Locus 7818

Sequence ID dm3.chr3L
Location 17,531,508 – 17,531,583
Length 75
Max. P 0.998632
window10757 window10758

overview

Window 7

Location 17,531,508 – 17,531,583
Length 75
Sequences 6
Columns 75
Reading direction forward
Mean pairwise identity 73.56
Shannon entropy 0.50931
G+C content 0.54508
Mean single sequence MFE -27.68
Consensus MFE -21.85
Energy contribution -22.27
Covariance contribution 0.42
Combinations/Pair 1.11
Mean z-score -2.54
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.43
SVM RNA-class probability 0.998632
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 17531508 75 + 24543557
UAUACUUUUACCCAGGCCAGCGUACGCGGCGUAUGCGUAAUCGCGGACAUUAAGCAUACGCUGCGUGGGUCAGGC
...............(((.((.((((((((((((((.((((.......)))).)))))))))))))).))..))) ( -32.10, z-score =  -2.85, R)
>droEre2.scaffold_4784 9438772 67 - 25762168
UGAAAUUUUACCCAGGCCAGCAUACGCGGCGUAUGCGUAAUCGCGGACAUCAAGCAUACGCUGCGUG--------
......................((((((((((((((.................))))))))))))))-------- ( -23.33, z-score =  -1.79, R)
>droYak2.chr3L 7656380 61 - 24197627
--------------UGCCAGCAUACGCGGCGUAUGCGUAAUCGCGCACAUCAAGCAUACGCUGCGUGAGCCAGGC
--------------.(((.((.((((((((((((((.................)))))))))))))).))..))) ( -30.43, z-score =  -3.32, R)
>droSim1.chr3L 16863484 75 + 22553184
UGUACUUUUACCCAGGCCAGCAUACGCGGCGUAUGCGUAAUCGCGGACAUUAAGCAUACGCUGCGUGGGUCAGGC
...........((.((((....((((((((((((((.((((.......)))).)))))))))))))))))).)). ( -30.90, z-score =  -2.50, R)
>droSec1.super_0 9576048 69 + 21120651
UGUACUUUUACCCUGCCCAGCAUACGCGGCGUAUGCGUAAUCGCGGACAUUAAGCAUACGCUGCGUGGG------
..........((((((...))).(((((((((((((.((((.......)))).))))))))))))))))------ ( -27.90, z-score =  -2.42, R)
>droMoj3.scaffold_6680 19529265 68 - 24764193
-------UAGAUGUUGGCAGCGAACGUUGCGUAUGCGUAAUCACAGACAUUAAGUAUACGCAUCCUAUGGCCAAC
-------.....((((((.........(((((((((.((((.......)))).))))))))).......)))))) ( -21.39, z-score =  -2.38, R)
>consensus
UGUACUUUUACCCAGGCCAGCAUACGCGGCGUAUGCGUAAUCGCGGACAUUAAGCAUACGCUGCGUGGG_CAGGC
......................((((((((((((((.((((.......)))).))))))))))))))........ (-21.85 = -22.27 +   0.42)

alignment

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secondary structure

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dotplot

Postscript

Window 8

Location 17,531,508 – 17,531,583
Length 75
Sequences 6
Columns 75
Reading direction reverse
Mean pairwise identity 73.56
Shannon entropy 0.50931
G+C content 0.54508
Mean single sequence MFE -25.85
Consensus MFE -18.27
Energy contribution -18.55
Covariance contribution 0.28
Combinations/Pair 1.06
Mean z-score -1.70
Structure conservation index 0.71
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.22
SVM RNA-class probability 0.986083
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 17531508 75 - 24543557
GCCUGACCCACGCAGCGUAUGCUUAAUGUCCGCGAUUACGCAUACGCCGCGUACGCUGGCCUGGGUAAAAGUAUA
..((.(((((.(((((((((((....(((..(((....)))..)))..))))))))).)).)))))...)).... ( -29.30, z-score =  -2.17, R)
>droEre2.scaffold_4784 9438772 67 + 25762168
--------CACGCAGCGUAUGCUUGAUGUCCGCGAUUACGCAUACGCCGCGUAUGCUGGCCUGGGUAAAAUUUCA
--------.((((.((((((((.(((((....).)))).)))))))).)))).((((......))))........ ( -22.30, z-score =  -0.77, R)
>droYak2.chr3L 7656380 61 + 24197627
GCCUGGCUCACGCAGCGUAUGCUUGAUGUGCGCGAUUACGCAUACGCCGCGUAUGCUGGCA--------------
(((.(((..((((.((((((((.(((((....).)))).)))))))).))))..)))))).-------------- ( -31.00, z-score =  -2.85, R)
>droSim1.chr3L 16863484 75 - 22553184
GCCUGACCCACGCAGCGUAUGCUUAAUGUCCGCGAUUACGCAUACGCCGCGUAUGCUGGCCUGGGUAAAAGUACA
..((.(((((.(((((((((((....(((..(((....)))..)))..))))))))).)).)))))...)).... ( -27.50, z-score =  -1.60, R)
>droSec1.super_0 9576048 69 - 21120651
------CCCACGCAGCGUAUGCUUAAUGUCCGCGAUUACGCAUACGCCGCGUAUGCUGGGCAGGGUAAAAGUACA
------(((((((.((((((((.(((((....).)))).)))))))).)))).(((...)))))).......... ( -26.00, z-score =  -1.46, R)
>droMoj3.scaffold_6680 19529265 68 + 24764193
GUUGGCCAUAGGAUGCGUAUACUUAAUGUCUGUGAUUACGCAUACGCAACGUUCGCUGCCAACAUCUA-------
((((((....((((((((((.(.((((.......)))).).)))))))...)))...)))))).....------- ( -19.00, z-score =  -1.33, R)
>consensus
GCCUG_CCCACGCAGCGUAUGCUUAAUGUCCGCGAUUACGCAUACGCCGCGUAUGCUGGCCUGGGUAAAAGUACA
.........((((.((((((((.((((.......)))).)))))))).))))....................... (-18.27 = -18.55 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:34:02 2011