Locus 10764

Sequence ID dm3.chr3R
Location 16,311,188 – 16,311,285
Length 97
Max. P 0.958057
window14788 window14789

overview

Window 8

Location 16,311,188 – 16,311,285
Length 97
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 80.84
Shannon entropy 0.33326
G+C content 0.41044
Mean single sequence MFE -25.94
Consensus MFE -14.86
Energy contribution -15.94
Covariance contribution 1.08
Combinations/Pair 1.06
Mean z-score -2.18
Structure conservation index 0.57
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.72
SVM RNA-class probability 0.798170
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 16311188 97 + 27905053
UGUAAUGUAGGACGCAAUAAAUGGCGCGGAAUGGGUGACAGAAGUCCACCCAUCGCAAGAGUAUUGGGAAAUAAAUGAUUAUAUGAUUAUAUAUAAA
............(.(((((....(((....(((((((((....)).)))))))))).....))))).)..(((.((((((....)))))).)))... ( -21.70, z-score =  -1.51, R)
>droSim1.chr3R 22353685 96 - 27517382
UGUAAUGUAGGACGCAAUCAAUGGCGCGGAAUGGGUGGCAGAAGUCCACCCAUCGCAAGU-UAUUGGGAAAUAUAUGAUUAUAUGAUUAUAUAUAAA
.................(((((((((((..(((((((((....).)))))))))))..))-))))))...((((((((((....))))))))))... ( -28.80, z-score =  -2.80, R)
>droSec1.super_27 372984 96 - 799419
UGUAAUGUAGGACGCAAUCAAUGGCGCCGAAUGGGUGGCAGAAGUCCACCCAUCGCAAGU-UAUUGGGAAAUAAAUGAUUAUAUGAUUAUAUAUAAA
.................((((((((..(((.((((((((....).))))))))))...))-))))))...(((.((((((....)))))).)))... ( -24.80, z-score =  -1.51, R)
>droYak2.chr3R 5089811 79 + 28832112
UGCAAUGUAGGACGCAAUAAAUGGCGCUGACUGGGUGGCAGAAGUCCACCCAUCGCCAUU-UAUUGGGAAAUGAAUGAAU-----------------
............(.((((((((((((.....((((((((....).))))))).)))))))-))))).)............----------------- ( -29.90, z-score =  -3.63, R)
>droEre2.scaffold_4770 12385743 86 - 17746568
UGUAAUGUAGGACGCAAUAAAUGGCGCGGAAUGGCCG-CAUAAGUCCGCCCUUCGCCAUU-UAUUGGGAAAUGAAUGACUAUAUAUAG---------
....((((((..(.((((((((((((.((..(((.(.-.....).)))..)).)))))))-))))).)..........))))))....--------- ( -24.50, z-score =  -1.46, R)
>consensus
UGUAAUGUAGGACGCAAUAAAUGGCGCGGAAUGGGUGGCAGAAGUCCACCCAUCGCAAGU_UAUUGGGAAAUAAAUGAUUAUAUGAUUAUAUAUAAA
............(.(((((....(((....((((((((.......))))))))))).....))))).)............................. (-14.86 = -15.94 +   1.08)

alignment

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secondary structure

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dotplot

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Window 9

Location 16,311,188 – 16,311,285
Length 97
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 80.84
Shannon entropy 0.33326
G+C content 0.41044
Mean single sequence MFE -22.40
Consensus MFE -13.62
Energy contribution -13.98
Covariance contribution 0.36
Combinations/Pair 1.14
Mean z-score -2.53
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.65
SVM RNA-class probability 0.958057
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 16311188 97 - 27905053
UUUAUAUAUAAUCAUAUAAUCAUUUAUUUCCCAAUACUCUUGCGAUGGGUGGACUUCUGUCACCCAUUCCGCGCCAUUUAUUGCGUCCUACAUUACA
.((((((......))))))............(((((....(((((((((((.((....)))))))))..)))).....))))).............. ( -17.90, z-score =  -2.11, R)
>droSim1.chr3R 22353685 96 + 27517382
UUUAUAUAUAAUCAUAUAAUCAUAUAUUUCCCAAUA-ACUUGCGAUGGGUGGACUUCUGCCACCCAUUCCGCGCCAUUGAUUGCGUCCUACAUUACA
........((((((((((....))))..........-....(((((((((((.(....)))))))))..))).....)))))).............. ( -19.90, z-score =  -1.86, R)
>droSec1.super_27 372984 96 + 799419
UUUAUAUAUAAUCAUAUAAUCAUUUAUUUCCCAAUA-ACUUGCGAUGGGUGGACUUCUGCCACCCAUUCGGCGCCAUUGAUUGCGUCCUACAUUACA
.((((((......)))))).................-......(((((((((.(....)))))))))).(((((........))))).......... ( -21.60, z-score =  -2.09, R)
>droYak2.chr3R 5089811 79 - 28832112
-----------------AUUCAUUCAUUUCCCAAUA-AAUGGCGAUGGGUGGACUUCUGCCACCCAGUCAGCGCCAUUUAUUGCGUCCUACAUUGCA
-----------------..............(((((-(((((((.(((((((.(....)))))))).....)))))))))))).............. ( -30.00, z-score =  -4.91, R)
>droEre2.scaffold_4770 12385743 86 + 17746568
---------CUAUAUAUAGUCAUUCAUUUCCCAAUA-AAUGGCGAAGGGCGGACUUAUG-CGGCCAUUCCGCGCCAUUUAUUGCGUCCUACAUUACA
---------......................(((((-(((((((...(((.(.(....)-).)))......)))))))))))).............. ( -22.60, z-score =  -1.68, R)
>consensus
UUUAUAUAUAAUCAUAUAAUCAUUUAUUUCCCAAUA_ACUUGCGAUGGGUGGACUUCUGCCACCCAUUCCGCGCCAUUUAUUGCGUCCUACAUUACA
...........................................(((((((((.(....))))))))))..((((........))))........... (-13.62 = -13.98 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:29:59 2011