Locus 10771

Sequence ID dm3.chr3R
Location 16,341,331 – 16,341,409
Length 78
Max. P 0.982402
window14796 window14797

overview

Window 6

Location 16,341,331 – 16,341,409
Length 78
Sequences 4
Columns 82
Reading direction forward
Mean pairwise identity 55.74
Shannon entropy 0.76563
G+C content 0.48073
Mean single sequence MFE -20.40
Consensus MFE -8.84
Energy contribution -8.27
Covariance contribution -0.56
Combinations/Pair 1.50
Mean z-score -1.28
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.65
SVM RNA-class probability 0.958272
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 16341331 78 + 27905053
AUUUGGAGAACCAC--AGCAUGUUGGUUGUCAUAUCAAGGUGAGGUAUGCGGCAGCGAGUGCCG-AGAACCCUGAUGCAAG-
..(((((.(((((.--.......))))).)).(((((.(((..(((((.((....)).))))).-...))).)))))))).- ( -23.10, z-score =  -1.05, R)
>droSec1.super_86 62560 73 - 128402
-------AGAACCCUAGGAAUGCUUACCAUAUUGAUUAAGUGAGCUGUGCGGCUACGAGAGCCGUAGUAGUAGAGCGAGA--
-------..............(((((..........)))))..(((.(((.((((((.....)))))).))).)))....-- ( -17.50, z-score =  -1.03, R)
>droYak2.chr2R 205979 70 + 21139217
AUUCGCUAAACCAUUUGGAAUGCUGUUCAUUGUUACUAGGUGAACUAUGCGGCUACGAGAACCGCA--GAUC----------
....((....((....))...)).(((((((.......)))))))..(((((.........)))))--....---------- ( -14.50, z-score =  -0.39, R)
>droEre2.scaffold_4845 2169216 82 + 22589142
AUCUACGAGAACAUCCGGAAUGUUCUUCAUACUUACUAGGUGAGCUAUGCGGCUACGAGAGCCGCAUCAACCAAGCGGGAAA
......((((((((.....))))))))....((..((.(((.....((((((((.....))))))))..))).))..))... ( -26.50, z-score =  -2.67, R)
>consensus
AUUUGC_AAAACACU_GGAAUGCUGUUCAUAAUUACUAGGUGAGCUAUGCGGCUACGAGAGCCGCAG_AACC_AGCG_GA__
................(((......)))...................(((((((.....)))))))................ ( -8.84 =  -8.27 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 16,341,331 – 16,341,409
Length 78
Sequences 4
Columns 82
Reading direction reverse
Mean pairwise identity 55.74
Shannon entropy 0.76563
G+C content 0.48073
Mean single sequence MFE -19.12
Consensus MFE -8.14
Energy contribution -8.07
Covariance contribution -0.06
Combinations/Pair 1.50
Mean z-score -1.51
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.10
SVM RNA-class probability 0.982402
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 16341331 78 - 27905053
-CUUGCAUCAGGGUUCU-CGGCACUCGCUGCCGCAUACCUCACCUUGAUAUGACAACCAACAUGCU--GUGGUUCUCCAAAU
-.....((((((((...-(((((.....)))))........))))))))..((.(((((.......--.))))).))..... ( -19.00, z-score =  -1.10, R)
>droSec1.super_86 62560 73 + 128402
--UCUCGCUCUACUACUACGGCUCUCGUAGCCGCACAGCUCACUUAAUCAAUAUGGUAAGCAUUCCUAGGGUUCU-------
--....((((((......(((((.....)))))....(((.(((..........))).))).....))))))...------- ( -15.70, z-score =  -1.50, R)
>droYak2.chr2R 205979 70 - 21139217
----------GAUC--UGCGGUUCUCGUAGCCGCAUAGUUCACCUAGUAACAAUGAACAGCAUUCCAAAUGGUUUAGCGAAU
----------....--(((((((.....)))))))..(((((...........))))).(((..((....))..).)).... ( -15.00, z-score =  -0.99, R)
>droEre2.scaffold_4845 2169216 82 - 22589142
UUUCCCGCUUGGUUGAUGCGGCUCUCGUAGCCGCAUAGCUCACCUAGUAAGUAUGAAGAACAUUCCGGAUGUUCUCGUAGAU
......(((.(((..((((((((.....)))))))).....))).)))...(((((.(((((((...))))))))))))... ( -26.80, z-score =  -2.46, R)
>consensus
__UC_CGCU_GAUU_CUGCGGCUCUCGUAGCCGCAUAGCUCACCUAGUAAAUAUGAACAACAUUCC_AAUGGUCU_GCAAAU
..........((((...((((((.....))))))..)))).......................................... ( -8.14 =  -8.07 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:30:05 2011