Locus 12472

Sequence ID	dm3.chrX
Location	424,119 – 424,265
Length	146
Max. P	0.952180

overview

Window 1

Location	424,119 – 424,236
Length	117
Sequences	3
Columns	118
Reading direction	reverse
Mean pairwise identity	92.66
Shannon entropy	0.10117
G+C content	0.43343
Mean single sequence MFE	-30.03
Consensus MFE	-23.85
Energy contribution	-23.97
Covariance contribution	0.11
Combinations/Pair	1.04
Mean z-score	-2.85
Structure conservation index	0.79
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	1.58
SVM RNA-class probability	0.952180
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 424119 117 - 22422827
GCACACCGCUAGGUGGAAACUCCCAAGGGAAUUUCGCACAGGUCACCGUCUUCAAAAGGCUGUCCUAUGCACGAGUUUUUAU-AAACCACUAAACUUAAUUCAAAUUUGUUUUCCUCG
...((((....))))((((.(((....))).))))(((.(((.((..((((.....)))))).))).)))..((((((....-........))))))..................... ( -26.70, z-score =  -1.72, R)
>droSec1.super_10 280338 118 - 3036183
UCCCACCGCUAGGUGGAAACUCCGAAGGAAACUUCGCACAGGUCACCGUCUUCAAAAGGCAGUCCAAUGCACGAGUUUUUAUAAAACCUCUAAACUUAAUUCAAACUUGUUUUCCUAG
..(((((....)))))((((((.((((....))))(((..((..((.((((.....)))).))))..)))..))))))........................................ ( -29.40, z-score =  -2.76, R)
>droSim1.chrX 318723 118 - 17042790
UCCCACCGCUAGGUGGAAACUCCGAAGGAAACUUCGCACAGGCCACUGUCUUCAAAAGGCAGUCCAAUGCACGAGUUUUUAUAAAACCUCUAAACUUAAUUCAAACUUGUUUUCCUAG
..(((((....)))))((((((.((((....))))(((..((..(((((((.....)))))))))..)))..))))))........................................ ( -34.00, z-score =  -4.06, R)
>consensus
UCCCACCGCUAGGUGGAAACUCCGAAGGAAACUUCGCACAGGUCACCGUCUUCAAAAGGCAGUCCAAUGCACGAGUUUUUAUAAAACCUCUAAACUUAAUUCAAACUUGUUUUCCUAG
...((((....))))(((((((.((((....))))(((..((..((.((((.....)))).))))..)))..)))))))....................................... (-23.85 = -23.97 +   0.11)

alignment

secondary structure

dotplot

Window 2

Location	424,158 – 424,265
Length	107
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	73.11
Shannon entropy	0.43489
G+C content	0.50385
Mean single sequence MFE	-37.26
Consensus MFE	-17.76
Energy contribution	-18.20
Covariance contribution	0.44
Combinations/Pair	1.14
Mean z-score	-1.87
Structure conservation index	0.48
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.40
SVM RNA-class probability	0.678037
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 424158 107 - 22422827
-----------UGGCGGAGUGCUUGUUAGUUAGUUUACAUGCACACCGCUAGGUGGAAACUCCCAAGGGAAUUUCGCACAGGU--CACCGUCUUCAAAAGGCUGUCCUAUGCACGAGUUU
-----------((((((.((((.(((..........))).)))).))))))....((((.(((....))).))))(((.(((.--((..((((.....)))))).))).)))........ ( -36.00, z-score =  -1.97, R)
>droEre2.scaffold_4644 375703 108 - 2521924
GCGCUCACUUCUGGCGGAGCGAAUA-----UAGUAUGCAAACCCACCGCUGGGUGGUAGCUCU-AAGCGAAUGUCGCAUAGGUGAGAGCAUCUUCGCAAGGCAGUGCUGACUUU------
...(((((((.....(((((.....-----..(....)....(((((....)))))..)))))-..(((.....)))..)))))))(((((..((....))..)))))......------ ( -35.00, z-score =   0.08, R)
>droSec1.super_10 280378 118 - 3036183
GCGCUCACUUCUAGCGGAGUGCUUGUUAGUUAGUUUACAUUCCCACCGCUAGGUGGAAACUCCGAAGGAAACUUCGCACAGGU--CACCGUCUUCAAAAGGCAGUCCAAUGCACGAGUUU
((((((.(.......)))))))....................(((((....)))))((((((.((((....))))(((..((.--.((.((((.....)))).))))..)))..)))))) ( -37.30, z-score =  -2.19, R)
>droSim1.chrX 318763 118 - 17042790
UCGCUCACUUCUAGCGGAGUGUUUGUUAGUUAGUUUACAUUCCCACCGCUAGGUGGAAACUCCGAAGGAAACUUCGCACAGGC--CACUGUCUUCAAAAGGCAGUCCAAUGCACGAGUUU
.((((.......))))((((((..............))))))(((((....)))))((((((.((((....))))(((..((.--.(((((((.....)))))))))..)))..)))))) ( -40.74, z-score =  -3.39, R)
>consensus
GCGCUCACUUCUAGCGGAGUGCUUGUUAGUUAGUUUACAUUCCCACCGCUAGGUGGAAACUCCGAAGGAAACUUCGCACAGGU__CACCGUCUUCAAAAGGCAGUCCAAUGCACGAGUUU
.............(((((((............(....)....(((((....)))))..)))))((((....))))))............((((.....)))).................. (-17.76 = -18.20 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:02:57 2011