Locus 9793

Sequence ID dm3.chr3R
Location 9,041,238 – 9,041,340
Length 102
Max. P 0.681839
window13438 window13439

overview

Window 8

Location 9,041,238 – 9,041,338
Length 100
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 87.77
Shannon entropy 0.19310
G+C content 0.58849
Mean single sequence MFE -43.78
Consensus MFE -33.19
Energy contribution -33.83
Covariance contribution 0.64
Combinations/Pair 1.03
Mean z-score -1.92
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.40
SVM RNA-class probability 0.681839
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 9041238 100 - 27905053
GGAUUGGCAACUGCA------ACUGCCACUGGGAUUGGGCUCGAAUCUGGGAA-UGGGAAGGAGGU------------CGAGUCCGAGUCCGAUUCCCAGCCCGAGUCGGAGACUGAGA
....(((((......------..)))))((.((.((.((((((...(((((((-(.(((.(((...------------....)))...))).))))))))..)))))).))..)).)). ( -42.00, z-score =  -1.90, R)
>droSim1.chr3R 15131317 100 + 27517382
GGAUUGGCAACAGCA------ACUGCCACUGGGAUUGGGCUCGAAUCUGGGAA-UGGGAAGGAGGU------------CGAAUCCGAGUCCGAUUCCCAGCCCGAGUCGGAGACUGAGA
....(((((......------..)))))((.((.((.((((((...(((((((-(.(((.(((...------------....)))...))).))))))))..)))))).))..)).)). ( -42.90, z-score =  -2.52, R)
>droSec1.super_0 8157154 100 + 21120651
GGAUUGGCAACAGCA------ACUGCCACUGGGAUUGGGCUCGAAUCUGGGAA-UGGGAAGGAGGU------------CGAAUCCGAGUCCGAUUCCCAGCCCGAGUCGGAGACUGAGA
....(((((......------..)))))((.((.((.((((((...(((((((-(.(((.(((...------------....)))...))).))))))))..)))))).))..)).)). ( -42.90, z-score =  -2.52, R)
>droYak2.chr3R 13342527 111 - 28832112
GGAUUGGCAACUGCAACUGCCACUGCCACUGGGAUUGGGCUCGAAUCUGGGAA--UGGGAGGAGGUCGAGA------CCGAGUCCGAGUCCGAUUCCCAGCCCGAGUCGGAGACCGAGA
((..(((((........)))))...)).((((..((.((((((...(((((((--(.(((((((((....)------))...)))...))).))))))))..)))))).))..)).)). ( -47.50, z-score =  -1.73, R)
>droEre2.scaffold_4770 5137925 119 + 17746568
GGAUUGGCAACUGCAACUGCCACUGCCACUGGGAUUGGGCUCGAAUCUGGAAAAUGGGAAGAAGGUCGAGACCGAGUCCGAGUCCGAGUCCGAUUCCCAGCCCGAGUCGGAGACUGAGA
((..(((((...((....))...)))))(((((((((((((((.(..((((...(((...(.....)....)))..))))..).))))))))).)))))).)).((((...)))).... ( -43.60, z-score =  -0.92, R)
>consensus
GGAUUGGCAACUGCA______ACUGCCACUGGGAUUGGGCUCGAAUCUGGGAA_UGGGAAGGAGGU____________CGAGUCCGAGUCCGAUUCCCAGCCCGAGUCGGAGACUGAGA
....(((((..............)))))((.((.((.((((((...(((((((.((((..(((...................)))...)))).)))))))..)))))).))..)).)). (-33.19 = -33.83 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 9,041,240 – 9,041,340
Length 100
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 87.41
Shannon entropy 0.19916
G+C content 0.58849
Mean single sequence MFE -44.22
Consensus MFE -33.79
Energy contribution -33.83
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -1.89
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.39
SVM RNA-class probability 0.677600
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 9041240 100 - 27905053
UGGGAUUGGCAACUGCA------ACUGCCACUGGGAUUGGGCUCGAAUCUGGGAA-UGGGAAGGAGGU------------CGAGUCCGAGUCCGAUUCCCAGCCCGAGUCGGAGACUGA
......(((((......------..)))))..((..((.((((((...(((((((-(.(((.(((...------------....)))...))).))))))))..)))))).))..)).. ( -41.20, z-score =  -1.59, R)
>droSim1.chr3R 15131319 100 + 27517382
AGGGAUUGGCAACAGCA------ACUGCCACUGGGAUUGGGCUCGAAUCUGGGAA-UGGGAAGGAGGU------------CGAAUCCGAGUCCGAUUCCCAGCCCGAGUCGGAGACUGA
......(((((......------..)))))..((..((.((((((...(((((((-(.(((.(((...------------....)))...))).))))))))..)))))).))..)).. ( -42.10, z-score =  -2.09, R)
>droSec1.super_0 8157156 100 + 21120651
UGGGAUUGGCAACAGCA------ACUGCCACUGGGAUUGGGCUCGAAUCUGGGAA-UGGGAAGGAGGU------------CGAAUCCGAGUCCGAUUCCCAGCCCGAGUCGGAGACUGA
......(((((......------..)))))..((..((.((((((...(((((((-(.(((.(((...------------....)))...))).))))))))..)))))).))..)).. ( -42.10, z-score =  -2.18, R)
>droYak2.chr3R 13342529 111 - 28832112
UGGGAUUGGCAACUGCAACUGCCACUGCCACUGGGAUUGGGCUCGAAUCUGGGAA--UGGGAGGAGGUCGAGA------CCGAGUCCGAGUCCGAUUCCCAGCCCGAGUCGGAGACCGA
(((.(.(((((........))))).).))).(((..((.((((((...(((((((--(.(((((((((....)------))...)))...))).))))))))..)))))).))..))). ( -48.90, z-score =  -1.97, R)
>droEre2.scaffold_4770 5137927 119 + 17746568
UGGGAUUGGCAACUGCAACUGCCACUGCCACUGGGAUUGGGCUCGAAUCUGGAAAAUGGGAAGAAGGUCGAGACCGAGUCCGAGUCCGAGUCCGAUUCCCAGCCCGAGUCGGAGACUGA
.(((..(((((...((....))...)))))(((((((((((((((.(..((((...(((...(.....)....)))..))))..).))))))))).))))))))).((((...)))).. ( -46.80, z-score =  -1.61, R)
>consensus
UGGGAUUGGCAACUGCA______ACUGCCACUGGGAUUGGGCUCGAAUCUGGGAA_UGGGAAGGAGGU____________CGAGUCCGAGUCCGAUUCCCAGCCCGAGUCGGAGACUGA
.(((..(((((..............)))))((((((((((((((...(((........))).(((...................))))))))))).))))))))).....(....)... (-33.79 = -33.83 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:11:17 2011