Locus 9989

Sequence ID dm3.chr3R
Location 10,329,808 – 10,329,932
Length 124
Max. P 0.983134
window13729 window13730

overview

Window 9

Location 10,329,808 – 10,329,899
Length 91
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 90.69
Shannon entropy 0.16992
G+C content 0.57778
Mean single sequence MFE -28.88
Consensus MFE -27.58
Energy contribution -27.58
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.08
Structure conservation index 0.95
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.49
SVM RNA-class probability 0.717684
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 10329808 91 + 27905053
UUUCGUGUCACAGCGACUACUGUGCGGCGAUAGCGGUACAUUUGUAUCGUUAGUGGGCCCAGUUCCGCCGGUCCAGUUCCCCCGAACUCCC---------
..((((..(((((......)))))..))))(((((((((....))))))))).((((((..........))))))((((....))))....--------- ( -29.70, z-score =  -1.47, R)
>droSim1.chr3R 16390157 91 - 27517382
UUUCGUGUCACAGCGACUACUGUGCGGCGAUAGCGGUACAUUUGUAUCGUUAGUGGGCCCAGUUCCGCCGGUCCAGUUCCCCCGGUCUCCC---------
..((((..(((((......)))))..))))(((((((((....))))))))).((((((..........))))))................--------- ( -27.50, z-score =  -0.45, R)
>droSec1.super_0 9408498 91 - 21120651
UUUCGUGUCACAGCGACUACUGUGUGGCGAUAGCGGUACAUUUGUAUCGUUAGUGGGCCCAGUUCCGCCGGUCCAGUUCCCCCGAACUCCC---------
..((((..(((((......)))))..))))(((((((((....))))))))).((((((..........))))))((((....))))....--------- ( -30.10, z-score =  -1.78, R)
>droYak2.chr3R 12724190 100 - 28832112
UUUCGUGUCACAGCGACUACUGUGCGGCGAUAGCGGUACAUUUGUAUCGUUAGUGGGCCCAGUUCCGCCGGUCCAGUUCCCCCCAACUCUCCAAACUUCC
..((((..(((((......)))))..))))(((((((((....))))))))).((((((..........))))))......................... ( -27.50, z-score =  -1.05, R)
>droEre2.scaffold_4770 9861587 98 + 17746568
UUUCGUGUCACAGCGACUACUGUGCGGCGAUAGCGGUACAUUUGUAUCGUUAGUGGGCCCAGUUCCGCCGGUCCAGUUCCCCCAACUGCCCAACUGCC--
..((((..(((((......)))))..))))(((((((((....)))))))))(((((......))))).((..(((((.....))))).)).......-- ( -29.60, z-score =  -0.62, R)
>consensus
UUUCGUGUCACAGCGACUACUGUGCGGCGAUAGCGGUACAUUUGUAUCGUUAGUGGGCCCAGUUCCGCCGGUCCAGUUCCCCCGAACUCCC_________
..((((..(((((......)))))..))))(((((((((....))))))))).((((((..........))))))......................... (-27.58 = -27.58 +   0.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 10,329,833 – 10,329,932
Length 99
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 85.81
Shannon entropy 0.24220
G+C content 0.62003
Mean single sequence MFE -32.65
Consensus MFE -26.20
Energy contribution -26.52
Covariance contribution 0.32
Combinations/Pair 1.19
Mean z-score -2.60
Structure conservation index 0.80
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.12
SVM RNA-class probability 0.983134
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 10329833 99 + 27905053
GGCGAUAGCGGUACAUUUGUAUCGUUAGUGGGCCCAGUUCCGCCGGUCCAGUUCCCCCGAACUCCC--------------CGCCGCCUACCGCCCAACGUC---CAAAUCCCAUAU
((((.(((((((((....))))))))).(((((...((..((.(((...(((((....)))))..)--------------)).))...)).))))).))))---............ ( -31.60, z-score =  -3.29, R)
>droSim1.chr3R 16390182 99 - 27517382
GGCGAUAGCGGUACAUUUGUAUCGUUAGUGGGCCCAGUUCCGCCGGUCCAGUUCCCCCGGUCUCCC--------------CGCCGCCCGCCGCCCAACGUC---CAAAACCCAUAU
((((.(((((((((....)))))))))((((((........(((((..........))))).....--------------....)))))))))).......---............ ( -33.33, z-score =  -2.82, R)
>droSec1.super_0 9408523 99 - 21120651
GGCGAUAGCGGUACAUUUGUAUCGUUAGUGGGCCCAGUUCCGCCGGUCCAGUUCCCCCGAACUCCC--------------CGCCGCCCGCCGCCCAACGUC---CAAAACCCAUAU
((((.(((((((((....)))))))))((((((........(.(((...(((((....)))))..)--------------)).))))))))))).......---............ ( -32.10, z-score =  -2.96, R)
>droYak2.chr3R 12724215 111 - 28832112
GGCGAUAGCGGUACAUUUGUAUCGUUAGUGGGCCCAGUUCCGCCGGUCCAGUUCCCCCCAACUCUCCAAACUUC-----CCGCCGCCCAACGUCCAACGUCGACCAAAUCCCAUAU
((((.(((((((((....)))))))))(((((...((((.....((...((((......))))..)).)))).)-----))))))))(.(((.....))).).............. ( -27.40, z-score =  -2.01, R)
>droEre2.scaffold_4770 9861612 113 + 17746568
GGCGAUAGCGGUACAUUUGUAUCGUUAGUGGGCCCAGUUCCGCCGGUCCAGUUCCCCCAACUGCCCAACUGCCCGCCGACCGCCGCCCGCCGCCCGACGGC---CAAAUCCCAUAU
((((.(((((((((....)))))))))((((((..((((.....((..(((((.....))))).))))))))))))....))))....((((.....))))---............ ( -38.80, z-score =  -1.94, R)
>consensus
GGCGAUAGCGGUACAUUUGUAUCGUUAGUGGGCCCAGUUCCGCCGGUCCAGUUCCCCCGAACUCCC______________CGCCGCCCGCCGCCCAACGUC___CAAAUCCCAUAU
((((.(((((((((....)))))))))((((((((.(.....).))...(((((....))))).....................))))))))))...................... (-26.20 = -26.52 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:15:17 2011