Locus 1086

Sequence ID dm3.chr2L
Location 8,146,804 – 8,146,876
Length 72
Max. P 0.802943
window1484 window1485

overview

Window 4

Location 8,146,804 – 8,146,876
Length 72
Sequences 6
Columns 72
Reading direction forward
Mean pairwise identity 73.52
Shannon entropy 0.51989
G+C content 0.35042
Mean single sequence MFE -13.83
Consensus MFE -8.55
Energy contribution -9.33
Covariance contribution 0.78
Combinations/Pair 1.26
Mean z-score -0.90
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.42
SVM RNA-class probability 0.689518
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 8146804 72 + 23011544
CUAAGGUUCUGCUGGAAUAACAAUAAAAUGUGUUUUUACAACAGAGCCAUUCUUGUUUGUGUCACACACAUU
....(((((((.((....((((........))))....)).))))))).........((((.....)))).. ( -17.60, z-score =  -1.99, R)
>droSim1.chr2L 7927824 72 + 22036055
CUAAGGUUCUGUCGGAAUAACAAUAAAAUGUGUUUUUACAACAGAGCCAUUCUUGUUUGUGUCACACACAUU
....((((((((.(....((((........))))....).)))))))).........((((.....)))).. ( -17.70, z-score =  -2.30, R)
>droSec1.super_3 3643814 72 + 7220098
CUAAGGUUCUGCUGGAAUAACAAUAAAAUGUGUUUUUACAACUGAGCCAUUCUUGUUUGUGUCACACACAUU
....(((((.(.((....((((........))))....)).).))))).........((((.....)))).. ( -13.00, z-score =  -0.31, R)
>droYak2.chr2L 10778061 72 + 22324452
CUAAGGUUCUGGUGGAAUAACAAUAUAAUGUGUUUUUACAACAGAGACAUUGUUGUUUGUGUCGCACACAUU
.........(((((((...((((.(((((((.(((.......))).)))))))...)))).)).))).)).. ( -13.80, z-score =  -0.07, R)
>droEre2.scaffold_4929 17052594 71 + 26641161
CUAAGGUUCUGCUGGAAUAACAAUAACAUGUGUUUUUACAACAGAG-CAUUCUUGGUUGUGUCGCACACAUU
(((((((((((.((....((((........))))....)).)))))-)...))))).((((.....)))).. ( -15.90, z-score =  -0.97, R)
>droAna3.scaffold_12916 9490793 54 + 16180835
---GUGUUCUUGCGGUUCCAAAAAAAAAGGUAUAAAAAAAGAAGGUUCGGAAACAUU---------------
---.(.(((((...((.((.........)).)).....))))).)...(....)...--------------- (  -5.00, z-score =   0.24, R)
>consensus
CUAAGGUUCUGCUGGAAUAACAAUAAAAUGUGUUUUUACAACAGAGCCAUUCUUGUUUGUGUCACACACAUU
....(((((((.((.((.((((........)))).)).)).))))))).........((((.....)))).. ( -8.55 =  -9.33 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 8,146,804 – 8,146,876
Length 72
Sequences 6
Columns 72
Reading direction reverse
Mean pairwise identity 73.52
Shannon entropy 0.51989
G+C content 0.35042
Mean single sequence MFE -12.13
Consensus MFE -8.40
Energy contribution -8.15
Covariance contribution -0.25
Combinations/Pair 1.35
Mean z-score -0.85
Structure conservation index 0.69
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.74
SVM RNA-class probability 0.802943
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 8146804 72 - 23011544
AAUGUGUGUGACACAAACAAGAAUGGCUCUGUUGUAAAAACACAUUUUAUUGUUAUUCCAGCAGAACCUUAG
..((((.....)))).........((.(((((((.((.((((........)))).)).))))))).)).... ( -16.40, z-score =  -1.67, R)
>droSim1.chr2L 7927824 72 - 22036055
AAUGUGUGUGACACAAACAAGAAUGGCUCUGUUGUAAAAACACAUUUUAUUGUUAUUCCGACAGAACCUUAG
..((((.....)))).........((.(((((((.((.((((........)))).)).))))))).)).... ( -16.10, z-score =  -1.78, R)
>droSec1.super_3 3643814 72 - 7220098
AAUGUGUGUGACACAAACAAGAAUGGCUCAGUUGUAAAAACACAUUUUAUUGUUAUUCCAGCAGAACCUUAG
..((((.....)))).........((.((.((((.((.((((........)))).)).)))).)).)).... ( -11.10, z-score =   0.30, R)
>droYak2.chr2L 10778061 72 - 22324452
AAUGUGUGCGACACAAACAACAAUGUCUCUGUUGUAAAAACACAUUAUAUUGUUAUUCCACCAGAACCUUAG
(((((((((((((.(.(((....))).).))))))....))))))).......................... ( -11.30, z-score =  -0.74, R)
>droEre2.scaffold_4929 17052594 71 - 26641161
AAUGUGUGCGACACAACCAAGAAUG-CUCUGUUGUAAAAACACAUGUUAUUGUUAUUCCAGCAGAACCUUAG
..((((.....))))..........-.(((((((.((.((((........)))).)).)))))))....... ( -13.40, z-score =  -0.81, R)
>droAna3.scaffold_12916 9490793 54 - 16180835
---------------AAUGUUUCCGAACCUUCUUUUUUUAUACCUUUUUUUUUGGAACCGCAAGAACAC---
---------------..((((((((((.......................))))))..(....))))).--- (  -4.50, z-score =  -0.43, R)
>consensus
AAUGUGUGUGACACAAACAAGAAUGGCUCUGUUGUAAAAACACAUUUUAUUGUUAUUCCAGCAGAACCUUAG
..((((.....))))............(((((((.((.((((........)))).)).)))))))....... ( -8.40 =  -8.15 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:25:20 2011