Locus 14776

Sequence ID dm3.chrX
Location 15,377,592 – 15,377,667
Length 75
Max. P 0.877365
window20334 window20335

overview

Window 4

Location 15,377,592 – 15,377,667
Length 75
Sequences 7
Columns 85
Reading direction forward
Mean pairwise identity 59.96
Shannon entropy 0.76457
G+C content 0.60822
Mean single sequence MFE -26.59
Consensus MFE -11.25
Energy contribution -13.31
Covariance contribution 2.06
Combinations/Pair 1.53
Mean z-score -1.03
Structure conservation index 0.42
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.03
SVM RNA-class probability 0.877365
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 15377592 75 + 22422827
--CUUCCGCUGCCGCAA----AGGGCGACGCCAUCGCCGACUGCG-CUGCCAGCAGCAGCAC---UUACAGAGGCAGGCAAAAUA
--.....(((((((((.----..(((((.....)))))...)))(-((((.....)))))..---.......)))).))...... ( -29.00, z-score =  -1.21, R)
>droSec1.super_73 86481 78 + 167737
--CUUCCGCUGCCGCAA----AGGGCGACGCCAUCGCCGACUGCG-CUGCCAGCAGCAGCAGCACUUACAGUGGCGGGCAGAAUA
--.(((.((((((((..----..(((((.....)))))(.(((((-(((....)))).))))).......))))).))).))).. ( -34.00, z-score =  -1.30, R)
>droYak2.chrX 9563168 72 + 21770863
--CUUCCGCUGCCGCAA----AGGGCGACGUCAACGUCGACUGCG-CUGCCAGCAGCACUG------ACAGUGGCGGACAGAAUG
--(((((((..(.(((.----....(((((....)))))..)))(-(((....))))....------...)..))))).)).... ( -28.90, z-score =  -1.32, R)
>droEre2.scaffold_4690 7092497 72 - 18748788
--CUUUUGCUGCCGCAA----AGGGCGACGCCAACGCCGACUGCG-CUGCUAGAAGCAGUG------ACAGUGGCGGGUAGAAUA
--......(((((....----..(((...)))..((((.((((((-((((.....))))))------.))))))))))))).... ( -32.80, z-score =  -2.83, R)
>droSim1.chrX_random 4016260 78 + 5698898
--CUUCCGCUGCCGCAA----AGGGCGACGCCAUCGCCGACUGCG-CUGCCAGCAGCAGCAGCACUUACAGUGGCGGGCAGAAUA
--.(((.((((((((..----..(((((.....)))))(.(((((-(((....)))).))))).......))))).))).))).. ( -34.00, z-score =  -1.30, R)
>droAna3.scaffold_12929 348271 83 - 3277472
UUUAUGCUCCAUCAUUAUGCCAUGCCGAGCUGUGCAGCUGUUCCUUCCCGCAUCCGCACUAUUG--UACACUUGCGGACAAUGCG
.....((((...(((......)))..))))...(((..(((......(((((...(.((....)--).)...)))))))).))). ( -15.90, z-score =   0.62, R)
>droWil1.scaffold_180702 2890246 58 - 4511350
--CUUCCUCAGGCACAACAUCAGUGCGAGGCAAGCAGCAGCAUCG-CCAGCAGACUCUAUC------------------------
--...((((..((((.......))))))))...((.((......)-)..))..........------------------------ ( -11.50, z-score =   0.11, R)
>consensus
__CUUCCGCUGCCGCAA____AGGGCGACGCCAUCGCCGACUGCG_CUGCCAGCAGCAGUA_____UACAGUGGCGGGCAGAAUA
........(((((((........((((.......))))..((((........))))..............)))))))........ (-11.25 = -13.31 +   2.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 15,377,592 – 15,377,667
Length 75
Sequences 7
Columns 85
Reading direction reverse
Mean pairwise identity 59.96
Shannon entropy 0.76457
G+C content 0.60822
Mean single sequence MFE -29.83
Consensus MFE -10.40
Energy contribution -11.39
Covariance contribution 0.99
Combinations/Pair 1.67
Mean z-score -1.31
Structure conservation index 0.35
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.78
SVM RNA-class probability 0.814480
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 15377592 75 - 22422827
UAUUUUGCCUGCCUCUGUAA---GUGCUGCUGCUGGCAG-CGCAGUCGGCGAUGGCGUCGCCCU----UUGCGGCAGCGGAAG--
..((((((.((((.......---..(((((.....))))-)((((..((((((...))))))..----)))))))))))))).-- ( -34.70, z-score =  -1.53, R)
>droSec1.super_73 86481 78 - 167737
UAUUCUGCCCGCCACUGUAAGUGCUGCUGCUGCUGGCAG-CGCAGUCGGCGAUGGCGUCGCCCU----UUGCGGCAGCGGAAG--
..((((((..(((.........((((((......)))))-)((((..((((((...))))))..----))))))).)))))).-- ( -37.00, z-score =  -1.33, R)
>droYak2.chrX 9563168 72 - 21770863
CAUUCUGUCCGCCACUGU------CAGUGCUGCUGGCAG-CGCAGUCGACGUUGACGUCGCCCU----UUGCGGCAGCGGAAG--
..((((((..(((.((((------(((.....)))))))-.((((.(((((....)))))....----))))))).)))))).-- ( -31.90, z-score =  -1.93, R)
>droEre2.scaffold_4690 7092497 72 + 18748788
UAUUCUACCCGCCACUGU------CACUGCUUCUAGCAG-CGCAGUCGGCGUUGGCGUCGCCCU----UUGCGGCAGCAAAAG--
.........((((((((.------(.((((.....))))-.))))).))))...(((((((...----..))))).)).....-- ( -27.10, z-score =  -2.12, R)
>droSim1.chrX_random 4016260 78 - 5698898
UAUUCUGCCCGCCACUGUAAGUGCUGCUGCUGCUGGCAG-CGCAGUCGGCGAUGGCGUCGCCCU----UUGCGGCAGCGGAAG--
..((((((..(((.........((((((......)))))-)((((..((((((...))))))..----))))))).)))))).-- ( -37.00, z-score =  -1.33, R)
>droAna3.scaffold_12929 348271 83 + 3277472
CGCAUUGUCCGCAAGUGUA--CAAUAGUGCGGAUGCGGGAAGGAACAGCUGCACAGCUCGGCAUGGCAUAAUGAUGGAGCAUAAA
.((((((((((((..((((--(....)))))..)))))......)))).)))...((((.((((......))).).))))..... ( -25.90, z-score =  -1.01, R)
>droWil1.scaffold_180702 2890246 58 + 4511350
------------------------GAUAGAGUCUGCUGG-CGAUGCUGCUGCUUGCCUCGCACUGAUGUUGUGCCUGAGGAAG--
------------------------....((((..((.((-(...))))).)))).((((((((.......))))..))))...-- ( -15.20, z-score =   0.13, R)
>consensus
UAUUCUGCCCGCCACUGUA_____UACUGCUGCUGGCAG_CGCAGUCGGCGAUGGCGUCGCCCU____UUGCGGCAGCGGAAG__
..........................(((((((((((....))....((((.......)))).........)))))))))..... (-10.40 = -11.39 +   0.99)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:46:27 2011