Locus 15219

Sequence ID dm3.chrX
Location 18,012,492 – 18,012,558
Length 66
Max. P 0.972180
window20962 window20963

overview

Window 2

Location 18,012,492 – 18,012,558
Length 66
Sequences 4
Columns 70
Reading direction forward
Mean pairwise identity 88.94
Shannon entropy 0.17034
G+C content 0.31978
Mean single sequence MFE -17.51
Consensus MFE -12.60
Energy contribution -12.72
Covariance contribution 0.12
Combinations/Pair 1.21
Mean z-score -3.04
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.86
SVM RNA-class probability 0.972180
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chrX 18012492 66 + 22422827
UCUAUAAACUUUCAGCAGGGAGAGCAACAACAAAAUAUUGUUGAAAAUAAUGUUGCUUUU----CCCUGC
..............(((((((((((((((((((....)))).........)))))).)))----)))))) ( -21.80, z-score =  -4.79, R)
>droEre2.scaffold_4690 8340459 69 + 18748788
UCUAUAAACUUUCAGCAGG-AAAGCAAAAACAAAAUAUUGUUGAAAAUAAUGUUGCUUUUGCUAUUCUGC
..............(((((-(.(((((((....((((((((.....))))))))..))))))).)))))) ( -18.30, z-score =  -2.94, R)
>droYak2.chrX 16636611 65 + 21770863
UCUAUAAACUUUUUGCAGG-AAAGCAGCAACAAAAUAUUGUUGAAAAUAAUGUUCCUUUU----CUUUGC
................(((-((.....((((((....)))))).........)))))...----...... (  -8.14, z-score =   0.38, R)
>droSec1.super_8 317731 66 + 3762037
UCUAUAAACUUUCAGCAGGGAGAGCAACAACAAAAUAUUGUUGAAAAUAAUGUUGCUUUU----CCCUGC
..............(((((((((((((((((((....)))).........)))))).)))----)))))) ( -21.80, z-score =  -4.79, R)
>consensus
UCUAUAAACUUUCAGCAGG_AAAGCAACAACAAAAUAUUGUUGAAAAUAAUGUUGCUUUU____CCCUGC
..............(((((((((((((((((((....)))).........))))))))).....)))))) (-12.60 = -12.72 +   0.12) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 18,012,492 – 18,012,558
Length 66
Sequences 4
Columns 70
Reading direction reverse
Mean pairwise identity 88.94
Shannon entropy 0.17034
G+C content 0.31978
Mean single sequence MFE -17.65
Consensus MFE -10.34
Energy contribution -11.90
Covariance contribution 1.56
Combinations/Pair 1.06
Mean z-score -2.72
Structure conservation index 0.59
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.42
SVM RNA-class probability 0.687641
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chrX 18012492 66 - 22422827
GCAGGG----AAAAGCAACAUUAUUUUCAACAAUAUUUUGUUGUUGCUCUCCCUGCUGAAAGUUUAUAGA
((((((----(..(((((((.........((((....))))))))))).))))))).............. ( -21.70, z-score =  -4.25, R)
>droEre2.scaffold_4690 8340459 69 - 18748788
GCAGAAUAGCAAAAGCAACAUUAUUUUCAACAAUAUUUUGUUUUUGCUUU-CCUGCUGAAAGUUUAUAGA
((((...(((((((((((...((((......))))..)))))))))))..-.)))).............. ( -18.20, z-score =  -2.68, R)
>droYak2.chrX 16636611 65 - 21770863
GCAAAG----AAAAGGAACAUUAUUUUCAACAAUAUUUUGUUGCUGCUUU-CCUGCAAAAAGUUUAUAGA
......----.....((((........((((((....)))))).(((...-...)))....))))..... (  -9.00, z-score =   0.29, R)
>droSec1.super_8 317731 66 - 3762037
GCAGGG----AAAAGCAACAUUAUUUUCAACAAUAUUUUGUUGUUGCUCUCCCUGCUGAAAGUUUAUAGA
((((((----(..(((((((.........((((....))))))))))).))))))).............. ( -21.70, z-score =  -4.25, R)
>consensus
GCAGAG____AAAAGCAACAUUAUUUUCAACAAUAUUUUGUUGUUGCUCU_CCUGCUGAAAGUUUAUAGA
((((((.......(((((((.((((......))))...))))))).....)))))).............. (-10.34 = -11.90 +   1.56) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:55:09 2011