Locus 12184

Sequence ID dm3.chr3R
Location 26,308,155 – 26,308,250
Length 95
Max. P 0.890021
window16756 window16757

overview

Window 6

Location 26,308,155 – 26,308,250
Length 95
Sequences 3
Columns 97
Reading direction forward
Mean pairwise identity 56.01
Shannon entropy 0.61872
G+C content 0.48607
Mean single sequence MFE -28.67
Consensus MFE -15.64
Energy contribution -13.09
Covariance contribution -2.54
Combinations/Pair 1.50
Mean z-score -0.91
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.89
SVM RNA-class probability 0.844626
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 26308155 95 + 27905053
-GGAGACCGUAGAUUGAGUUGGCAUACCUUCCAGGUUAGGGGAAACAACUGCACAGCUGGCGCGGAGUUG-GGAGCGUAAUUCUCCUGGCUCAACAC
-(....)(((....(.((((((((..(((........)))(....)...))).))))).).)))((((..-((((.......))))..))))..... ( -29.20, z-score =  -0.34, R)
>droSec1.super_367 1931 95 + 12961
AGCAGAGCUGGUGUUACCAAGACUU-CUUUGU-GAAAGGCCAAAAGAAUCUUAUUGCCUUGAGGCAAUCAUAGCUCGUAUCUCUGCUGGAGUAUGUC
(((((((.(((.((((..((((.((-((((.(-(......))))))))))))((((((....))))))..)))).).)).))))))).......... ( -25.40, z-score =  -0.53, R)
>droYak2.chrU 19230801 96 + 28119190
AGCAGAGCUGGUUUUACCAAGAUUUGCAUUGCCGAAAGGCCAAGAGAAUCGUAUUGCCUUGAGGCAAUCAUAGCUCGUAUCUCUGCUGGAGUGUUC-
(((((((.(((.....))).....(((...(((....)))...(((....(.((((((....)))))))....)))))).))))))).........- ( -31.40, z-score =  -1.86, R)
>consensus
AGCAGAGCUGGUAUUACCAAGACUU_CAUUGC_GAAAGGCCAAAAGAAUCGUAUUGCCUUGAGGCAAUCAUAGCUCGUAUCUCUGCUGGAGUAUCAC
.((((((.(((.....))).........((((...(((((...............)))))...)))).............))))))........... (-15.64 = -13.09 +  -2.54)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 26,308,155 – 26,308,250
Length 95
Sequences 3
Columns 97
Reading direction reverse
Mean pairwise identity 56.01
Shannon entropy 0.61872
G+C content 0.48607
Mean single sequence MFE -25.25
Consensus MFE -12.93
Energy contribution -13.27
Covariance contribution 0.34
Combinations/Pair 1.28
Mean z-score -1.18
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.09
SVM RNA-class probability 0.890021
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 26308155 95 - 27905053
GUGUUGAGCCAGGAGAAUUACGCUCC-CAACUCCGCGCCAGCUGUGCAGUUGUUUCCCCUAACCUGGAAGGUAUGCCAACUCAAUCUACGGUCUCC-
((((.(((...((((.......))))-...))).))))..((((((..((((.((((........))))((....))....)))).))))))....- ( -21.80, z-score =   0.40, R)
>droSec1.super_367 1931 95 - 12961
GACAUACUCCAGCAGAGAUACGAGCUAUGAUUGCCUCAAGGCAAUAAGAUUCUUUUGGCCUUUC-ACAAAG-AAGUCUUGGUAACACCAGCUCUGCU
..........(((((((............((((((....))))))((((((..((((.......-.)))).-.))))))((.....))..))))))) ( -26.70, z-score =  -2.10, R)
>droYak2.chrU 19230801 96 - 28119190
-GAACACUCCAGCAGAGAUACGAGCUAUGAUUGCCUCAAGGCAAUACGAUUCUCUUGGCCUUUCGGCAAUGCAAAUCUUGGUAAAACCAGCUCUGCU
-.........(((((((..........((((((((..(((((...............)))))..)))))).))....((((.....))))))))))) ( -27.26, z-score =  -1.84, R)
>consensus
GAAAUACUCCAGCAGAGAUACGAGCUAUGAUUGCCUCAAGGCAAUACGAUUCUUUUGGCCUUUC_GCAAAG_AAGUCUUGGUAAAACCAGCUCUGCU
...........((((((............((((((....))))))..((((......((......))......)))).............)))))). (-12.93 = -13.27 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:57:22 2011