Locus 15330

Sequence ID dm3.chrX
Location 18,443,471 – 18,443,576
Length 105
Max. P 0.971942
window21120 window21121

overview

Window 0

Location 18,443,471 – 18,443,576
Length 105
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 89.37
Shannon entropy 0.14697
G+C content 0.46867
Mean single sequence MFE -36.93
Consensus MFE -30.25
Energy contribution -30.37
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -2.71
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.86
SVM RNA-class probability 0.971942
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 18443471 105 + 22422827
GGGACAAGCUGGCCGGAAGAGUAUCCGCAAUAAUGGCAGCCUCAUUAAGAGCAGUGAUAAUCGCAUUACACUCGUUGCCAGUGUUGCACAGCUAAAUGUCCAAUU------------
.((((((((((...(((......)))((((((.((((((((((.....)))..(((((......)))))....))))))).)))))).)))))...)))))....------------ ( -40.10, z-score =  -4.29, R)
>droSec1.super_8 749444 114 + 3762037
GGGACAAGCUGGCCGGAAGAGUAUCCGCAAUAAUGGCAGCCUCAUUAAGAGCAGUGAUAAUCACAUUACACUAG---CCAGUGUUGCAAAGCUAAAUGUCCAAUUAAGGCUGGACGU
......((((....(((......)))((((((.((((.((.((.....)))).(((.....))).........)---))).))))))..))))..(((((((........))))))) ( -33.90, z-score =  -1.66, R)
>droSim1.chrX 14239276 114 + 17042790
GGGACAAGCUGGCCGGAAGAGUAUCCGCAAUAAUGGCAGCCUCAUUAAGAGCAGUGAUAAUCACAUUACACUAG---CCAGUGUUGCACAGCUAAAUGUCCAAUUAAGGCUGGAUGU
.((((((((((...(((......)))((((((.((((.((.((.....)))).(((.....))).........)---))).)))))).)))))...)))))................ ( -36.80, z-score =  -2.18, R)
>consensus
GGGACAAGCUGGCCGGAAGAGUAUCCGCAAUAAUGGCAGCCUCAUUAAGAGCAGUGAUAAUCACAUUACACUAG___CCAGUGUUGCACAGCUAAAUGUCCAAUUAAGGCUGGA_GU
.((((((((((...(((......)))((((((.(((..((.((.....)))).(((.....))).............))).)))))).)))))...)))))................ (-30.25 = -30.37 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 18,443,471 – 18,443,576
Length 105
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 89.37
Shannon entropy 0.14697
G+C content 0.46867
Mean single sequence MFE -32.57
Consensus MFE -28.03
Energy contribution -28.47
Covariance contribution 0.45
Combinations/Pair 1.03
Mean z-score -1.73
Structure conservation index 0.86
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.62
SVM RNA-class probability 0.765995
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 18443471 105 - 22422827
------------AAUUGGACAUUUAGCUGUGCAACACUGGCAACGAGUGUAAUGCGAUUAUCACUGCUCUUAAUGAGGCUGCCAUUAUUGCGGAUACUCUUCCGGCCAGCUUGUCCC
------------....(((((...(((((.((.....(((((.(.((((((((...)))).)))).(((.....)))).)))))......((((......)))))))))))))))). ( -33.60, z-score =  -2.39, R)
>droSec1.super_8 749444 114 - 3762037
ACGUCCAGCCUUAAUUGGACAUUUAGCUUUGCAACACUGG---CUAGUGUAAUGUGAUUAUCACUGCUCUUAAUGAGGCUGCCAUUAUUGCGGAUACUCUUCCGGCCAGCUUGUCCC
..((((((......))))))....((((..((((.(.(((---(.(((.....(((.....)))..(((.....)))))))))).).))))(((......)))....))))...... ( -30.20, z-score =  -0.96, R)
>droSim1.chrX 14239276 114 - 17042790
ACAUCCAGCCUUAAUUGGACAUUUAGCUGUGCAACACUGG---CUAGUGUAAUGUGAUUAUCACUGCUCUUAAUGAGGCUGCCAUUAUUGCGGAUACUCUUCCGGCCAGCUUGUCCC
................(((((...(((((.((.....(((---(.(((.....(((.....)))..(((.....))))))))))......((((......)))))))))))))))). ( -33.90, z-score =  -1.83, R)
>consensus
AC_UCCAGCCUUAAUUGGACAUUUAGCUGUGCAACACUGG___CUAGUGUAAUGUGAUUAUCACUGCUCUUAAUGAGGCUGCCAUUAUUGCGGAUACUCUUCCGGCCAGCUUGUCCC
................(((((...(((((.((.(((((((...)))))))...(((((.......((((.....)).)).......)))))(((......))).)))))))))))). (-28.03 = -28.47 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:57:16 2011