Locus 9579

Sequence ID dm3.chr3R
Location 7,441,338 – 7,441,430
Length 92
Max. P 0.883092
window13145 window13146

overview

Window 5

Location 7,441,338 – 7,441,430
Length 92
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 87.43
Shannon entropy 0.21228
G+C content 0.51068
Mean single sequence MFE -30.34
Consensus MFE -22.46
Energy contribution -23.34
Covariance contribution 0.88
Combinations/Pair 1.08
Mean z-score -1.73
Structure conservation index 0.74
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.03
SVM RNA-class probability 0.507398
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 7441338 92 + 27905053
CGACGGCGUCAGUCUGCCUGA-----UUUCAAGGUCCAAAAGUCAGUCGACGAGGGCAGUUUUGCGUUUUGAGUUUGUGCCUUGAUAUCGCCGUCAA
.(((((((((((.....))))-----..((((((..((((..((((.((.(((((....)))))))..)))).))))..))))))...))))))).. ( -34.70, z-score =  -3.22, R)
>droSim1.chr3R 13560664 97 - 27517382
CGACGGCGUCUGUCUGCCUGCCUGAUUUUCAAGGUCCAAAAGUCAGUCGACGAGGGCAGUUUUGCGUUUUGAGUUUGUGCCUUGACAUCGCCGUCAA
.((((((((....((((((((((........))))......(((....)))..))))))....))(((..(.((....)))..)))...)))))).. ( -32.50, z-score =  -1.43, R)
>droSec1.super_0 6596899 93 - 21120651
CGACGGCGUCUGUCUGCCUGA----UUUUCAAGGUCCAAAAGUCAGUCGACGAGGGCAGUUUUGCGUUUUGAAUUUGUGCCUUGACAUCGCCGUCAA
.(((((((...(((.....))----)..((((((..((((.(((....)))(((.((......)).)))....))))..))))))...))))))).. ( -32.00, z-score =  -2.07, R)
>droYak2.chr3R 11850491 88 - 28832112
CGACGGCGUCUGUCUGA---------UUUCAAGGUCCAAAAGUCAGCCGGCGAGGGCAGUUUUGUGUUUUGCGUUUGUGCCUUGACAUCAGCUUCAG
.........(((.((((---------(.((((((..((((.(((....)))....((((.........)))).))))..)))))).)))))...))) ( -25.10, z-score =  -0.17, R)
>droEre2.scaffold_4770 3567506 88 - 17746568
CGACAACGUCUGUCAGA---------UUUCAAGGUCCAAAAGUCAGCCGACGAGGGCAGUUUUUCGUUUUGAGUUUGUGCCUUGACAUCGGCGUCAA
.((((.....)))).((---------(.((((((..((((..((((..((((((((....)))))))))))).))))..)))))).)))........ ( -27.40, z-score =  -1.75, R)
>consensus
CGACGGCGUCUGUCUGCCUG______UUUCAAGGUCCAAAAGUCAGUCGACGAGGGCAGUUUUGCGUUUUGAGUUUGUGCCUUGACAUCGCCGUCAA
.(((((((....................((((((..((((.(((....)))(((.((......)).)))....))))..))))))...))))))).. (-22.46 = -23.34 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 7,441,338 – 7,441,430
Length 92
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 87.43
Shannon entropy 0.21228
G+C content 0.51068
Mean single sequence MFE -27.76
Consensus MFE -18.90
Energy contribution -19.78
Covariance contribution 0.88
Combinations/Pair 1.08
Mean z-score -2.52
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.06
SVM RNA-class probability 0.883092
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 7441338 92 - 27905053
UUGACGGCGAUAUCAAGGCACAAACUCAAAACGCAAAACUGCCCUCGUCGACUGACUUUUGGACCUUGAAA-----UCAGGCAGACUGACGCCGUCG
..(((((((...((((((..((((........(((....)))....(((....))).))))..))))))..-----((((.....))))))))))). ( -33.30, z-score =  -4.84, R)
>droSim1.chr3R 13560664 97 + 27517382
UUGACGGCGAUGUCAAGGCACAAACUCAAAACGCAAAACUGCCCUCGUCGACUGACUUUUGGACCUUGAAAAUCAGGCAGGCAGACAGACGCCGUCG
..(((((((.((((..((((...................))))...(((..((((.(((..(...)..))).))))...))).))))..))))))). ( -32.11, z-score =  -2.64, R)
>droSec1.super_0 6596899 93 + 21120651
UUGACGGCGAUGUCAAGGCACAAAUUCAAAACGCAAAACUGCCCUCGUCGACUGACUUUUGGACCUUGAAAA----UCAGGCAGACAGACGCCGUCG
..(((((((.((((..........(((((((.(((....)))....(((....)))))))))).((((....----.))))..))))..))))))). ( -28.50, z-score =  -2.35, R)
>droYak2.chr3R 11850491 88 + 28832112
CUGAAGCUGAUGUCAAGGCACAAACGCAAAACACAAAACUGCCCUCGCCGGCUGACUUUUGGACCUUGAAA---------UCAGACAGACGCCGUCG
(((...(((((.((((((..((((.(((............(((......))))).).))))..)))))).)---------)))).)))......... ( -22.40, z-score =  -1.30, R)
>droEre2.scaffold_4770 3567506 88 + 17746568
UUGACGCCGAUGUCAAGGCACAAACUCAAAACGAAAAACUGCCCUCGUCGGCUGACUUUUGGACCUUGAAA---------UCUGACAGACGUUGUCG
..((((((((((....((((.....((.....)).....))))..)))))))...((.(..((........---------))..).)).....))). ( -22.50, z-score =  -1.49, R)
>consensus
UUGACGGCGAUGUCAAGGCACAAACUCAAAACGCAAAACUGCCCUCGUCGACUGACUUUUGGACCUUGAAA______CAGGCAGACAGACGCCGUCG
..(((((((...((((((..((((........(((....)))....(((....))).))))..))))))............(.....).))))))). (-18.90 = -19.78 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:07:10 2011