Locus 3245

Sequence ID dm3.chr2R
Location 3,716,509 – 3,716,593
Length 84
Max. P 0.999186
window4465 window4466

overview

Window 5

Location 3,716,509 – 3,716,593
Length 84
Sequences 6
Columns 84
Reading direction forward
Mean pairwise identity 72.54
Shannon entropy 0.54155
G+C content 0.49435
Mean single sequence MFE -27.50
Consensus MFE -16.57
Energy contribution -18.87
Covariance contribution 2.30
Combinations/Pair 1.32
Mean z-score -2.80
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.70
SVM RNA-class probability 0.999186
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 3716509 84 + 21146708
GCAGUUGGCCGUAACUAAGCACAGGUGAACCUAUCGACAAUCGAUAACGUCGCGGUGCCGUGCGUAAGUGAUGGCCAACUCUAG
..((((((((((.(((..((((..((((...(((((.....)))))...))))(....)))))...))).)))))))))).... ( -34.50, z-score =  -3.78, R)
>droSim1.chr2R 2436467 84 + 19596830
GCAGUUGGCCGUAACUAAUCACAGUUAAACCUAUCGACAAUCGAUAACGUCGCGGUGCCGUGCGUAAGUGAUGGCCAACUCUAG
..((((((((((.(((...............(((((.....)))))(((.((((....))))))).))).)))))))))).... ( -30.90, z-score =  -3.83, R)
>droSec1.super_1 1366579 84 + 14215200
GCAGUUGGCCGUAACUAAUCACAGUUAAACCUAUCGACAAUCGAUAACGUCGCGGUGCCGUGCGUAAGUGAUGGCCAACUCUAG
..((((((((((.(((...............(((((.....)))))(((.((((....))))))).))).)))))))))).... ( -30.90, z-score =  -3.83, R)
>droYak2.chr2L 16382864 82 + 22324452
GCCAAUACCAAUAGCAA--UACAGUUAAACCUAUCGUCAAUCGAUAACGUCGCGGUGCCGUGCGUAAGUGAUGGCCAACUCUAG
((((.(((...((((..--....))))....(((((.....)))))(((.((((....)))))))..))).))))......... ( -20.00, z-score =  -1.55, R)
>droEre2.scaffold_4929 7742860 84 - 26641161
GCAGUUGGCCGAUAGUACGCACAGUUAAACCUAUCGACAAUCGAUAACGUCGCGGUGUCGUGCGUAAGUGAUGGCCAACUCUAG
..(((((((((.((.(((((((((......))...((((..((((...))))...)))))))))))..)).))))))))).... ( -31.60, z-score =  -3.21, R)
>droWil1.scaffold_180700 5427805 70 + 6630534
-------GUGCUUUCCGGUUAAGCGCUAAUAUUUUGAUUGCUAGGAACGC------GUCCUGCGUUGCUAACGGA-AACUUUAA
-------((((((.......)))))).............(.(((.(((((------.....))))).))).)(..-..)..... ( -17.10, z-score =  -0.60, R)
>consensus
GCAGUUGGCCGUAACUAAUCACAGUUAAACCUAUCGACAAUCGAUAACGUCGCGGUGCCGUGCGUAAGUGAUGGCCAACUCUAG
..((((((((((.(((...............(((((.....)))))(((.((((....))))))).))).)))))))))).... (-16.57 = -18.87 +   2.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 3,716,509 – 3,716,593
Length 84
Sequences 6
Columns 84
Reading direction reverse
Mean pairwise identity 72.54
Shannon entropy 0.54155
G+C content 0.49435
Mean single sequence MFE -26.73
Consensus MFE -12.39
Energy contribution -14.22
Covariance contribution 1.83
Combinations/Pair 1.30
Mean z-score -2.58
Structure conservation index 0.46
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.57
SVM RNA-class probability 0.992789
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 3716509 84 - 21146708
CUAGAGUUGGCCAUCACUUACGCACGGCACCGCGACGUUAUCGAUUGUCGAUAGGUUCACCUGUGCUUAGUUACGGCCAACUGC
....((((((((...(((...((((((.(((.(((((........)))))...)))....))))))..)))...)))))))).. ( -33.30, z-score =  -3.78, R)
>droSim1.chr2R 2436467 84 - 19596830
CUAGAGUUGGCCAUCACUUACGCACGGCACCGCGACGUUAUCGAUUGUCGAUAGGUUUAACUGUGAUUAGUUACGGCCAACUGC
....((((((((...(((....(((((.(((.(((((........)))))...)))....)))))...)))...)))))))).. ( -30.60, z-score =  -3.41, R)
>droSec1.super_1 1366579 84 - 14215200
CUAGAGUUGGCCAUCACUUACGCACGGCACCGCGACGUUAUCGAUUGUCGAUAGGUUUAACUGUGAUUAGUUACGGCCAACUGC
....((((((((...(((....(((((.(((.(((((........)))))...)))....)))))...)))...)))))))).. ( -30.60, z-score =  -3.41, R)
>droYak2.chr2L 16382864 82 - 22324452
CUAGAGUUGGCCAUCACUUACGCACGGCACCGCGACGUUAUCGAUUGACGAUAGGUUUAACUGUA--UUGCUAUUGGUAUUGGC
.........((((..(((...(((..(((....(((.((((((.....)))))))))....))).--.)))....)))..)))) ( -17.80, z-score =   0.47, R)
>droEre2.scaffold_4929 7742860 84 + 26641161
CUAGAGUUGGCCAUCACUUACGCACGACACCGCGACGUUAUCGAUUGUCGAUAGGUUUAACUGUGCGUACUAUCGGCCAACUGC
....((((((((......((((((((..(((.(((((........)))))...))).....)))))))).....)))))))).. ( -32.90, z-score =  -4.13, R)
>droWil1.scaffold_180700 5427805 70 - 6630534
UUAAAGUU-UCCGUUAGCAACGCAGGAC------GCGUUCCUAGCAAUCAAAAUAUUAGCGCUUAACCGGAAAGCAC-------
......((-((((..((((((((.....------)))))....(((((......))).)))))....))))))....------- ( -15.20, z-score =  -1.22, R)
>consensus
CUAGAGUUGGCCAUCACUUACGCACGGCACCGCGACGUUAUCGAUUGUCGAUAGGUUUAACUGUGAUUAGUUACGGCCAACUGC
....((((((((............(((((...(((.....)))..)))))((((......))))..........)))))))).. (-12.39 = -14.22 +   1.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:06:35 2011