Locus 4061

Sequence ID dm3.chr2R
Location 10,064,638 – 10,064,744
Length 106
Max. P 0.871017
window5563 window5564

overview

Window 3

Location 10,064,638 – 10,064,744
Length 106
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 84.97
Shannon entropy 0.29268
G+C content 0.57407
Mean single sequence MFE -37.77
Consensus MFE -29.73
Energy contribution -30.98
Covariance contribution 1.25
Combinations/Pair 1.12
Mean z-score -1.53
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.65
SVM RNA-class probability 0.775927
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 10064638 106 + 21146708
ACCGAAAUGAAACGUAUCAACCCAUCGAAUUGAAAAAACAGAUCUGCUAGUGGAUCCGGCCACGGCCGCAGCAGCUGCAGCCGCCGCUGGUGGGGAUUCGGGUCUC
.(((((.(((......))).((((((..............((((((....)))))).(((..((((.((((...)))).))))..)))))))))..)))))..... ( -37.20, z-score =  -1.30, R)
>droSim1.chr2R 8834145 106 + 19596830
ACCGAAAUGAAACGUAUCAACCCAUCGAAUUGAAACAACAGAUCUGCUGGUGGAUCCGGCCACGGCCGCAGCAGCAGCAGCCGCUGCUGGUGGGGAUUCGGGUCUC
.(((((.(((......))).((((((((.(((......))).)).((((.(((..(((....))))))))))((((((....))))))))))))..)))))..... ( -39.40, z-score =  -1.55, R)
>droSec1.super_1 7572303 106 + 14215200
ACCGAAAUGAAACGUAUCAACCCAUCGAAUUGAAACAACAGAUCUGCUGGUGGAUCCGGCCACGGCCGCAGCAGCAGCAGCCGCUGCUGGUGGGGAUUCGGGUCUC
.(((((.(((......))).((((((((.(((......))).)).((((.(((..(((....))))))))))((((((....))))))))))))..)))))..... ( -39.40, z-score =  -1.55, R)
>droYak2.chr2R 10000741 106 + 21139217
ACCGAAAUGAAACGUAUCAACCCAUCGAAUUGAAACAACAGAUCUGCUGGUGGAUCCGGCCACGGCCGCAGCAGCUGCAGCCGCUGCUGGUGGGGAUUCGGGUCUC
.(((((.(((......))).(((((((.............((((((....)))))).(((....)))(((((.((....)).))))))))))))..)))))..... ( -39.20, z-score =  -1.45, R)
>droEre2.scaffold_4845 6815727 106 - 22589142
ACCAAAAUGAAACGUACCAACCCAUCGAAUUGAAACAACAGAUGUGCUGGUGGAUCCGGCCACGGCCGCAGCAGCAGCAGCCGCUGCUGGUGGGGAUUCGGGUCUC
.((............((((.(.((((...(((...)))..)))).).))))(((((((((....))).((.(((((((....))))))).)).))))))))..... ( -40.00, z-score =  -1.59, R)
>droAna3.scaffold_13266 14027725 85 - 19884421
---------------ACAAA--AAUGGAACCACAA-AUUAGAUCUUCUGGUGGAUCAGGCCACGGCAGCAGCAGCUGCAGCCGCGGCGGCUGGGGAUCCGACA---
---------------.....--..((((.((.((.-....(((((......)))))..(((.((((.((((...)))).)))).)))...)).)).))))...--- ( -31.40, z-score =  -1.73, R)
>consensus
ACCGAAAUGAAACGUAUCAACCCAUCGAAUUGAAACAACAGAUCUGCUGGUGGAUCCGGCCACGGCCGCAGCAGCAGCAGCCGCUGCUGGUGGGGAUUCGGGUCUC
...................((((...............(((.....)))..(((((((((....))).((.(((((((....))))))).)).))))))))))... (-29.73 = -30.98 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 10,064,638 – 10,064,744
Length 106
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 84.97
Shannon entropy 0.29268
G+C content 0.57407
Mean single sequence MFE -39.20
Consensus MFE -28.78
Energy contribution -30.67
Covariance contribution 1.89
Combinations/Pair 1.04
Mean z-score -1.94
Structure conservation index 0.73
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.00
SVM RNA-class probability 0.871017
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 10064638 106 - 21146708
GAGACCCGAAUCCCCACCAGCGGCGGCUGCAGCUGCUGCGGCCGUGGCCGGAUCCACUAGCAGAUCUGUUUUUUCAAUUCGAUGGGUUGAUACGUUUCAUUUCGGU
.....(((((..((((.(.((.((((((((((...)))))))))).))((((((........))))))............).)))).(((......))).))))). ( -40.10, z-score =  -1.85, R)
>droSim1.chr2R 8834145 106 - 19596830
GAGACCCGAAUCCCCACCAGCAGCGGCUGCUGCUGCUGCGGCCGUGGCCGGAUCCACCAGCAGAUCUGUUGUUUCAAUUCGAUGGGUUGAUACGUUUCAUUUCGGU
.....(((((..((((((.((((((((....))))))))(((....)))))......(((((....)))))...........)))).(((......))).))))). ( -39.70, z-score =  -1.61, R)
>droSec1.super_1 7572303 106 - 14215200
GAGACCCGAAUCCCCACCAGCAGCGGCUGCUGCUGCUGCGGCCGUGGCCGGAUCCACCAGCAGAUCUGUUGUUUCAAUUCGAUGGGUUGAUACGUUUCAUUUCGGU
.....(((((..((((((.((((((((....))))))))(((....)))))......(((((....)))))...........)))).(((......))).))))). ( -39.70, z-score =  -1.61, R)
>droYak2.chr2R 10000741 106 - 21139217
GAGACCCGAAUCCCCACCAGCAGCGGCUGCAGCUGCUGCGGCCGUGGCCGGAUCCACCAGCAGAUCUGUUGUUUCAAUUCGAUGGGUUGAUACGUUUCAUUUCGGU
.....(((((..((((((.((((((((....))))))))(((....)))))......(((((....)))))...........)))).(((......))).))))). ( -39.40, z-score =  -1.59, R)
>droEre2.scaffold_4845 6815727 106 + 22589142
GAGACCCGAAUCCCCACCAGCAGCGGCUGCUGCUGCUGCGGCCGUGGCCGGAUCCACCAGCACAUCUGUUGUUUCAAUUCGAUGGGUUGGUACGUUUCAUUUUGGU
(((((..(.((((......((((((((....))))))))(((....))))))).)((((((.((((.((((...))))..)))).))))))..)))))........ ( -43.70, z-score =  -2.53, R)
>droAna3.scaffold_13266 14027725 85 + 19884421
---UGUCGGAUCCCCAGCCGCCGCGGCUGCAGCUGCUGCUGCCGUGGCCUGAUCCACCAGAAGAUCUAAU-UUGUGGUUCCAUU--UUUGU---------------
---....(((.((.(((..((((((((.((((...)))).))))))))..((((........))))....-))).)).)))...--.....--------------- ( -32.60, z-score =  -2.48, R)
>consensus
GAGACCCGAAUCCCCACCAGCAGCGGCUGCAGCUGCUGCGGCCGUGGCCGGAUCCACCAGCAGAUCUGUUGUUUCAAUUCGAUGGGUUGAUACGUUUCAUUUCGGU
..((((((.((((......((((((((....))))))))(((....))))))).)..(((((....)))))............))))).................. (-28.78 = -30.67 +   1.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:21:59 2011