Locus 11236

Sequence ID dm3.chr3R
Location 19,683,934 – 19,684,016
Length 82
Max. P 0.877767
window15435 window15436

overview

Window 5

Location 19,683,934 – 19,684,016
Length 82
Sequences 3
Columns 93
Reading direction forward
Mean pairwise identity 56.15
Shannon entropy 0.57621
G+C content 0.51318
Mean single sequence MFE -18.42
Consensus MFE -9.75
Energy contribution -8.20
Covariance contribution -1.55
Combinations/Pair 1.40
Mean z-score -1.07
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.65
SVM RNA-class probability 0.773765
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 19683934 82 + 27905053
GCAAGUUCCACUUGCAUCAGGGUUCU-CGGCACUCGCUGCCGCAUACCUCACCUUGAUAUGACAACCAACAUGCUGUGGUUCU----------
(((((.....)))))((((((((...-(((((.....)))))........)))))))).....(((((........)))))..---------- ( -23.90, z-score =  -1.95, R)
>droSim1.chrU 10347172 84 - 15797150
GCGAGGCUACUUCUCGCUCUACUACUACGGCUCUCGUAGCCGCACAGCUCACCU---------AAUCAAUAUGAUAAGCAUUCCUAGGGUUCU
((((((.....))))))..........(((((.....))))).........(((---------(......(((.....)))...))))..... ( -16.90, z-score =   0.01, R)
>droSec1.super_86 73009 66 + 128402
GCGAGGCUACUUCUCGCUCUACUACUACGGCUCUCGUAGCCGCACAGCUCACUU---------AAUCAAUAUGCU------------------
((((((.....))))))..........(((((.....)))))...(((......---------.........)))------------------ ( -14.46, z-score =  -1.27, R)
>consensus
GCGAGGCUACUUCUCGCUCUACUACUACGGCUCUCGUAGCCGCACAGCUCACCU_________AAUCAAUAUGCU__G__U____________
((((((...))))...............((((.....)))))).................................................. ( -9.75 =  -8.20 +  -1.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 19,683,934 – 19,684,016
Length 82
Sequences 3
Columns 93
Reading direction reverse
Mean pairwise identity 56.15
Shannon entropy 0.57621
G+C content 0.51318
Mean single sequence MFE -22.60
Consensus MFE -13.48
Energy contribution -13.60
Covariance contribution 0.12
Combinations/Pair 1.31
Mean z-score -1.00
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.03
SVM RNA-class probability 0.877767
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 19683934 82 - 27905053
----------AGAACCACAGCAUGUUGGUUGUCAUAUCAAGGUGAGGUAUGCGGCAGCGAGUGCCG-AGAACCCUGAUGCAAGUGGAACUUGC
----------....((((.((((...((((.(((((((.......)))))..((((.....)))))-).))))...))))..))))....... ( -24.10, z-score =  -0.58, R)
>droSim1.chrU 10347172 84 + 15797150
AGAACCCUAGGAAUGCUUAUCAUAUUGAUU---------AGGUGAGCUGUGCGGCUACGAGAGCCGUAGUAGUAGAGCGAGAAGUAGCCUCGC
......(((.....(((((((.((.....)---------))))))))..(((((((.....)))))))....))).(((((.......))))) ( -24.00, z-score =  -0.99, R)
>droSec1.super_86 73009 66 - 128402
------------------AGCAUAUUGAUU---------AAGUGAGCUGUGCGGCUACGAGAGCCGUAGUAGUAGAGCGAGAAGUAGCCUCGC
------------------(((.((((....---------.)))).))).(((((((.....)))))))........(((((.......))))) ( -19.70, z-score =  -1.45, R)
>consensus
____________A__C__AGCAUAUUGAUU_________AGGUGAGCUGUGCGGCUACGAGAGCCGUAGUAGUAGAGCGAGAAGUAGCCUCGC
.............................................(((((((((((.....))))))).))))...(((((.......))))) (-13.48 = -13.60 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:38:57 2011