Locus 4681

Sequence ID dm3.chr2R
Location 15,002,043 – 15,002,137
Length 94
Max. P 0.875557
window6428 window6429

overview

Window 8

Location 15,002,043 – 15,002,137
Length 94
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 92.75
Shannon entropy 0.12710
G+C content 0.46205
Mean single sequence MFE -17.64
Consensus MFE -16.94
Energy contribution -16.70
Covariance contribution -0.24
Combinations/Pair 1.07
Mean z-score -1.44
Structure conservation index 0.96
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.02
SVM RNA-class probability 0.875557
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15002043 94 + 21146708
ACCAAAAAUAAACCCAGCCGAGUUCAGCUCAUUUCUCGCUUUAUUAUGCGACUCCAACUAGAAUGUGCCCUUUGGCCCGCUGUCGCUCUUUUAC---
...................((((.((((.......((((........)))).............(.(((....))).)))))..))))......--- ( -18.30, z-score =  -1.67, R)
>droSim1.chr2R 13703627 94 + 19596830
ACCAAAAAUAAACCCAGCCGAGUUCAGCUCAUUUCUCGCUUUAUUAUGCGACUCCAACUAGAAUGUGCCCUUUGGCCCGCUGUCGCUCUUUCAC---
...................((((.((((.......((((........)))).............(.(((....))).)))))..))))......--- ( -18.30, z-score =  -1.64, R)
>droSec1.super_1 12515125 94 + 14215200
ACCAAAAAUAAACCCAGCCGAGUUCAGCUCAUUUCUCGCUUUAUUAUGCGACUCCAACUAGAAUGUGCCCUUUGGCCCGCUGUCGCUCUUUUAC---
...................((((.((((.......((((........)))).............(.(((....))).)))))..))))......--- ( -18.30, z-score =  -1.67, R)
>droYak2.chr2R 6960067 97 - 21139217
ACCAAAAAUAAACCCACCAGAGUUCAGCUCAUUUCUCGCUUUAUUAUGCGACUCCAACUAGAAUGUGCCCUUUGGCCUGCUGUCGCUUUUCUUUUAC
..................(((((.((((.......((((........))))...............(((....)))..))))..)))))........ ( -15.50, z-score =  -0.89, R)
>droEre2.scaffold_4845 9201631 93 + 22589142
ACCAAAAAUAAACCCGCCAGAGUUCAGCUCAUUUCUCGCUUUAUUAUGCGACUCCAACUAGAAUGUGCCCUUUGGCCUGCUGUCGCUUUCUAC----
...............(((((((....((.(((((.((((........)))).........))))).)).)))))))..((....)).......---- ( -17.80, z-score =  -1.33, R)
>consensus
ACCAAAAAUAAACCCAGCCGAGUUCAGCUCAUUUCUCGCUUUAUUAUGCGACUCCAACUAGAAUGUGCCCUUUGGCCCGCUGUCGCUCUUUUAC___
...................((((.((((.......((((........))))...............(((....)))..))))..))))......... (-16.94 = -16.70 +  -0.24)

alignment

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secondary structure

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dotplot

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Window 9

Location 15,002,043 – 15,002,137
Length 94
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 92.75
Shannon entropy 0.12710
G+C content 0.46205
Mean single sequence MFE -24.26
Consensus MFE -23.54
Energy contribution -23.74
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -0.82
Structure conservation index 0.97
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.09
SVM RNA-class probability 0.540671
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15002043 94 - 21146708
---GUAAAAGAGCGACAGCGGGCCAAAGGGCACAUUCUAGUUGGAGUCGCAUAAUAAAGCGAGAAAUGAGCUGAACUCGGCUGGGUUUAUUUUUGGU
---........(((((.....(((....)))....(((....))))))))........((.(((((((((((.(.......).))))))))))).)) ( -24.30, z-score =  -0.76, R)
>droSim1.chr2R 13703627 94 - 19596830
---GUGAAAGAGCGACAGCGGGCCAAAGGGCACAUUCUAGUUGGAGUCGCAUAAUAAAGCGAGAAAUGAGCUGAACUCGGCUGGGUUUAUUUUUGGU
---........(((((.....(((....)))....(((....))))))))........((.(((((((((((.(.......).))))))))))).)) ( -24.30, z-score =  -0.52, R)
>droSec1.super_1 12515125 94 - 14215200
---GUAAAAGAGCGACAGCGGGCCAAAGGGCACAUUCUAGUUGGAGUCGCAUAAUAAAGCGAGAAAUGAGCUGAACUCGGCUGGGUUUAUUUUUGGU
---........(((((.....(((....)))....(((....))))))))........((.(((((((((((.(.......).))))))))))).)) ( -24.30, z-score =  -0.76, R)
>droYak2.chr2R 6960067 97 + 21139217
GUAAAAGAAAAGCGACAGCAGGCCAAAGGGCACAUUCUAGUUGGAGUCGCAUAAUAAAGCGAGAAAUGAGCUGAACUCUGGUGGGUUUAUUUUUGGU
...........(((((.....(((....)))....(((....))))))))........((.(((((((((((..((....)).))))))))))).)) ( -25.40, z-score =  -1.59, R)
>droEre2.scaffold_4845 9201631 93 - 22589142
----GUAGAAAGCGACAGCAGGCCAAAGGGCACAUUCUAGUUGGAGUCGCAUAAUAAAGCGAGAAAUGAGCUGAACUCUGGCGGGUUUAUUUUUGGU
----.......(((((.....(((....)))....(((....))))))))........((.(((((((((((...........))))))))))).)) ( -23.00, z-score =  -0.45, R)
>consensus
___GUAAAAGAGCGACAGCGGGCCAAAGGGCACAUUCUAGUUGGAGUCGCAUAAUAAAGCGAGAAAUGAGCUGAACUCGGCUGGGUUUAUUUUUGGU
...........(((((.....(((....)))....(((....))))))))........((.(((((((((((.(.......).))))))))))).)) (-23.54 = -23.74 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:33:59 2011