Locus 11128

Sequence ID dm3.chr3R
Location 18,816,546 – 18,816,643
Length 97
Max. P 0.907879
window15292 window15293

overview

Window 2

Location 18,816,546 – 18,816,643
Length 97
Sequences 7
Columns 98
Reading direction forward
Mean pairwise identity 59.40
Shannon entropy 0.79897
G+C content 0.59461
Mean single sequence MFE -25.29
Consensus MFE -7.89
Energy contribution -8.87
Covariance contribution 0.98
Combinations/Pair 1.25
Mean z-score -1.26
Structure conservation index 0.31
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.36
SVM RNA-class probability 0.661405
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 18816546 97 + 27905053
GGACCCCCAAAUCCCGCUCCCGCCAUCCCGUUUUAAGACC-AGCGGAAGCACGCGCCGCUGCCUAGUGCAGCGUGAACUUCCACGGAGACAUUGUUGG
......((((......((((.........(((....))).-.(.(((((..(((((.((........)).)))))..))))).)))))......)))) ( -28.20, z-score =  -0.92, R)
>droSim1.chr3R 18630647 95 + 27517382
GGACCCCCAAAUCCCGCUACC--CUUCCCCUUUUAAGACC-AGCGGAAGCACGCGCCGCUGCCUAGUGCAGCGGCAACUUCCACGGAGACAUUGUUGG
(((........))).......--...............((-((((((((.....((((((((.....))))))))..)))))..(....)...))))) ( -31.20, z-score =  -2.35, R)
>droSec1.super_0 19180510 95 + 21120651
GGACCCCCAAAUCCCGCUACC--CUUCCCCUUUUAAGACC-AGCGGAAGCACGCGCCGCUGCCUAGUGCAGCGGCAACUUCCACGGAGACAUUGUUGG
(((........))).......--...............((-((((((((.....((((((((.....))))))))..)))))..(....)...))))) ( -31.20, z-score =  -2.35, R)
>droYak2.chr3R 19676611 89 + 28832112
---------AAUCCCGCUCCAUCUUCCCCUUUUGAAAACCCAGCGGAAGCACGCGCCGCUGCCUAGUGCAGCGCCAACUUCCACGACGACAUUGUUGG
---------......(((.....(((.......))).....)))(((((...((((.((........)).))))...))))).(((((....))))). ( -21.90, z-score =  -1.03, R)
>droEre2.scaffold_4820 1217555 81 - 10470090
GGACCCC--AAUCCCGCGCCA--UCUUCCCGCUCAAAUCC-AGCGGAAGCACGCGCCGCCAACUUCCACGACGACGACAUUGUUGG------------
(((....--..))).((((..--.(((((.(((.......-))))))))...))))..(((((.....((....)).....)))))------------ ( -21.30, z-score =  -1.46, R)
>droAna3.scaffold_13340 11193770 78 - 23697760
------------GAAGCUCCA----AAACCCGACAAGACC----GGAAGCACGCGCCGCUGCCUAGUGCAGCGGCAACAUCCACGAGGACAUUGUUGG
------------.........----....(((((((..((----(((.(....)((((((((.....))))))))....)))....))...))))))) ( -27.00, z-score =  -2.31, R)
>droVir3.scaffold_12822 4002777 81 - 4096053
------------GUAGCUAAGGCCGUGAUUUCUGCGCAGC-AACGGAAGAGCAUCUUGGA----AAUGUAGCAGACAGACUCGUGAGGACGAUAGCAA
------------...((((...........(((((.....-..(....).((((......----.)))).))))).....((((....)))))))).. ( -16.20, z-score =   1.60, R)
>consensus
GGACCCC__AAUCCCGCUCCA__CUUCCCCUUUUAAGACC_AGCGGAAGCACGCGCCGCUGCCUAGUGCAGCGGCAACUUCCACGGAGACAUUGUUGG
..........................................((....))......((((((.....))))))......................... ( -7.89 =  -8.87 +   0.98)

alignment

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secondary structure

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dotplot

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Window 3

Location 18,816,546 – 18,816,643
Length 97
Sequences 7
Columns 98
Reading direction reverse
Mean pairwise identity 59.40
Shannon entropy 0.79897
G+C content 0.59461
Mean single sequence MFE -33.89
Consensus MFE -11.69
Energy contribution -12.49
Covariance contribution 0.80
Combinations/Pair 1.62
Mean z-score -1.47
Structure conservation index 0.34
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.20
SVM RNA-class probability 0.907879
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 18816546 97 - 27905053
CCAACAAUGUCUCCGUGGAAGUUCACGCUGCACUAGGCAGCGGCGCGUGCUUCCGCU-GGUCUUAAAACGGGAUGGCGGGAGCGGGAUUUGGGGGUCC
((..(((.((((((((((.....).((((((.....)))))).)))).(((((((((-(.((((.....))))))))))))))))))))))..))... ( -40.70, z-score =  -1.77, R)
>droSim1.chr3R 18630647 95 - 27517382
CCAACAAUGUCUCCGUGGAAGUUGCCGCUGCACUAGGCAGCGGCGCGUGCUUCCGCU-GGUCUUAAAAGGGGAAG--GGUAGCGGGAUUUGGGGGUCC
((..(((.(((.((..(((((((((((((((.....)))))))))...))))))(((-(.((((........)))--).))))))))))))..))... ( -43.70, z-score =  -2.83, R)
>droSec1.super_0 19180510 95 - 21120651
CCAACAAUGUCUCCGUGGAAGUUGCCGCUGCACUAGGCAGCGGCGCGUGCUUCCGCU-GGUCUUAAAAGGGGAAG--GGUAGCGGGAUUUGGGGGUCC
((..(((.(((.((..(((((((((((((((.....)))))))))...))))))(((-(.((((........)))--).))))))))))))..))... ( -43.70, z-score =  -2.83, R)
>droYak2.chr3R 19676611 89 - 28832112
CCAACAAUGUCGUCGUGGAAGUUGGCGCUGCACUAGGCAGCGGCGCGUGCUUCCGCUGGGUUUUCAAAAGGGGAAGAUGGAGCGGGAUU---------
((..(....(((((((((((((..(((((((........)))))))..))))))))....((..(....)..)).))))).)..))...--------- ( -34.10, z-score =  -1.57, R)
>droEre2.scaffold_4820 1217555 81 + 10470090
------------CCAACAAUGUCGUCGUCGUGGAAGUUGGCGGCGCGUGCUUCCGCU-GGAUUUGAGCGGGAAGA--UGGCGCGGGAUU--GGGGUCC
------------.(..((((.(((((((((.......)))))))((((.((((((((-.......))).))))).--..)))))).)))--)..)... ( -30.50, z-score =  -0.69, R)
>droAna3.scaffold_13340 11193770 78 + 23697760
CCAACAAUGUCCUCGUGGAUGUUGCCGCUGCACUAGGCAGCGGCGCGUGCUUCC----GGUCUUGUCGGGUUU----UGGAGCUUC------------
((((.(((((((....)))))))((((((((.....)))))))).......(((----((.....)))))..)----)))......------------ ( -30.00, z-score =  -1.31, R)
>droVir3.scaffold_12822 4002777 81 + 4096053
UUGCUAUCGUCCUCACGAGUCUGUCUGCUACAUU----UCCAAGAUGCUCUUCCGUU-GCUGCGCAGAAAUCACGGCCUUAGCUAC------------
..((((((((....))))((((((((((..((((----.....)))).......((.-...)))))))...)).)))..))))...------------ ( -14.50, z-score =   0.73, R)
>consensus
CCAACAAUGUCUCCGUGGAAGUUGCCGCUGCACUAGGCAGCGGCGCGUGCUUCCGCU_GGUCUUAAAAGGGGAAG__GGGAGCGGGAUU__GGGGUCC
..............(((((.((...((((((........))))))...)).))))).......................................... (-11.69 = -12.49 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:36:57 2011