Locus 11225

Sequence ID	dm3.chr3R
Location	19,536,610 – 19,536,712
Length	102
Max. P	0.952996

overview

Window 3

Location	19,536,610 – 19,536,712
Length	102
Sequences	4
Columns	102
Reading direction	forward
Mean pairwise identity	76.67
Shannon entropy	0.36301
G+C content	0.35913
Mean single sequence MFE	-21.75
Consensus MFE	-12.82
Energy contribution	-13.95
Covariance contribution	1.13
Combinations/Pair	1.22
Mean z-score	-1.70
Structure conservation index	0.59
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.21
SVM RNA-class probability	0.594695
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 19536610 102 + 27905053
GGUGGGUAUUGAUAACUUAAUCAGCAAGUUAUCACCUUCGUGAUAAAAUUGUUUUUAUAAAGUAACCAUUAGAGAUUCAGUACCAAUUAAGGCUAGAUAUGU
....((((((((...(((....(((((.(((((((....)))))))..))))).((((...))))......)))..)))))))).................. ( -17.70, z-score =  -0.30, R)
>droSim1.chr3R 19366804 90 + 27517382
GGUGGGUAUUGAUACCUUAAUCAGCAAGUCAUCACCUUCGUGAUAAAAUUGCUUUUAUA------------GAGGUUCAGUACCAAUUAAGGCUAGAUAUGU
....((((((((.(((((.((.(((((...(((((....)))))....)))))...)).------------))))))))))))).................. ( -24.90, z-score =  -2.71, R)
>droSec1.super_0 19895038 90 + 21120651
GGUGGGUAUUGAUACCUUAAUCAGCAAGUCAUCACCUUCGUGAUAAAAUUGCUUUUAUA------------GAGGUUCAGUACCAAUUAAGGCUAGAUAUGU
....((((((((.(((((.((.(((((...(((((....)))))....)))))...)).------------))))))))))))).................. ( -24.90, z-score =  -2.71, R)
>droYak2.chr3R 20438512 95 + 28832112
GGUGGGUACUAGCAACUCCAUCAGCAAGUCAUU-------UGAGAUUCUUUCUUUUAUAAAGUACCCAUUAAGUGUUCAGUACCAGUCCAAGCUAGAUAUGU
((((((((((.((..........)).....((.-------.((((.....))))..))..))))))))))..((((..(((..........)))..)))).. ( -19.50, z-score =  -1.06, R)
>consensus
GGUGGGUAUUGAUAACUUAAUCAGCAAGUCAUCACCUUCGUGAUAAAAUUGCUUUUAUA____________GAGGUUCAGUACCAAUUAAGGCUAGAUAUGU
....((((((((.(((((....(((((...(((((....)))))....)))))..................))))))))))))).................. (-12.82 = -13.95 +   1.13)

alignment

secondary structure

dotplot

Window 4

Location	19,536,610 – 19,536,712
Length	102
Sequences	4
Columns	102
Reading direction	reverse
Mean pairwise identity	76.67
Shannon entropy	0.36301
G+C content	0.35913
Mean single sequence MFE	-22.40
Consensus MFE	-10.73
Energy contribution	-11.22
Covariance contribution	0.50
Combinations/Pair	1.32
Mean z-score	-2.85
Structure conservation index	0.48
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	1.59
SVM RNA-class probability	0.952996
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 19536610 102 - 27905053
ACAUAUCUAGCCUUAAUUGGUACUGAAUCUCUAAUGGUUACUUUAUAAAAACAAUUUUAUCACGAAGGUGAUAACUUGCUGAUUAAGUUAUCAAUACCCACC
...........((((((..(((...((((......)))).................(((((((....)))))))..)))..))))))............... ( -19.50, z-score =  -2.09, R)
>droSim1.chr3R 19366804 90 - 27517382
ACAUAUCUAGCCUUAAUUGGUACUGAACCUC------------UAUAAAAGCAAUUUUAUCACGAAGGUGAUGACUUGCUGAUUAAGGUAUCAAUACCCACC
..................((((.(((((((.------------.((...(((((..(((((((....))))))).))))).))..)))).))).)))).... ( -26.20, z-score =  -4.62, R)
>droSec1.super_0 19895038 90 - 21120651
ACAUAUCUAGCCUUAAUUGGUACUGAACCUC------------UAUAAAAGCAAUUUUAUCACGAAGGUGAUGACUUGCUGAUUAAGGUAUCAAUACCCACC
..................((((.(((((((.------------.((...(((((..(((((((....))))))).))))).))..)))).))).)))).... ( -26.20, z-score =  -4.62, R)
>droYak2.chr3R 20438512 95 - 28832112
ACAUAUCUAGCUUGGACUGGUACUGAACACUUAAUGGGUACUUUAUAAAAGAAAGAAUCUCA-------AAUGACUUGCUGAUGGAGUUGCUAGUACCCACC
.............((...(((((((...((((.((.((((..((((...(((.....)))..-------.))))..)))).)).))))...)))))))..)) ( -17.70, z-score =  -0.07, R)
>consensus
ACAUAUCUAGCCUUAAUUGGUACUGAACCUC____________UAUAAAAGCAAUUUUAUCACGAAGGUGAUGACUUGCUGAUUAAGGUAUCAAUACCCACC
...............((((((((.................................(((((((....)))))))((((.....))))))))))))....... (-10.73 = -11.22 +   0.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:38:46 2011