Locus 12087

Sequence ID dm3.chr3R
Location 25,597,427 – 25,597,558
Length 131
Max. P 0.911815
window16619 window16620

overview

Window 9

Location 25,597,427 – 25,597,533
Length 106
Sequences 7
Columns 108
Reading direction forward
Mean pairwise identity 78.61
Shannon entropy 0.42321
G+C content 0.50777
Mean single sequence MFE -34.33
Consensus MFE -19.67
Energy contribution -19.86
Covariance contribution 0.19
Combinations/Pair 1.31
Mean z-score -1.98
Structure conservation index 0.57
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.22
SVM RNA-class probability 0.911815
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 25597427 106 + 27905053
UGUGUUGGUAUUUAUGCCCAUGUAUCCGUGGGUAAAAACC--CCGAUGAGUCAUCGCCGUCAUCCAUUUCAGAGUGGCGAUGCGUGCCGCGCCACUUUGGCAUACAUA
(((((.((..(((.((((((((....)))))))).)))..--))((((.((....))))))........((((((((((..(....)..))))))))))))))).... ( -37.30, z-score =  -2.27, R)
>droSim1.chr3R 25269532 106 + 27517382
UGUGUUGGUAUUUAUGCCCAUGUAUCCGUGGGUAAAAACC--CCGAUGAGUCAUCGCCGUCAUCCAUUUCAGAGUGGCGAUGCGUGCCGCGCCACUUUGGCAUACAUA
(((((.((..(((.((((((((....)))))))).)))..--))((((.((....))))))........((((((((((..(....)..))))))))))))))).... ( -37.30, z-score =  -2.27, R)
>droYak2.chr3R 7959015 105 - 28832112
UGUAUUGGUAUUUAUGCCCAUGUAUCCGUGGGUAAAACCC---CGAUGAGUCAUCGCCGUCAUCCAUUUCAGAGUGGCGAUGCGUGCCGCGCCACUUUGGCAUACAUA
..((((((..(((.((((((((....)))))))))))..)---))))).(.((((((((((..........)).)))))))))((((((........))))))..... ( -36.60, z-score =  -2.25, R)
>droEre2.scaffold_4820 8064035 105 - 10470090
UGUAUUGGUAUUUAUGCCCAUGUACCCGUGGGUAAAACCC---CGAUGACUCAUCGCCGUCAUCCAUUUCAGAGUGGCGAUGCGUGCCGCGCCACUUUGGCAUACAUA
(((((.((..(((.((((((((....)))))))))))..)---)((((((........))))))....(((((((((((..(....)..))))))))))).))))).. ( -39.50, z-score =  -3.19, R)
>droAna3.scaffold_12911 5298786 92 + 5364042
UGUAUUUGUAUCUGUAUCCGUGU--CCGUGUGUAAAAACC--CCGAUGAGUCAUCA--GGCA----------AAUGCCGAUGCGUGCUGCGCCACAUUGGCAUACAUA
......(((((..(((.((((((--(..............--..((((...)))).--(((.----------...))))))))).).)))(((.....)))))))).. ( -22.40, z-score =   0.25, R)
>droVir3.scaffold_12855 1165307 93 + 10161210
--------UGUGUGUGUGUGUGUGACCGUGUGUAGAAACC--CCGAUGAGUCAUCA--GCGGUCCAAGC--GAGUGA-GGUGCGUGGGUCGCCACAUUGGCAUACAAA
--------((((((((((((.((((((.............--(((.(((....)))--.)))..((.((--(.....-..))).)))))))))))))..))))))).. ( -31.30, z-score =  -1.04, R)
>droSec1.super_4 4448546 98 + 6179234
----------UUUAUGCCCAUGUAUCCGUGGGUAAAAGCUGUUUGAUGAGUCAUCGCCGUCAUCCAUUUCAGAGUGGCGAUGCUUGCCGCGCCACUUUGGCAUACAUA
----------....((((((((....))))))))...((((..(((((.((....)))))))..))...((((((((((..(....)..))))))))))))....... ( -35.90, z-score =  -3.12, R)
>consensus
UGUAUUGGUAUUUAUGCCCAUGUAUCCGUGGGUAAAAACC__CCGAUGAGUCAUCGCCGUCAUCCAUUUCAGAGUGGCGAUGCGUGCCGCGCCACUUUGGCAUACAUA
..............((((((((....))))))))..........((((...))))..(((((..(......)..)))))(((..(((((........)))))..))). (-19.67 = -19.86 +   0.19) 

alignment

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secondary structure

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dotplot

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Window 0

Location 25,597,462 – 25,597,558
Length 96
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 93.69
Shannon entropy 0.11230
G+C content 0.49383
Mean single sequence MFE -25.86
Consensus MFE -22.24
Energy contribution -22.44
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.61
Structure conservation index 0.86
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.21
SVM RNA-class probability 0.593600
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 25597462 96 + 27905053
AAACC--CCGAUGAGUCAUCGCCGUCAUCCAUUUCAGAGUGGCGAUGCGUGCCGCGCCACUUUGGCAUACAUAACACACAAAUCGGAUUCAAAAGCAA
.....--(((((..(.((((((((((..........)).)))))))))((((((........)))))).............)))))............ ( -25.80, z-score =  -1.41, R)
>droSim1.chr3R 25269567 96 + 27517382
AAACC--CCGAUGAGUCAUCGCCGUCAUCCAUUUCAGAGUGGCGAUGCGUGCCGCGCCACUUUGGCAUACAUAACACACAAAUCGGAUUCAAAAGCAA
.....--(((((..(.((((((((((..........)).)))))))))((((((........)))))).............)))))............ ( -25.80, z-score =  -1.41, R)
>droYak2.chr3R 7959050 95 - 28832112
-AACC--CCGAUGAGUCAUCGCCGUCAUCCAUUUCAGAGUGGCGAUGCGUGCCGCGCCACUUUGGCAUACAUAACACACAAAUCGGAUUCAAAACCAA
-....--(((((..(.((((((((((..........)).)))))))))((((((........)))))).............)))))............ ( -25.80, z-score =  -1.74, R)
>droEre2.scaffold_4820 8064070 91 - 10470090
-AACC--CCGAUGACUCAUCGCCGUCAUCCAUUUCAGAGUGGCGAUGCGUGCCGCGCCACUUUGGCAUACAUAACACACAAAUCUGAUUCAAAA----
-....--..((((((........))))))....(((((((((((.....))))))(((.....)))................))))).......---- ( -25.90, z-score =  -2.67, R)
>droSec1.super_4 4448571 98 + 6179234
AAGCUGUUUGAUGAGUCAUCGCCGUCAUCCAUUUCAGAGUGGCGAUGCUUGCCGCGCCACUUUGGCAUACAUAACACACAAAUCGGAUUCAAAAGCAA
..((((..(((((.((....)))))))..)...(((((((((((..(....)..)))))))))))............................))).. ( -26.00, z-score =  -0.82, R)
>consensus
AAACC__CCGAUGAGUCAUCGCCGUCAUCCAUUUCAGAGUGGCGAUGCGUGCCGCGCCACUUUGGCAUACAUAACACACAAAUCGGAUUCAAAAGCAA
...........(((((((((((((((..........)).)))))))(..(((((........)))))..)...............))))))....... (-22.24 = -22.44 +   0.20) 

alignment

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secondary structure

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dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:55:30 2011