Locus 10291

Sequence ID dm3.chr3R
Location 12,728,569 – 12,728,661
Length 92
Max. P 0.949184
window14152 window14153

overview

Window 2

Location 12,728,569 – 12,728,661
Length 92
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 68.43
Shannon entropy 0.52774
G+C content 0.59261
Mean single sequence MFE -30.33
Consensus MFE -14.80
Energy contribution -15.20
Covariance contribution 0.40
Combinations/Pair 1.33
Mean z-score -1.94
Structure conservation index 0.49
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.55
SVM RNA-class probability 0.949184
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 12728569 92 + 27905053
------CCAUCUCCAUCUCCAGCUCCAGCUA--CAUCGGCAUGGCCGUUGCCAUCGUCUGCCAGCGAUUCAGCCAGCCAAAUGGCGAUGGCAUCUUGCCA
------..............(((....))).--....((((..(((((((((((.....((..((......))..))...)))))))))))....)))). ( -31.60, z-score =  -2.00, R)
>droEre2.scaffold_4770 8841959 86 - 17746568
------------CCAUCGCCAUCGCCUUCUC--CAUCUCCAGCUCCAGCUCCGUCGUCUGCCAGCGAUUCAGCCAGCCAAAUGGCGAUGGCAUCUUGCCA
------------.....(((((((((.....--........(((...(((..(((((......)))))..))).))).....)))))))))......... ( -26.27, z-score =  -2.44, R)
>droYak2.chr3R 17171556 98 - 28832112
CCAUCUCCUUCGCCAUCUCCAGCUCCAGCUA--CAUCGGCAUGGCCGUUGCCAUCGUCUGCCAGCGAUUCAGCCAGCCAAAUGGCGAUGGCAUCUUGCCA
.........(((((((....(((....))).--....(((.(((((((((.((.....)).))))).....)))))))..)))))))((((.....)))) ( -33.00, z-score =  -2.00, R)
>droSim1.chr3R 18772988 80 - 27517382
------------------CCAUCUCCAGCUA--CAUCGGCAUGGCCGUUGCCAUCGUCUGCCAGCGAUUCAGCCAGCCAAAUGGCGAUGGCAUCUUGCCA
------------------.............--....((((..(((((((((((.....((..((......))..))...)))))))))))....)))). ( -29.50, z-score =  -1.88, R)
>droWil1.scaffold_181130 11810626 76 - 16660200
------------------------CCAGCCAGCCAUCCAAACGACGAUGACUGGCGUUGGCGUUGGCGUUGGCAAUGGCAAUGGCGAUGGCAUCUUGCCA
------------------------...(((((.((((........)))).)))))((..(((....)))..))..((((((..((....))...)))))) ( -31.30, z-score =  -1.36, R)
>consensus
____________CCAUC_CCAGCUCCAGCUA__CAUCGGCAUGGCCGUUGCCAUCGUCUGCCAGCGAUUCAGCCAGCCAAAUGGCGAUGGCAUCUUGCCA
..........................................(((...((((((((((.....((..........)).....))))))))))....))). (-14.80 = -15.20 +   0.40)

alignment

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secondary structure

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dotplot

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Window 3

Location 12,728,569 – 12,728,661
Length 92
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 68.43
Shannon entropy 0.52774
G+C content 0.59261
Mean single sequence MFE -32.30
Consensus MFE -15.52
Energy contribution -17.04
Covariance contribution 1.52
Combinations/Pair 1.33
Mean z-score -1.32
Structure conservation index 0.48
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.23
SVM RNA-class probability 0.601833
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 12728569 92 - 27905053
UGGCAAGAUGCCAUCGCCAUUUGGCUGGCUGAAUCGCUGGCAGACGAUGGCAACGGCCAUGCCGAUG--UAGCUGGAGCUGGAGAUGGAGAUGG------
..........(((((.(((((((((((((((.(((((.....).)))).....)))))).)))....--((((....)))).)))))).)))))------ ( -33.70, z-score =  -0.96, R)
>droEre2.scaffold_4770 8841959 86 + 17746568
UGGCAAGAUGCCAUCGCCAUUUGGCUGGCUGAAUCGCUGGCAGACGACGGAGCUGGAGCUGGAGAUG--GAGAAGGCGAUGGCGAUGG------------
..........(((((((((((..(((..((..(((.(..((((.(......)))...))..).))).--.))..))))))))))))))------------ ( -32.20, z-score =  -2.04, R)
>droYak2.chr3R 17171556 98 + 28832112
UGGCAAGAUGCCAUCGCCAUUUGGCUGGCUGAAUCGCUGGCAGACGAUGGCAACGGCCAUGCCGAUG--UAGCUGGAGCUGGAGAUGGCGAAGGAGAUGG
((((.....))))((((((((((((((((((.(((((.....).)))).....)))))).)))....--((((....)))).)))))))))......... ( -38.40, z-score =  -1.77, R)
>droSim1.chr3R 18772988 80 + 27517382
UGGCAAGAUGCCAUCGCCAUUUGGCUGGCUGAAUCGCUGGCAGACGAUGGCAACGGCCAUGCCGAUG--UAGCUGGAGAUGG------------------
.(((....((((((((.(.....((..((......))..)).).)))))))).((((...))))...--..)))........------------------ ( -29.30, z-score =  -0.77, R)
>droWil1.scaffold_181130 11810626 76 + 16660200
UGGCAAGAUGCCAUCGCCAUUGCCAUUGCCAACGCCAACGCCAACGCCAGUCAUCGUCGUUUGGAUGGCUGGCUGG------------------------
((((((...((....))..))))))...(((..((....))....((((((((((........)))))))))))))------------------------ ( -27.90, z-score =  -1.07, R)
>consensus
UGGCAAGAUGCCAUCGCCAUUUGGCUGGCUGAAUCGCUGGCAGACGAUGGCAACGGCCAUGCCGAUG__UAGCUGGAGAUGG_GAUGG____________
((((....((((((((...((((.(((((......)))))))))))))))))...))))......................................... (-15.52 = -17.04 +   1.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:21:09 2011