Locus 11027

Sequence ID	dm3.chr3R
Location	18,148,737 – 18,148,829
Length	92
Max. P	0.996784

overview

Window 1

Location	18,148,737 – 18,148,829
Length	92
Sequences	7
Columns	117
Reading direction	forward
Mean pairwise identity	67.42
Shannon entropy	0.57213
G+C content	0.47553
Mean single sequence MFE	-26.82
Consensus MFE	-12.47
Energy contribution	-14.94
Covariance contribution	2.48
Combinations/Pair	1.48
Mean z-score	-2.68
Structure conservation index	0.46
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	2.98
SVM RNA-class probability	0.996784
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 18148737 92 + 27905053
------------------------GUGGAUUAGUACGAACCCCAGUCGUACUUCCCCACAACGCUC-CGGAAAUCCGGCAGUUAAACCCAUUGACUGCUGAUUGAGUAAUCAACGAA
------------------------((((...(((((((.......)))))))...))))...((((-(((....)))((((((((.....)))))))).....)))).......... ( -30.70, z-score =  -4.53, R)
>droSim1.chr3R 17955710 92 + 27517382
------------------------AUGGAUUAGUACGAACCCCAGUCGUACUUCCCCACAACGCUC-CGGAAAUCCGGCAGUUAAACCCAUUGACUGCUGAUUGAGUAAUCAACGAA
------------------------.(((...(((((((.......)))))))...)))....((((-(((....)))((((((((.....)))))))).....)))).......... ( -27.10, z-score =  -3.57, R)
>droSec1.super_0 18504058 92 + 21120651
------------------------AUGGAUUAGUACGAACCCCAGUCGUACUUCCCCACAUCGCUC-CGGAAAUCCGGCAGUUAAACCCAUUGACUGCUGAUUGAGUAAUCAACGAA
------------------------.(((...(((((((.......)))))))...)))..(((...-........((((((((((.....)))))))))).((((....))))))). ( -27.70, z-score =  -3.64, R)
>droYak2.chr3R 18991976 92 + 28832112
------------------------GUGGAUUAGUAAGAGCCCCAGACUUGCUUCCCCACAACGCUG-CGGAAAUCCGGCAGUUAAACCCAUUGACUGCUGAUUGAGUAAUCAACGAA
------------------------((((...((((((.........))))))...)))).......-((......((((((((((.....)))))))))).((((....)))))).. ( -26.80, z-score =  -2.84, R)
>droEre2.scaffold_4820 537521 92 - 10470090
------------------------GUGGAUUAGUGUGAGCCCCAAACUAACUUCCCCACAAUGCUG-CGGAAAUCCGGCAGUUAAACCCAUUGACUGCUGAUUGAGUAAUCAACGAA
------------------------((((.(((((.((.....)).))))).....)))).......-((......((((((((((.....)))))))))).((((....)))))).. ( -23.60, z-score =  -2.15, R)
>droAna3.scaffold_13340 9130581 96 + 23697760
-------------------CGGAUACGGAUAUGCAAUUUCCGCAAACUUUGGGCCCCCCCAUGUUUUCGAAAAUCAGGCA--UGAACCCAUUGGCUGCUGAUUGAGUAAUCAGCGAA
-------------------.......((.(((((.((((.((.((((..((((....)))).)))).)).))))...)))--))...))......((((((((....)))))))).. ( -24.50, z-score =  -0.23, R)
>dp4.chr2 12302758 114 + 30794189
GUGGCUUUAAGAGUGCUCUCAGGGGUCUCACCUCACAUACCCCCGAAUUGACCCUAAUCCAUGAUUAUGAACCCCAUUCAGCGAUAUUC---UAUCGUUGAUUGAAUAAUCACUCAG
((((......(((....))).((((((......................))))))...))))((((((......((.(((((((((...---))))))))).)).))))))...... ( -27.35, z-score =  -1.83, R)
>consensus
________________________GUGGAUUAGUACGAACCCCAGACUUACUUCCCCACAACGCUC_CGGAAAUCCGGCAGUUAAACCCAUUGACUGCUGAUUGAGUAAUCAACGAA
..........................((...(((((((.......)))))))...))..................((((((((((.....)))))))))).((((....)))).... (-12.47 = -14.94 +   2.48)

alignment

secondary structure

dotplot

Window 2

Location	18,148,737 – 18,148,829
Length	92
Sequences	7
Columns	117
Reading direction	reverse
Mean pairwise identity	67.42
Shannon entropy	0.57213
G+C content	0.47553
Mean single sequence MFE	-28.51
Consensus MFE	-13.32
Energy contribution	-13.99
Covariance contribution	0.66
Combinations/Pair	1.44
Mean z-score	-1.36
Structure conservation index	0.47
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.65
SVM RNA-class probability	0.775867
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 18148737 92 - 27905053
UUCGUUGAUUACUCAAUCAGCAGUCAAUGGGUUUAACUGCCGGAUUUCCG-GAGCGUUGUGGGGAAGUACGACUGGGGUUCGUACUAAUCCAC------------------------
((((((((((.((.....)).))))))))))...(((..((((....)))-)...)))(((((..((((((((....).)))))))..)))))------------------------ ( -30.40, z-score =  -2.17, R)
>droSim1.chr3R 17955710 92 - 27517382
UUCGUUGAUUACUCAAUCAGCAGUCAAUGGGUUUAACUGCCGGAUUUCCG-GAGCGUUGUGGGGAAGUACGACUGGGGUUCGUACUAAUCCAU------------------------
((((((((((.((.....)).))))))))))..((((..((((....)))-)...))))((((..((((((((....).)))))))..)))).------------------------ ( -29.40, z-score =  -1.86, R)
>droSec1.super_0 18504058 92 - 21120651
UUCGUUGAUUACUCAAUCAGCAGUCAAUGGGUUUAACUGCCGGAUUUCCG-GAGCGAUGUGGGGAAGUACGACUGGGGUUCGUACUAAUCCAU------------------------
((((((((((.((.....)).)))))))))).....((.((((....)))-)))....(((((..((((((((....).)))))))..)))))------------------------ ( -28.60, z-score =  -1.55, R)
>droYak2.chr3R 18991976 92 - 28832112
UUCGUUGAUUACUCAAUCAGCAGUCAAUGGGUUUAACUGCCGGAUUUCCG-CAGCGUUGUGGGGAAGCAAGUCUGGGGCUCUUACUAAUCCAC------------------------
...(((((((....)))))))......(((((((((..(((((....)).-(((..((((......))))..))).)))..)))..)))))).------------------------ ( -23.70, z-score =  -0.19, R)
>droEre2.scaffold_4820 537521 92 + 10470090
UUCGUUGAUUACUCAAUCAGCAGUCAAUGGGUUUAACUGCCGGAUUUCCG-CAGCAUUGUGGGGAAGUUAGUUUGGGGCUCACACUAAUCCAC------------------------
..((((((((.((.....)).))))))))(((......)))((((..(((-(......))))..)..(((((.((.....)).))))))))..------------------------ ( -24.00, z-score =  -0.84, R)
>droAna3.scaffold_13340 9130581 96 - 23697760
UUCGCUGAUUACUCAAUCAGCAGCCAAUGGGUUCA--UGCCUGAUUUUCGAAAACAUGGGGGGGCCCAAAGUUUGCGGAAAUUGCAUAUCCGUAUCCG-------------------
...(((((((....))))))).....((((((..(--(((..((((((((.((((.((((....))))..)))).)))))))))))))))))).....------------------- ( -31.30, z-score =  -1.87, R)
>dp4.chr2 12302758 114 - 30794189
CUGAGUGAUUAUUCAAUCAACGAUA---GAAUAUCGCUGAAUGGGGUUCAUAAUCAUGGAUUAGGGUCAAUUCGGGGGUAUGUGAGGUGAGACCCCUGAGAGCACUCUUAAAGCCAC
.(((((((...((((.(((.(((((---...))))).))).))))..))))..)))(((...(((((...(((((((((............)))))))))...))))).....))). ( -32.20, z-score =  -1.02, R)
>consensus
UUCGUUGAUUACUCAAUCAGCAGUCAAUGGGUUUAACUGCCGGAUUUCCG_GAGCGUUGUGGGGAAGUAAGUCUGGGGUUCGUACUAAUCCAC________________________
...(((((((....)))))))................((((((....)))...)))..(((((..(((((((.......)))))))..)))))........................ (-13.32 = -13.99 +   0.66)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:35:00 2011