Locus 10151

Sequence ID dm3.chr3R
Location 11,709,583 – 11,709,777
Length 194
Max. P 0.967305
window13959 window13960 window13961

overview

Window 9

Location 11,709,583 – 11,709,687
Length 104
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 65.67
Shannon entropy 0.54735
G+C content 0.59631
Mean single sequence MFE -36.70
Consensus MFE -18.36
Energy contribution -14.64
Covariance contribution -3.72
Combinations/Pair 1.63
Mean z-score -1.34
Structure conservation index 0.50
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.65
SVM RNA-class probability 0.774399
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 11709583 104 - 27905053
-----UUUGCUCCGCCCCGCUUGUCGCUAACUCAGGACACAGCACCGCGUUACAGGUU-----UUUUUUUAGAGCGCGACGCCUCCGGAAGUCGGGACAUCGAGUUGGCAGGAG
-----....((((((...)).....((((((((........((..((((((..(((..-----....)))..))))))..)).(((.(....).)))....)))))))).)))) ( -31.40, z-score =   0.20, R)
>droPer1.super_3 3141011 109 - 7375914
UCCUAUCCUCCCCCCCUACCCUGUCCGCACGGCUGUCGUUAACAUUGUGCU-CAGGUCCACAACUUUCCCAGGGCACACCGUGUCCGGAA----AGACCUCCUGUAGGCGGGGC
..........(((((((((((((...((((((.(((.....))))))))).-)))).......((((((..((((((...))))))))))----)).......))))).)))). ( -42.00, z-score =  -3.10, R)
>dp4.chr2 20393637 109 - 30794189
UCCUAUCCUCCCCCCCUACCCUGUCCGCACGGCUGUCGUUAACAUUGUGCU-CAGGUCCACAACUUUCCCAGGGCACAUCGUGUCCGGAA----AGACCUCCUGUAGGCGGGGC
..........(((((((((((((...((((((.(((.....))))))))).-)))).......((((((..((((((...))))))))))----)).......))))).)))). ( -42.00, z-score =  -3.31, R)
>droSim1.chr3R 17752871 103 + 27517382
-----UUCGUUCCG-CCCGCUGGUCGCCAACUCAGGACACAGCAACGCGUUACAGGUU-----UUUUUUUAGAGCGCGACGCCUCCGGAAGUCGGGACAUGGGGUUGGCAGGAG
-----.....((((-((....))).((((((((........((..((((((..(((..-----....)))..))))))..)).(((.(....).)))....)))))))).))). ( -32.90, z-score =   0.21, R)
>droSec1.super_0 10876005 103 + 21120651
-----UUCGCUCCG-CCCGCUUGUCGCCAACUCAGGACACAGCAACGCGUUACAGGUU-----UUUUUUUAGAGCGCGACGCCUCCGGAAGUCGGGACAUCGGGUUGGCAGGAG
-----.((.(((((-((((..((((.((.((((.(((....((..((((((..(((..-----....)))..))))))..)).))).).))).)))))).)))).))).)))). ( -35.20, z-score =  -0.71, R)
>consensus
_____UUCGCUCCGCCCCGCUUGUCGCCAACUCAGGACACAGCAACGCGUUACAGGUU_____UUUUUUUAGAGCGCGACGCCUCCGGAAGUCGGGACAUCGGGUUGGCAGGAG
...................(((((((((......)).)...((..((((((...((...........))...))))))..))........................)))))).. (-18.36 = -14.64 +  -3.72)

alignment

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secondary structure

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dotplot

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Window 0

Location 11,709,687 – 11,709,777
Length 90
Sequences 5
Columns 101
Reading direction forward
Mean pairwise identity 89.68
Shannon entropy 0.16958
G+C content 0.55462
Mean single sequence MFE -30.08
Consensus MFE -25.78
Energy contribution -25.78
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.68
Structure conservation index 0.86
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.67
SVM RNA-class probability 0.780841
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 11709687 90 + 27905053
GGGAUG--AUGGCAAGUGCAUAAAGCACCGACAGAUAGCUUCGAUGGGACACCAAGCCAGAACGGAGCCA---------GUGGCUCAGCGCCAUCGAUGAU
....((--(((((..((((.....)))).........(((....(((....)))..........(((((.---------..)))))))))))))))..... ( -29.00, z-score =  -1.51, R)
>droSim1.chr3R 17752974 90 - 27517382
GGGAUG--AUGGCAAGUGCAUAAAGCACCGACAGAUAGCUUCGAUGGGACACCAAGCCAGGACGGAGCCA---------GUGGCUCAGCGCCAUCGAUGAU
....((--(((((..((((.....)))).........(((....(((....)))..........(((((.---------..)))))))))))))))..... ( -29.00, z-score =  -1.25, R)
>droSec1.super_0 10876108 90 - 21120651
GGGAUG--AUGGCAAGUGCAUGAAGCACCAAAAGAUAGCUUCGAUGGGACACCAAGCCAGAACGGAGCCA---------GUGGCUCAGCGCCAUCGAUGAU
....((--(((((..(.((.((((((...........)))))).(((....))).)))......(((((.---------..)))))...)))))))..... ( -29.50, z-score =  -1.66, R)
>droYak2.chr3R 14105079 96 - 28832112
-----GGGAUGGCAAGUGCAUAAAGCACCGACAGAUAGCUUCAAUGGGACACCAAACCAGAACGGAGCCAUCGGAGCCAGUGGCUCAGCGCCAUCGAUGAU
-----..((((((..((((.....)))).....(((.(((((..(((.........)))....))))).))).(((((...)))))...))))))...... ( -34.20, z-score =  -2.78, R)
>droEre2.scaffold_4770 11234814 92 + 17746568
GGGAUGGGAUGGCAAGUGCAUAAAGCACCGACAGAUAGCUUCAAUGGGACACCAAACCAGGACGGAGCCA---------GUGGCUCAGCGCCAUCGAUGAU
.......((((((..((((.....)))).........(((....(((....)))..........(((((.---------..))))))))))))))...... ( -28.70, z-score =  -1.20, R)
>consensus
GGGAUG__AUGGCAAGUGCAUAAAGCACCGACAGAUAGCUUCGAUGGGACACCAAGCCAGAACGGAGCCA_________GUGGCUCAGCGCCAUCGAUGAU
........(((((..((((.....)))).........(((....(((....)))..........((((((..........))))))))))))))....... (-25.78 = -25.78 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 11,709,687 – 11,709,777
Length 90
Sequences 5
Columns 101
Reading direction reverse
Mean pairwise identity 89.68
Shannon entropy 0.16958
G+C content 0.55462
Mean single sequence MFE -32.06
Consensus MFE -28.22
Energy contribution -27.94
Covariance contribution -0.28
Combinations/Pair 1.09
Mean z-score -2.28
Structure conservation index 0.88
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.78
SVM RNA-class probability 0.967305
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 11709687 90 - 27905053
AUCAUCGAUGGCGCUGAGCCAC---------UGGCUCCGUUCUGGCUUGGUGUCCCAUCGAAGCUAUCUGUCGGUGCUUUAUGCACUUGCCAU--CAUCCC
....((((((((((..(((((.---------((....))...)))))..)))..)))))))........((.(((((.....))))).))...--...... ( -32.20, z-score =  -2.46, R)
>droSim1.chr3R 17752974 90 + 27517382
AUCAUCGAUGGCGCUGAGCCAC---------UGGCUCCGUCCUGGCUUGGUGUCCCAUCGAAGCUAUCUGUCGGUGCUUUAUGCACUUGCCAU--CAUCCC
....((((((((((..(((((.---------.(((...))).)))))..)))..)))))))........((.(((((.....))))).))...--...... ( -32.90, z-score =  -2.56, R)
>droSec1.super_0 10876108 90 + 21120651
AUCAUCGAUGGCGCUGAGCCAC---------UGGCUCCGUUCUGGCUUGGUGUCCCAUCGAAGCUAUCUUUUGGUGCUUCAUGCACUUGCCAU--CAUCCC
......((((((((..(((((.---------((....))...)))))..))....(((.(((((.(((....))))))))))).....)))))--)..... ( -32.00, z-score =  -2.65, R)
>droYak2.chr3R 14105079 96 + 28832112
AUCAUCGAUGGCGCUGAGCCACUGGCUCCGAUGGCUCCGUUCUGGUUUGGUGUCCCAUUGAAGCUAUCUGUCGGUGCUUUAUGCACUUGCCAUCCC-----
......((((((((((((((...)))))((((((..(((........)))....)))))).)))........(((((.....))))).))))))..----- ( -34.30, z-score =  -2.21, R)
>droEre2.scaffold_4770 11234814 92 - 17746568
AUCAUCGAUGGCGCUGAGCCAC---------UGGCUCCGUCCUGGUUUGGUGUCCCAUUGAAGCUAUCUGUCGGUGCUUUAUGCACUUGCCAUCCCAUCCC
......(((((.((.(((((..---------.))))).))..((((..(((((.....((((((.(((....))))))))).))))).))))..))))).. ( -28.90, z-score =  -1.51, R)
>consensus
AUCAUCGAUGGCGCUGAGCCAC_________UGGCUCCGUUCUGGCUUGGUGUCCCAUCGAAGCUAUCUGUCGGUGCUUUAUGCACUUGCCAU__CAUCCC
....((((((((((..(((((.....................)))))..)))..)))))))........((.(((((.....))))).))........... (-28.22 = -27.94 +  -0.28)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:18:29 2011