Locus 11600

Sequence ID dm3.chr3R
Location 22,367,490 – 22,367,584
Length 94
Max. P 0.939503
window15935 window15936

overview

Window 5

Location 22,367,490 – 22,367,584
Length 94
Sequences 5
Columns 99
Reading direction forward
Mean pairwise identity 91.25
Shannon entropy 0.14813
G+C content 0.43817
Mean single sequence MFE -30.10
Consensus MFE -27.44
Energy contribution -28.28
Covariance contribution 0.84
Combinations/Pair 1.03
Mean z-score -1.95
Structure conservation index 0.91
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.43
SVM RNA-class probability 0.939503
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22367490 94 + 27905053
ACAGAUACUAAAUUUCCCAAGCAGCUGUUUGGGAAACGAGGAGCGGUU----AAGUGCUUUUCCGCUGACUAGCAGUUGGCACUGCUGUUGUUAUUUU-
.(((........((((((((((....)))))))))).((((((((...----...))))))))..)))..(((((((....)))))))..........- ( -31.20, z-score =  -2.18, R)
>droEre2.scaffold_4820 4786570 95 - 10470090
ACAGAUACUAAAUUUCCCAAGCAGCUGUUUGGGAAACGAGGAGCGGUU----AAGUGCUUUUCCGCUGACUAGCAGUCGGCACUGUUGUUAUAUUUUUU
((((........((((((((((....)))))))))).((((((((...----...)))))))).((((((.....)))))).))))............. ( -33.30, z-score =  -3.52, R)
>droYak2.chr3R 4705276 94 - 28832112
ACUGAUACUAAAUUUCCCAAGCAGCUGUUUGGGAAACGAGCAGCGGUU----AAGUGCUUUUCCGCUGACUAGCAGUUGGCACUGUUGUUUCUUUUUU-
............((((((((((....)))))))))).(((((((((((----((.((((..((....))..)))).)))..)))))))))).......- ( -30.70, z-score =  -2.37, R)
>droSec1.super_13 1150071 97 + 2104621
ACAGAUACUAAAUUUCCCAAGCAGCUGUUUGAGAAACGAGGUGCGGUUGCUUAAGUGCUUUUCCGCUGACUAGCAGUUGGCACUGUUGUUGUUAUUA--
((((..((..........(((((((((((((.....)))...)))))))))).((((((...(.(((....))).)..))))))))..)))).....-- ( -23.40, z-score =   0.40, R)
>droSim1.chr3R 22202061 97 + 27517382
ACAGAUACUAAAUUUCCCAAGCAGCUGUUUGGGAAACGAGGAGCGGUUGCUUAAGUGCUUUUCCGCUGACUAGCAGUUGGCACUGUUGUUGUUAUUA--
((((........((((((((((....)))))))))).((((((((.((....)).)))))))).((..((.....))..)).))))...........-- ( -31.90, z-score =  -2.07, R)
>consensus
ACAGAUACUAAAUUUCCCAAGCAGCUGUUUGGGAAACGAGGAGCGGUU____AAGUGCUUUUCCGCUGACUAGCAGUUGGCACUGUUGUUGUUAUUUU_
((((........((((((((((....)))))))))).((((((((.((....)).)))))))).((((((.....)))))).))))............. (-27.44 = -28.28 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 22,367,490 – 22,367,584
Length 94
Sequences 5
Columns 99
Reading direction reverse
Mean pairwise identity 91.25
Shannon entropy 0.14813
G+C content 0.43817
Mean single sequence MFE -22.44
Consensus MFE -20.68
Energy contribution -20.36
Covariance contribution -0.32
Combinations/Pair 1.09
Mean z-score -1.10
Structure conservation index 0.92
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.12
SVM RNA-class probability 0.553002
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22367490 94 - 27905053
-AAAAUAACAACAGCAGUGCCAACUGCUAGUCAGCGGAAAAGCACUU----AACCGCUCCUCGUUUCCCAAACAGCUGCUUGGGAAAUUUAGUAUCUGU
-...........((((((....))))))....(((((..........----..)))))....(((((((((.(....).)))))))))........... ( -23.90, z-score =  -1.56, R)
>droEre2.scaffold_4820 4786570 95 + 10470090
AAAAAAUAUAACAACAGUGCCGACUGCUAGUCAGCGGAAAAGCACUU----AACCGCUCCUCGUUUCCCAAACAGCUGCUUGGGAAAUUUAGUAUCUGU
.............(((((((.(((.....)))(((((..........----..)))))....(((((((((.(....).)))))))))...))).)))) ( -22.50, z-score =  -1.52, R)
>droYak2.chr3R 4705276 94 + 28832112
-AAAAAAGAAACAACAGUGCCAACUGCUAGUCAGCGGAAAAGCACUU----AACCGCUGCUCGUUUCCCAAACAGCUGCUUGGGAAAUUUAGUAUCAGU
-......((.((..((((....))))..((.((((((..........----..)))))))).(((((((((.(....).)))))))))...)).))... ( -24.20, z-score =  -1.46, R)
>droSec1.super_13 1150071 97 - 2104621
--UAAUAACAACAACAGUGCCAACUGCUAGUCAGCGGAAAAGCACUUAAGCAACCGCACCUCGUUUCUCAAACAGCUGCUUGGGAAAUUUAGUAUCUGU
--.....(((...((.((((...(((((....)))))....((......))....))))...(((((((((.(....).)))))))))...))...))) ( -19.30, z-score =   0.04, R)
>droSim1.chr3R 22202061 97 - 27517382
--UAAUAACAACAACAGUGCCAACUGCUAGUCAGCGGAAAAGCACUUAAGCAACCGCUCCUCGUUUCCCAAACAGCUGCUUGGGAAAUUUAGUAUCUGU
--...........(((((((............(((((....((......))..)))))....(((((((((.(....).)))))))))...))).)))) ( -22.30, z-score =  -1.01, R)
>consensus
_AAAAUAACAACAACAGUGCCAACUGCUAGUCAGCGGAAAAGCACUU____AACCGCUCCUCGUUUCCCAAACAGCUGCUUGGGAAAUUUAGUAUCUGU
.............(((((((...(((((....)))))....)))))................(((((((((.(....).)))))))))...))...... (-20.68 = -20.36 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:45:58 2011