Locus 10016

Sequence ID dm3.chr3R
Location 10,580,700 – 10,580,797
Length 97
Max. P 0.968057
window13766 window13767

overview

Window 6

Location 10,580,700 – 10,580,791
Length 91
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 77.73
Shannon entropy 0.36965
G+C content 0.45178
Mean single sequence MFE -18.82
Consensus MFE -13.56
Energy contribution -12.64
Covariance contribution -0.92
Combinations/Pair 1.32
Mean z-score -2.08
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.79
SVM RNA-class probability 0.968057
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 10580700 91 + 27905053
CUUUGUAUUCCUCGACUUGUGAUAUUUCGCACAUUCGACAACUCACACACAUGUGUGUGUAUGUAUGUACGCA---------------CCCCCCUAACCCGCCCCU
....((((...((((..(((((....)))))...))))..((..((((((....))))))..))..))))...---------------.................. ( -17.80, z-score =  -2.03, R)
>droEre2.scaffold_4770 10114426 85 + 17746568
CUUUGUAUUUCU-GACUUGUGAUAUUUCGCACAUUCGACAAUUCACACACAUGUGUGUAUGUAAGCAC--------------------CCCCCUGCACCCGCCCCU
...........(-((..(((((....)))))...)))(((...(((((....)))))..)))..(((.--------------------.....))).......... ( -14.00, z-score =  -1.14, R)
>droYak2.chr3R 12982671 96 - 28832112
UUUUGUAUUUCU-GACUUGUGAUAUUUCGCACAUUCGACAAUUCACACACACAUGUGUGUGUAUGUACAUAUAUA---------AGCCCCCACUGCACCCGCCCCU
.(((((((...(-(...(((((....)))))......(((...(((((((....)))))))..))).)).)))))---------))........((....)).... ( -18.10, z-score =  -1.44, R)
>droSec1.super_0 9767603 105 - 21120651
CUUUGUAUUCCU-GACUUGCGAUAUUUCGCACAUUCGACAAUUUACACACAUGUGUGUGUAAGUAUGUAUGUAUGUAGGUAAGCACACCCCCCUCAACCCGCCCCU
...(((...(((-(...(((((....)))))(((.(((((((((((((((....)))))))))).))).)).)))))))...)))..................... ( -25.80, z-score =  -2.55, R)
>droSim1.chr3R 16637009 93 - 27517382
CUUUGUAUUCCU-GACUUGCGAUAUUUCGCACAUUCGACAAUUUACACACAAGUGUGUGUAUGUACAUAUAUA------------CAUCCCCCUCAACCCGCCCCU
...(((((...(-(((.(((((....)))))............(((((((....))))))).)).))...)))------------))................... ( -18.40, z-score =  -3.22, R)
>consensus
CUUUGUAUUCCU_GACUUGUGAUAUUUCGCACAUUCGACAAUUCACACACAUGUGUGUGUAUGUAUAUAUAUA_______________CCCCCUCAACCCGCCCCU
...(((((.....((..(((((....)))))...)).......(((((((....))))))).)))))....................................... (-13.56 = -12.64 +  -0.92)

alignment

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secondary structure

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dotplot

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Window 7

Location 10,580,706 – 10,580,797
Length 91
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 78.14
Shannon entropy 0.36284
G+C content 0.46456
Mean single sequence MFE -21.96
Consensus MFE -17.36
Energy contribution -17.00
Covariance contribution -0.36
Combinations/Pair 1.20
Mean z-score -1.63
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.33
SVM RNA-class probability 0.927387
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 10580706 91 + 27905053
AUUCCUCGACUUGUGAUAUUUCGCACAUUCGACAACUCACACACAUGUGUGUGUAUGUAUGUACGCA---------------CCCCCCUAACCCGCCCCUGGGAAA
.....((((..(((((....)))))...))))................((((((((....)))))))---------------)........((((....))))... ( -20.70, z-score =  -1.45, R)
>droEre2.scaffold_4770 10114432 85 + 17746568
AUUUCU-GACUUGUGAUAUUUCGCACAUUCGACAAUUCACACACAUGUGUGUAUGUAAGCAC--------------------CCCCCUGCACCCGCCCCUGGGAAA
.....(-((..(((((....)))))...)))(((...(((((....)))))..)))..(((.--------------------.....))).((((....))))... ( -18.20, z-score =  -1.02, R)
>droYak2.chr3R 12982677 96 - 28832112
AUUUCU-GACUUGUGAUAUUUCGCACAUUCGACAAUUCACACACACAUGUGUGUGUAUGUACAUAUAUA---------AGCCCCCACUGCACCCGCCCCUGGGAAA
.....(-((..(((((....)))))...)))(((...(((((((....)))))))..))).........---------....((((..((....))...))))... ( -22.50, z-score =  -1.52, R)
>droSec1.super_0 9767609 105 - 21120651
AUUCCU-GACUUGCGAUAUUUCGCACAUUCGACAAUUUACACACAUGUGUGUGUAAGUAUGUAUGUAUGUAGGUAAGCACACCCCCCUCAACCCGCCCCUGGGAAA
...(((-(...(((((....)))))(((.(((((((((((((((....)))))))))).))).)).)))))))..................((((....))))... ( -27.90, z-score =  -1.89, R)
>droSim1.chr3R 16637015 93 - 27517382
AUUCCU-GACUUGCGAUAUUUCGCACAUUCGACAAUUUACACACAAGUGUGUGUAUGUACAUAUAUA------------CAUCCCCCUCAACCCGCCCCUGGGAAA
.(((((-((..(((((....)))))...))((.....(((((((....)))))))((((......))------------))......))...........))))). ( -20.50, z-score =  -2.26, R)
>consensus
AUUCCU_GACUUGUGAUAUUUCGCACAUUCGACAAUUCACACACAUGUGUGUGUAUGUAUAUAUAUA_______________CCCCCUCAACCCGCCCCUGGGAAA
.......((..(((((....)))))...))....((.(((((((....))))))).)).................................((((....))))... (-17.36 = -17.00 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:15:47 2011