Locus 14571

Sequence ID dm3.chrX
Location 14,206,987 – 14,207,092
Length 105
Max. P 0.997935
window20061 window20062

overview

Window 1

Location 14,206,987 – 14,207,092
Length 105
Sequences 3
Columns 108
Reading direction forward
Mean pairwise identity 84.69
Shannon entropy 0.21408
G+C content 0.41854
Mean single sequence MFE -25.50
Consensus MFE -14.52
Energy contribution -14.97
Covariance contribution 0.45
Combinations/Pair 1.04
Mean z-score -2.44
Structure conservation index 0.57
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.10
SVM RNA-class probability 0.542179
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 14206987 105 + 22422827
--UUUUGUUGAAGUCUUUCCUCACACCUCCGAGAAUCUGCUUAAACAAUAUCCUUUUUU-GGAAAACCAAAAACUGGAACUGCGAGUGUAGCCUACUUUCGUAGGCUG
--..(((((.((((.....(((........))).....)))).)))))..(((.(((((-((....)))))))..)))..........((((((((....)))))))) ( -27.00, z-score =  -2.81, R)
>droSec1.super_20 802816 102 + 1148123
-----ACAAAGAGUCUAUCCUCACACCUCCGAGAAUCUGCUUAAACAAUAUCCUUUUUUUGGGAACCCAAAAACUGGAACUGCGAGUGUAGCUUACCUUUGUUC-CUG
-----((((((((.(((..(((.((.....(((......)))........(((..(((((((....)))))))..)))..)).)))..)))))...))))))..-... ( -23.70, z-score =  -2.40, R)
>droSim1.chrX_random 3805940 106 + 5698898
ACAGCUCAAAGAGUCUAUGCUCACACCUCCGAGAAUCUGCUUAAACAAUAUCCUUUUUU-GGGAACCCAAAAACUGGAACUGCGAGUGUAGCUUACCUUUGUUC-CUA
..((..(((((((.((((((((.((..((((((......)))............(((((-((....)))))))..)))..)).))))))))))...)))))...-)). ( -25.80, z-score =  -2.12, R)
>consensus
_____UCAAAGAGUCUAUCCUCACACCUCCGAGAAUCUGCUUAAACAAUAUCCUUUUUU_GGGAACCCAAAAACUGGAACUGCGAGUGUAGCUUACCUUUGUUC_CUG
..........(((.(((..(((.((..((((((......)))............(((((.((....)))))))..)))..)).)))..)))))).............. (-14.52 = -14.97 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 14,206,987 – 14,207,092
Length 105
Sequences 3
Columns 108
Reading direction reverse
Mean pairwise identity 84.69
Shannon entropy 0.21408
G+C content 0.41854
Mean single sequence MFE -36.50
Consensus MFE -24.18
Energy contribution -25.40
Covariance contribution 1.22
Combinations/Pair 1.03
Mean z-score -4.10
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.21
SVM RNA-class probability 0.997935
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 14206987 105 - 22422827
CAGCCUACGAAAGUAGGCUACACUCGCAGUUCCAGUUUUUGGUUUUCC-AAAAAAGGAUAUUGUUUAAGCAGAUUCUCGGAGGUGUGAGGAAAGACUUCAACAAAA--
.(((((((....)))))))...((((((.((((..(((((((....))-)))))(((((.((((....))))))))).)))).)))))).................-- ( -39.90, z-score =  -5.59, R)
>droSec1.super_20 802816 102 - 1148123
CAG-GAACAAAGGUAAGCUACACUCGCAGUUCCAGUUUUUGGGUUCCCAAAAAAAGGAUAUUGUUUAAGCAGAUUCUCGGAGGUGUGAGGAUAGACUCUUUGU-----
...-..(((((((....(((..((((((.((((..(((((((....))))))).(((((.((((....))))))))).)))).))))))..)))..)))))))----- ( -35.40, z-score =  -3.95, R)
>droSim1.chrX_random 3805940 106 - 5698898
UAG-GAACAAAGGUAAGCUACACUCGCAGUUCCAGUUUUUGGGUUCCC-AAAAAAGGAUAUUGUUUAAGCAGAUUCUCGGAGGUGUGAGCAUAGACUCUUUGAGCUGU
..(-(..((((((....(((..((((((.((((..(((((((....))-)))))(((((.((((....))))))))).)))).))))))..)))..))))))..)).. ( -34.20, z-score =  -2.77, R)
>consensus
CAG_GAACAAAGGUAAGCUACACUCGCAGUUCCAGUUUUUGGGUUCCC_AAAAAAGGAUAUUGUUUAAGCAGAUUCUCGGAGGUGUGAGGAUAGACUCUUUGA_____
.......((((((....(((..((((((.((((..(((((((....)).)))))(((((.((((....))))))))).)))).))))))..)))..))))))...... (-24.18 = -25.40 +   1.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:42:39 2011