG-GGAAUAGGUGUUACCUAAUGAAAAGUGUGAAUGC-AUUUUAAUUCACACAAUUUACUCAGCACUUUGUACCUUAAAGUGGUGGGAAAACCG
-----.........(((((....-))))).(((...............((((((((..-......))))))))......((((.(((((((.....))))))).))))...))). ( -30.40, z-score =  -2.33, R)
>droEre2.scaffold_4690 9465708 114 - 18748788
CGCGCUGGGAAAGAGUUCUCAGGAAAAAUAGGUGCUACCCAAUGAAAAGUGUGAAUGC-AUUUUAAUUUACACUAUUUACCCAGCACUUUGCACUUUUAAGUACUGCAAUUCCUC
.((.(((((((....)))))))........((((((......((((.(((((((((..-......))))))))).))))....((.....)).......))))))))........ ( -28.10, z-score =  -1.74, R)
>consensus
______GUGAAAGAGCUCUCAGGAAAAAUAGGUGUUACCUAAUGAAAAGUGUGGAUGC_CUUUUAAUUUACACGAUUUACUCAGCACUUUGCACUUUAAAGUGGUGGGAAAUCG_
............................((((.....)))).((((..((((((((.........))))))))..))))((((.(((((((.....))))))).))))....... (-18.58 = -19.58 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:59:59 2011