Locus 2145

Sequence ID dm3.chr2L
Location 16,596,594 – 16,596,664
Length 70
Max. P 0.969963
window2953 window2954

overview

Window 3

Location 16,596,594 – 16,596,664
Length 70
Sequences 7
Columns 70
Reading direction forward
Mean pairwise identity 80.46
Shannon entropy 0.38440
G+C content 0.42107
Mean single sequence MFE -12.83
Consensus MFE -7.79
Energy contribution -8.91
Covariance contribution 1.13
Combinations/Pair 1.24
Mean z-score -2.37
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.82
SVM RNA-class probability 0.969963
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr2L 16596594 70 + 23011544
CGAAACAUUUAUGGCCUGAUAAGAGCCACAGGACAGCAACAUCAACGGCCACAACGUUGACAUAGAUACG
......(((((((.((((..........)))).........((((((.......)))))))))))))... ( -15.40, z-score =  -3.12, R)
>droEre2.scaffold_4845 19664741 70 + 22589142
CAAAACAUUUAUGGCCUGAUAGGAGCCACAGGACAACAAAAUCAACGGCCACAACGUUGACAUAGAUACG
......(((((((.((((..........)))).........((((((.......)))))))))))))... ( -15.40, z-score =  -3.37, R)
>droYak2.chr2R 16632023 70 - 21139217
CAAAACAUUUAUGGUCUGAUAAGAGCCACAGGACAGCAACAUCAACGGCCACAACGUUGACAUAGAUACG
......(((((((((((.............)))).......((((((.......)))))))))))))... ( -14.42, z-score =  -2.64, R)
>droSec1.super_7 244071 70 + 3727775
CAAAACAUUUAUGGCCUGAUAAGAGCCACAGGACAGCAACAUCAACGGCCACAACGUUGACAUAGAUACG
......(((((((.((((..........)))).........((((((.......)))))))))))))... ( -15.40, z-score =  -3.31, R)
>droSim1.chr2L 16292145 70 + 22036055
CAAAACAUUUAUGGCCUGAUAAGAGCCACAGGACAGCAACAUCAACGGCCACAACGUUGACAUAGAUACG
......(((((((.((((..........)))).........((((((.......)))))))))))))... ( -15.40, z-score =  -3.31, R)
>dp4.chr4_group3 8334751 64 + 11692001
AAGCACAUUUAUGGCCUGAUAACACUCA------AACAACAACAACAACAACCAUGUUGACAUAGAUAUG
...((.(((((((...(((......)))------...........(((((....))))).))))))).)) (  -8.70, z-score =  -1.73, R)
>droAna3.scaffold_12916 215256 60 - 16180835
CAAAACAUUUAUGGCCCGAUAACGUUUA------AACAACA--AAUA--CUUGGUGUUGAUUUAGAAAUG
........................((((------(((((((--....--.....))))).)))))).... (  -5.10, z-score =   0.85, R)
>consensus
CAAAACAUUUAUGGCCUGAUAAGAGCCACAGGACAGCAACAUCAACGGCCACAACGUUGACAUAGAUACG
......(((((((.((((..........)))).........((((((.......)))))))))))))... ( -7.79 =  -8.91 +   1.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 16,596,594 – 16,596,664
Length 70
Sequences 7
Columns 70
Reading direction reverse
Mean pairwise identity 80.46
Shannon entropy 0.38440
G+C content 0.42107
Mean single sequence MFE -15.20
Consensus MFE -9.71
Energy contribution -10.56
Covariance contribution 0.84
Combinations/Pair 1.40
Mean z-score -1.44
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.27
SVM RNA-class probability 0.622189
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr2L 16596594 70 - 23011544
CGUAUCUAUGUCAACGUUGUGGCCGUUGAUGUUGCUGUCCUGUGGCUCUUAUCAGGCCAUAAAUGUUUCG
............((((((((((((..(((((..(((.......)))...))))))))))).))))))... ( -19.40, z-score =  -2.50, R)
>droEre2.scaffold_4845 19664741 70 - 22589142
CGUAUCUAUGUCAACGUUGUGGCCGUUGAUUUUGUUGUCCUGUGGCUCCUAUCAGGCCAUAAAUGUUUUG
............((((((((((((..((((...(..(((....)))..).)))))))))).))))))... ( -16.80, z-score =  -2.08, R)
>droYak2.chr2R 16632023 70 + 21139217
CGUAUCUAUGUCAACGUUGUGGCCGUUGAUGUUGCUGUCCUGUGGCUCUUAUCAGACCAUAAAUGUUUUG
............((((((((((...((((((..(((.......)))...)))))).)))).))))))... ( -14.30, z-score =  -0.79, R)
>droSec1.super_7 244071 70 - 3727775
CGUAUCUAUGUCAACGUUGUGGCCGUUGAUGUUGCUGUCCUGUGGCUCUUAUCAGGCCAUAAAUGUUUUG
............((((((((((((..(((((..(((.......)))...))))))))))).))))))... ( -19.40, z-score =  -2.55, R)
>droSim1.chr2L 16292145 70 - 22036055
CGUAUCUAUGUCAACGUUGUGGCCGUUGAUGUUGCUGUCCUGUGGCUCUUAUCAGGCCAUAAAUGUUUUG
............((((((((((((..(((((..(((.......)))...))))))))))).))))))... ( -19.40, z-score =  -2.55, R)
>dp4.chr4_group3 8334751 64 - 11692001
CAUAUCUAUGUCAACAUGGUUGUUGUUGUUGUUGUU------UGAGUGUUAUCAGGCCAUAAAUGUGCUU
(((((.((((.(((((....)))))........(((------(((......)))))))))).)))))... ( -13.20, z-score =  -0.83, R)
>droAna3.scaffold_12916 215256 60 + 16180835
CAUUUCUAAAUCAACACCAAG--UAUU--UGUUGUU------UAAACGUUAUCGGGCCAUAAAUGUUUUG
................((..(--((..--((((...------..)))).)))..)).............. (  -3.90, z-score =   1.21, R)
>consensus
CGUAUCUAUGUCAACGUUGUGGCCGUUGAUGUUGCUGUCCUGUGGCUCUUAUCAGGCCAUAAAUGUUUUG
............((((((((((((..(((((..(((.......)))...))))))))))).))))))... ( -9.71 = -10.56 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:45:39 2011