Locus 12126

Sequence ID dm3.chr3R
Location 25,886,324 – 25,886,428
Length 104
Max. P 0.916992
window16671 window16672

overview

Window 1

Location 25,886,324 – 25,886,428
Length 104
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 78.90
Shannon entropy 0.37304
G+C content 0.41842
Mean single sequence MFE -22.42
Consensus MFE -17.00
Energy contribution -18.08
Covariance contribution 1.08
Combinations/Pair 1.12
Mean z-score -1.63
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.25
SVM RNA-class probability 0.916992
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 25886324 104 + 27905053
----------CCAAACAUUUUGAACAUCGAUUUUUCCGAUUGUUCAUCGCUAACCUUUUGCCUAUCGGUCGACUCUUUCGAUUGCAGCACACGCGAUCUUGAACAGAUCGUAAC
----------..........(((((((((.......))).))))))............(((....(((((((.....)))))))..)))...(((((((.....)))))))... ( -23.40, z-score =  -1.93, R)
>droSim1.chr3R 25552926 108 + 27517382
CUAAACAUUUUUACACCAAUUGAACAUCGAUUUUUCCGAUUGUUCAUCGCU------UUGCCUAUCGGUCGACUCUUUCGAUUGCAGCACACGCGAUCUUGAACAGAUCGUAAC
..........((((...(((((.....))))).....(((((((((((((.------.(((....(((((((.....)))))))..)))...))))...)))))).))))))). ( -24.00, z-score =  -2.15, R)
>droSec1.super_4 4732350 113 + 6179234
AUAAACAUUUUUACACCUAUUGAACAUCGAUUUUUCCGAUUGUUCAUCGCUAACCU-UUGCCUAUCGGUCGACUCUUUCGAUUGCAGCACGCGCGAUCUUGAACAGAUCGUAAC
....................(((((((((.......))).))))))..........-.(((....(((((((.....)))))))..)))...(((((((.....)))))))... ( -23.40, z-score =  -1.63, R)
>droYak2.chr3R 26809507 98 + 28832112
---------------CUGAACACUUAUCGAUUUUUUCGAUUGUCCGUCGCUAAACUUUUGCUUAUCGAUCGACGCUUUCGAUUGCAGCACUC-CGAACUUGAACAGAUCGUAAC
---------------............((((((.(((((..(((.((((.(((.(....).))).)))).)))((........)).......-.....))))).)))))).... ( -18.00, z-score =  -0.05, R)
>droEre2.scaffold_4820 8356641 113 - 10470090
CUUAACAUUUUUGUAUCUAUCGAAUAUCGAUUUUUUCGAUUGUCCAUCGCUAACCCCUUGCUUAUCGAUCGACGCUUUCGAUUACAGCACUC-CGAUCUUGAACAGAUCGUAAC
..........(((((...((((((.(((((.....))))).(((.((((.(((........))).)))).)))...))))))))))).....-((((((.....)))))).... ( -23.30, z-score =  -2.37, R)
>consensus
_U_AACAUUUUUACACCUAUUGAACAUCGAUUUUUCCGAUUGUUCAUCGCUAACCU_UUGCCUAUCGGUCGACUCUUUCGAUUGCAGCACACGCGAUCUUGAACAGAUCGUAAC
....................(((((((((.......))).))))))............(((....(((((((.....)))))))..)))...(((((((.....)))))))... (-17.00 = -18.08 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 25,886,324 – 25,886,428
Length 104
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 78.90
Shannon entropy 0.37304
G+C content 0.41842
Mean single sequence MFE -26.74
Consensus MFE -20.26
Energy contribution -20.14
Covariance contribution -0.12
Combinations/Pair 1.24
Mean z-score -0.97
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.04
SVM RNA-class probability 0.514449
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 25886324 104 - 27905053
GUUACGAUCUGUUCAAGAUCGCGUGUGCUGCAAUCGAAAGAGUCGACCGAUAGGCAAAAGGUUAGCGAUGAACAAUCGGAAAAAUCGAUGUUCAAAAUGUUUGG----------
((((((((((.....))))))(...((((....((....))(((....))).))))...)..))))..((((((.((((.....))))))))))..........---------- ( -24.70, z-score =  -0.19, R)
>droSim1.chr3R 25552926 108 - 27517382
GUUACGAUCUGUUCAAGAUCGCGUGUGCUGCAAUCGAAAGAGUCGACCGAUAGGCAA------AGCGAUGAACAAUCGGAAAAAUCGAUGUUCAAUUGGUGUAAAAAUGUUUAG
....((((.((((((...((((...((((....((....))(((....))).)))).------.)))))))))))))).....((((((.....)))))).............. ( -27.50, z-score =  -1.09, R)
>droSec1.super_4 4732350 113 - 6179234
GUUACGAUCUGUUCAAGAUCGCGCGUGCUGCAAUCGAAAGAGUCGACCGAUAGGCAA-AGGUUAGCGAUGAACAAUCGGAAAAAUCGAUGUUCAAUAGGUGUAAAAAUGUUUAU
.((((.(((((((....(((((((.(..(((..((....))(((....)))..))).-).))..)))))(((((.((((.....)))))))))))))))))))).......... ( -27.80, z-score =  -0.78, R)
>droYak2.chr3R 26809507 98 - 28832112
GUUACGAUCUGUUCAAGUUCG-GAGUGCUGCAAUCGAAAGCGUCGAUCGAUAAGCAAAAGUUUAGCGACGGACAAUCGAAAAAAUCGAUAAGUGUUCAG---------------
....(((.((.....)).)))-(((..((((........))(((..(((.(((((....))))).)))..))).(((((.....))))).))..)))..--------------- ( -23.80, z-score =  -0.52, R)
>droEre2.scaffold_4820 8356641 113 + 10470090
GUUACGAUCUGUUCAAGAUCG-GAGUGCUGUAAUCGAAAGCGUCGAUCGAUAAGCAAGGGGUUAGCGAUGGACAAUCGAAAAAAUCGAUAUUCGAUAGAUACAAAAAUGUUAAG
....((((((.....))))))-......((((((((((...(((.((((.(((.(....).))).)))).))).(((((.....))))).))))))...))))........... ( -29.90, z-score =  -2.25, R)
>consensus
GUUACGAUCUGUUCAAGAUCGCGAGUGCUGCAAUCGAAAGAGUCGACCGAUAGGCAA_AGGUUAGCGAUGAACAAUCGGAAAAAUCGAUGUUCAAUAGGUGUAAAAAUGUU_A_
((((((((((.....))))))....((((.(..((((.....))))..)...))))......))))..((((((.((((.....)))))))))).................... (-20.26 = -20.14 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:56:14 2011