Locus 12314

Sequence ID dm3.chr3R
Location 27,307,339 – 27,307,436
Length 97
Max. P 0.829383
window16927 window16928

overview

Window 7

Location 27,307,339 – 27,307,436
Length 97
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 89.97
Shannon entropy 0.18272
G+C content 0.52434
Mean single sequence MFE -36.67
Consensus MFE -31.61
Energy contribution -31.53
Covariance contribution -0.08
Combinations/Pair 1.18
Mean z-score -1.73
Structure conservation index 0.86
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.83
SVM RNA-class probability 0.829383
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 27307339 97 + 27905053
------CGGUGGCGGCGGCGGUGGCCCCGUUGUGCUGUUAAUGUUGGCAUUUAUAUGCCAUAGAGUUUUUAAUGCGAUUAGCGCAAUUAAUCGCCCGUCGCCG
------....((((((((((((......(((((((((.......((((((....))))))....((.......))...)))))))))..)))).)))))))). ( -38.10, z-score =  -1.73, R)
>droSim1.chr3R 26939057 97 + 27517382
------CGGUGGCGGCGGCGGUGUCCCCGUUGUGCUGUUAAUGUUGGCAUUUAUAUGCCAUAGAGUUCUUAAUGCGAUUAGCGCAAUUAAUCGCCCGUCGCCG
------....((((((((((((......(((((((((.......((((((....))))))....((.......))...)))))))))..)))).)))))))). ( -38.10, z-score =  -2.36, R)
>droSec1.super_4 6106842 97 + 6179234
------CGGUGGCGGCGGCGGUGGCCCCGUUGUGCUGUUAAUGUUGGCAUUUAUAUGCCAUAGAGUUCUUAAUGCGAUUAGCGCAAUUAAUCGCCCGUCGCCG
------....((((((((((((......(((((((((.......((((((....))))))....((.......))...)))))))))..)))).)))))))). ( -38.10, z-score =  -1.64, R)
>droYak2.chr3R 28240439 103 + 28832112
CGGUGGCUGUGGCGGCGGCACUGGCCCCGUUGUGCUCUUAAUGCUGGCAUUUAUAUGCCAUAGAGUUCUUAAUGCGAUUAGUGCAAUUAAUUGCCCGUCGCCG
(((((((.(..((((.(((....)))))))..)(((((......((((((....)))))).))))).......(((((((((...)))))))))..))))))) ( -39.90, z-score =  -1.91, R)
>droEre2.scaffold_4820 9792996 97 - 10470090
------CGGUGGCGGCGGCGCUGGCCCCGUUGUGCUCUUAAUGUUGGCAUUUAUAUGCCAUAGCGUUCUUAAUGCGAUUAGUGCAAUUAAUUGCCCGUCGCCG
------(((((((((.(((((((....(((((......))))).((((((....)))))))))))))......(((((((((...)))))))))))))))))) ( -38.00, z-score =  -2.01, R)
>droAna3.scaffold_13340 16433969 94 + 23697760
---------UGGUGGCGGUGGUGGACCCGCUGUGCUCUUAAUGUUGGCAUUUAUAUGCCAUAGAGUUCUUAAUGCGAUUAGUGCAAUUAAUUGCCAGUCCAUG
---------((((((((((..((.((.(((.(.(((((......((((((....)))))).))))).).....)))....)).))....)))))))..))).. ( -27.80, z-score =  -0.75, R)
>consensus
______CGGUGGCGGCGGCGGUGGCCCCGUUGUGCUCUUAAUGUUGGCAUUUAUAUGCCAUAGAGUUCUUAAUGCGAUUAGCGCAAUUAAUCGCCCGUCGCCG
..........((((((((((((......((((((((........((((((....))))))....((.......))....))))))))..)))))).)))))). (-31.61 = -31.53 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 27,307,339 – 27,307,436
Length 97
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 89.97
Shannon entropy 0.18272
G+C content 0.52434
Mean single sequence MFE -29.95
Consensus MFE -23.09
Energy contribution -24.12
Covariance contribution 1.03
Combinations/Pair 1.04
Mean z-score -1.86
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.30
SVM RNA-class probability 0.633675
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 27307339 97 - 27905053
CGGCGACGGGCGAUUAAUUGCGCUAAUCGCAUUAAAAACUCUAUGGCAUAUAAAUGCCAACAUUAACAGCACAACGGGGCCACCGCCGCCGCCACCG------
.((((.((((((((((.......))))))).............((((((....))))))...............(((.....)))))).))))....------ ( -31.60, z-score =  -2.11, R)
>droSim1.chr3R 26939057 97 - 27517382
CGGCGACGGGCGAUUAAUUGCGCUAAUCGCAUUAAGAACUCUAUGGCAUAUAAAUGCCAACAUUAACAGCACAACGGGGACACCGCCGCCGCCACCG------
.((((.((((((((((.......))))))).............((((((....))))))...............(((.....)))))).))))....------ ( -31.60, z-score =  -2.62, R)
>droSec1.super_4 6106842 97 - 6179234
CGGCGACGGGCGAUUAAUUGCGCUAAUCGCAUUAAGAACUCUAUGGCAUAUAAAUGCCAACAUUAACAGCACAACGGGGCCACCGCCGCCGCCACCG------
.((((.((((((((((.......))))))).............((((((....))))))...............(((.....)))))).))))....------ ( -31.60, z-score =  -1.95, R)
>droYak2.chr3R 28240439 103 - 28832112
CGGCGACGGGCAAUUAAUUGCACUAAUCGCAUUAAGAACUCUAUGGCAUAUAAAUGCCAGCAUUAAGAGCACAACGGGGCCAGUGCCGCCGCCACAGCCACCG
.(((....(((.......(((.(((((.((....((....)).((((((....))))))))))).)).)))....(((((....))).)))))...))).... ( -31.50, z-score =  -1.34, R)
>droEre2.scaffold_4820 9792996 97 + 10470090
CGGCGACGGGCAAUUAAUUGCACUAAUCGCAUUAAGAACGCUAUGGCAUAUAAAUGCCAACAUUAAGAGCACAACGGGGCCAGCGCCGCCGCCACCG------
.((((.(((((((....)))).................((((.((((((....)))))).......(.((........)))))))))).))))....------ ( -28.90, z-score =  -1.01, R)
>droAna3.scaffold_13340 16433969 94 - 23697760
CAUGGACUGGCAAUUAAUUGCACUAAUCGCAUUAAGAACUCUAUGGCAUAUAAAUGCCAACAUUAAGAGCACAGCGGGUCCACCACCGCCACCA---------
..((((((.((..(((((.((.......)))))))...((((.((((((....))))))......))))....)).))))))............--------- ( -24.50, z-score =  -2.14, R)
>consensus
CGGCGACGGGCAAUUAAUUGCACUAAUCGCAUUAAGAACUCUAUGGCAUAUAAAUGCCAACAUUAACAGCACAACGGGGCCACCGCCGCCGCCACCG______
.((((.(((((..((((((((.......)))............((((((....))))))..)))))..))....(((.....)))))).)))).......... (-23.09 = -24.12 +   1.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:59:47 2011