Locus 12963

Sequence ID dm3.chrX
Location 3,625,784 – 3,625,901
Length 117
Max. P 0.927182
window17819 window17820

overview

Window 9

Location 3,625,784 – 3,625,888
Length 104
Sequences 3
Columns 104
Reading direction reverse
Mean pairwise identity 89.42
Shannon entropy 0.15168
G+C content 0.63199
Mean single sequence MFE -35.50
Consensus MFE -34.44
Energy contribution -34.33
Covariance contribution -0.11
Combinations/Pair 1.08
Mean z-score -1.52
Structure conservation index 0.97
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.33
SVM RNA-class probability 0.927182
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 3625784 104 - 22422827
GAGGCAUCCGGCUGAAAUGCGUCGAGCUGCGUUGCCAUGCAGUCGGCGAGCCACCGAGGCACUACACUAAGCUACCCAGCCACAGAGCCGCCCACCCACAGGAC
..(((.((.(((((....(((((((.((((((....)))))))))))..(((.....)))..........))....)))))...))))).....((....)).. ( -35.50, z-score =  -0.92, R)
>droEre2.scaffold_4690 1018915 104 - 18748788
GAGGCAUCCGGCUGAAAUGCGUCGAGCUGCGUUGCCAUGCAGCCGGCGAGCCACCGAGGCACUAUACUAAGCCACCCAGCCACAGAGCCACCCACACACUAAAC
..(((.((.(((((.....(((((.(((((((....)))))))))))).(((.....)))................)))))...)))))............... ( -36.70, z-score =  -2.85, R)
>droYak2.chrX 16989546 99 + 21770863
AAGGCAUCCGGCUGAAAUGCGUCGAGCUGCGUUGCCAUGCAGCCAGCGAGCCACGGAGGCAGUACACUAAGCCACCCAGCCACAGGGCCACCCACACAC-----
..(((....(((((....((.(((.(((((((....)))))))...)))))...((.(((((....))..))).))))))).....)))..........----- ( -34.30, z-score =  -0.79, R)
>consensus
GAGGCAUCCGGCUGAAAUGCGUCGAGCUGCGUUGCCAUGCAGCCGGCGAGCCACCGAGGCACUACACUAAGCCACCCAGCCACAGAGCCACCCACACAC___AC
..(((.((.(((((....((((((.(((((((....)))))))))))..(((.....)))..........))....)))))...)))))............... (-34.44 = -34.33 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 3,625,808 – 3,625,901
Length 93
Sequences 3
Columns 93
Reading direction reverse
Mean pairwise identity 94.98
Shannon entropy 0.06912
G+C content 0.62724
Mean single sequence MFE -35.77
Consensus MFE -35.51
Energy contribution -35.40
Covariance contribution -0.11
Combinations/Pair 1.07
Mean z-score -0.79
Structure conservation index 0.99
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.07
SVM RNA-class probability 0.530288
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 3625808 93 - 22422827
CUGGUUGCCACUGGAGGCAUCCGGCUGAAAUGCGUCGAGCUGCGUUGCCAUGCAGUCGGCGAGCCACCGAGGCACUACACUAAGCUACCCAGC
(((((((((((((.(((((.((((((((......)).))))).).)))).).)))).)))))(((.....)))...............)))). ( -34.50, z-score =  -0.41, R)
>droEre2.scaffold_4690 1018939 93 - 18748788
CUGGUUGCCACUGGAGGCAUCCGGCUGAAAUGCGUCGAGCUGCGUUGCCAUGCAGCCGGCGAGCCACCGAGGCACUAUACUAAGCCACCCAGC
((((.((((......))))...((((......(((((.(((((((....)))))))))))).(((.....))).........))))..)))). ( -38.50, z-score =  -1.53, R)
>droYak2.chrX 16989565 93 + 21770863
CUGGUUGCCACUGAAGGCAUCCGGCUGAAAUGCGUCGAGCUGCGUUGCCAUGCAGCCAGCGAGCCACGGAGGCAGUACACUAAGCCACCCAGC
((((.((((......))))...((((....(((.(((.(((((((....)))))))...)))(((.....))).))).....))))..)))). ( -34.30, z-score =  -0.43, R)
>consensus
CUGGUUGCCACUGGAGGCAUCCGGCUGAAAUGCGUCGAGCUGCGUUGCCAUGCAGCCGGCGAGCCACCGAGGCACUACACUAAGCCACCCAGC
((((.((((......))))...((((......(((((.(((((((....)))))))))))).(((.....))).........))))..)))). (-35.51 = -35.40 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:12:04 2011