Locus 12542

Sequence ID dm3.chrX
Location 826,726 – 826,826
Length 100
Max. P 0.755168
window17247 window17248

overview

Window 7

Location 826,726 – 826,826
Length 100
Sequences 3
Columns 107
Reading direction forward
Mean pairwise identity 78.59
Shannon entropy 0.28944
G+C content 0.57044
Mean single sequence MFE -37.10
Consensus MFE -28.29
Energy contribution -28.63
Covariance contribution 0.34
Combinations/Pair 1.12
Mean z-score -1.43
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.23
SVM RNA-class probability 0.603690
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 826726 100 + 22422827
GGACUCGUCAUCGUCAUCGUCGCCAGGAGCGGCCGAUAGCCAGCUC--CAGAUAGCCGUGGUGCAGGCUAUCUUCUGGUGCAAAGUCUGCUUGCGUAGAAGU-----
.(((........)))...(.(((((((((((((.....))).))))--)((((((((........))))))))..))))))....(((((....)))))...----- ( -39.10, z-score =  -1.77, R)
>droSec1.super_10 663545 99 + 3036183
------GGACUCGUCAUCGUCGCCAGGAGCGGCCGAUAGCCAGCUC--CAGAUAGCCGUGUUGCAGGCUAUCUUCUAGUGCAAAGUCUGCUUGCGUGGAAGCAAAGU
------.(((........)))((..((((((((.....))).))))--).(((((((........)))))))(((((.(((((.(....)))))))))))))..... ( -36.00, z-score =  -1.25, R)
>droYak2.chrX 742653 99 + 21770863
------GGAUGCGUCAUC--CACCAGGAGCGGCCGAUAGCCAUCUCUCCAGAUAGCCAGGUUGCAGGUUAUCUUCUGGUGCAAAGUCUGCGCGAGUGGUGGCAAAGU
------((.(((....((--(....)))))).))....((((((.(((.((((((((........))))))))....(((((.....)))))))).))))))..... ( -36.20, z-score =  -1.26, R)
>consensus
______GGAAUCGUCAUCGUCGCCAGGAGCGGCCGAUAGCCAGCUC__CAGAUAGCCGUGUUGCAGGCUAUCUUCUGGUGCAAAGUCUGCUUGCGUGGAAGCAAAGU
....................(((((((((((((.....))).))))...((((((((........)))))))).)))))).....(((((....)))))........ (-28.29 = -28.63 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 826,726 – 826,826
Length 100
Sequences 3
Columns 107
Reading direction reverse
Mean pairwise identity 78.59
Shannon entropy 0.28944
G+C content 0.57044
Mean single sequence MFE -33.27
Consensus MFE -24.95
Energy contribution -25.07
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -1.66
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.59
SVM RNA-class probability 0.755168
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 826726 100 - 22422827
-----ACUUCUACGCAAGCAGACUUUGCACCAGAAGAUAGCCUGCACCACGGCUAUCUG--GAGCUGGCUAUCGGCCGCUCCUGGCGACGAUGACGAUGACGAGUCC
-----...(((.(....).)))..((((.(((..((((((((........))))))))(--((((.(((.....))))))))))).).))).(((........))). ( -35.30, z-score =  -2.11, R)
>droSec1.super_10 663545 99 - 3036183
ACUUUGCUUCCACGCAAGCAGACUUUGCACUAGAAGAUAGCCUGCAACACGGCUAUCUG--GAGCUGGCUAUCGGCCGCUCCUGGCGACGAUGACGAGUCC------
..(((((((......)))))))....((......((((((((........))))))))(--((((.(((.....))))))))..))(((........))).------ ( -35.60, z-score =  -2.21, R)
>droYak2.chrX 742653 99 - 21770863
ACUUUGCCACCACUCGCGCAGACUUUGCACCAGAAGAUAACCUGCAACCUGGCUAUCUGGAGAGAUGGCUAUCGGCCGCUCCUGGUG--GAUGACGCAUCC------
......((((((...((((((.((((......)))).....))))..(((((((((((....)))))))))..))..))...)))))--)...........------ ( -28.90, z-score =  -0.65, R)
>consensus
ACUUUGCUUCCACGCAAGCAGACUUUGCACCAGAAGAUAGCCUGCAACACGGCUAUCUG__GAGCUGGCUAUCGGCCGCUCCUGGCGACGAUGACGAAUCC______
.................((((...)))).((((.((((((((........))))))))...(((.((((.....)))))))))))...................... (-24.95 = -25.07 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:04:16 2011