Locus 10647

Sequence ID dm3.chr3R
Location 15,360,312 – 15,360,426
Length 114
Max. P 0.890929
window14642 window14643

overview

Window 2

Location 15,360,312 – 15,360,426
Length 114
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 79.82
Shannon entropy 0.33924
G+C content 0.52837
Mean single sequence MFE -30.42
Consensus MFE -20.20
Energy contribution -21.00
Covariance contribution 0.80
Combinations/Pair 1.08
Mean z-score -1.57
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.23
SVM RNA-class probability 0.603549
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 15360312 114 + 27905053
AAAAUUUUUAUCAGCAUGCCGAGGCAAUGACAUGGCCACAUCACAAGGACGCGCAUGAGGGAGCGGGUUUUCGAGAUGGGA--GUGGGGAGCUUUGAGUGUGGAGGAUGUGGACAC
....((..((((..(((((((((((.....(((..((.((((.(.(((((.(((........))).))))).).)))))).--)))....)))))).)))))...))))..))... ( -33.60, z-score =  -1.67, R)
>droSim1.chr3R 21404163 114 - 27517382
AAAAUUUUUAUCAGCAUGCCGAGGCAAUGACAUGGCCACAUCACAAGGACGCGCACGAGGGAGCGGGUUUUUGUGAUGGGA--GGGGGGAGUGUGGAGUGCGGAGGAUGUGGACAC
..........((.((((.((...(((.(.((((..((.((((((((((((.(((........))).))))))))))))...--...))..)))).)..)))...)))))).))... ( -37.80, z-score =  -3.29, R)
>droSec1.super_25 411795 116 - 827797
AAAUUUUUUAUCAGCAUGCCGAGGCAAUGACAUGGCCACAUCACAAGGACGCGCACGAGGGAGCGGGUUUUCGAGAUGGGAGUGGGGGGAGUGAGGAGUGUGGAGAAUGAGGACAC
...(((((..((.((((.((...((..(..(((..((.((((.(.(((((.(((........))).))))).).)))))).)))..)...))..)).)))).))....)))))... ( -27.30, z-score =  -0.35, R)
>droYak2.chr3R_random 2405853 100 + 3277457
AAAAUUUUUAUCAGCAUGCCGAGGCAAUGACGUGGCCACAUCACACGGACGCGUAUGAGGGAGCGGGUUUUUCGGAUGGGAGUGUGGAGGAUGUGGACAC----------------
..........(((...(((....))).))).(((.(((((((.((((..(.(((.(((((((.....))))))).))).)..))))...))))))).)))---------------- ( -29.90, z-score =  -1.50, R)
>droEre2.scaffold_4770 11465349 98 - 17746568
AAAAUUUUUAUCAGCAUGCCGAGGCAAUGACAUGACCACAUCACAAGGACGCGUAUGAGGGAGCGGGAUUUUGGGUUGGGA-UGUGG-GGAUAUGGACAC----------------
..........(((...(((....))).)))((((.(((((((.(((((.(.(((........))).).)))))......))-)))))-...)))).....---------------- ( -23.50, z-score =  -1.07, R)
>consensus
AAAAUUUUUAUCAGCAUGCCGAGGCAAUGACAUGGCCACAUCACAAGGACGCGCAUGAGGGAGCGGGUUUUUGAGAUGGGA_UGUGGGGAGUGUGGAGUG_GGAG_AUG_GGACAC
..........(((.(((((....)).)))...)))((.((((.(((((((.(((........))).))))))).)))))).................................... (-20.20 = -21.00 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 15,360,312 – 15,360,426
Length 114
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 79.82
Shannon entropy 0.33924
G+C content 0.52837
Mean single sequence MFE -22.32
Consensus MFE -14.18
Energy contribution -15.34
Covariance contribution 1.16
Combinations/Pair 1.05
Mean z-score -2.09
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.10
SVM RNA-class probability 0.890929
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 15360312 114 - 27905053
GUGUCCACAUCCUCCACACUCAAAGCUCCCCAC--UCCCAUCUCGAAAACCCGCUCCCUCAUGCGCGUCCUUGUGAUGUGGCCAUGUCAUUGCCUCGGCAUGCUGAUAAAAAUUUU
((((...........))))..............--.((((((.(((..((.(((........))).))..))).)))).))...(((((.(((....)))...)))))........ ( -21.70, z-score =  -1.24, R)
>droSim1.chr3R 21404163 114 + 27517382
GUGUCCACAUCCUCCGCACUCCACACUCCCCCC--UCCCAUCACAAAAACCCGCUCCCUCGUGCGCGUCCUUGUGAUGUGGCCAUGUCAUUGCCUCGGCAUGCUGAUAAAAAUUUU
((((...........))))..............--.((((((((((..((.(((........))).))..)))))))).))...(((((.(((....)))...)))))........ ( -26.30, z-score =  -3.19, R)
>droSec1.super_25 411795 116 + 827797
GUGUCCUCAUUCUCCACACUCCUCACUCCCCCCACUCCCAUCUCGAAAACCCGCUCCCUCGUGCGCGUCCUUGUGAUGUGGCCAUGUCAUUGCCUCGGCAUGCUGAUAAAAAAUUU
((((...........)))).................((((((.(((..((.(((........))).))..))).)))).))...(((((.(((....)))...)))))........ ( -21.70, z-score =  -2.13, R)
>droYak2.chr3R_random 2405853 100 - 3277457
----------------GUGUCCACAUCCUCCACACUCCCAUCCGAAAAACCCGCUCCCUCAUACGCGUCCGUGUGAUGUGGCCACGUCAUUGCCUCGGCAUGCUGAUAAAAAUUUU
----------------(((.(((((((....((((((......))......(((..........)))...))))))))))).)))((((.(((....)))...))))......... ( -23.80, z-score =  -2.50, R)
>droEre2.scaffold_4770 11465349 98 + 17746568
----------------GUGUCCAUAUCC-CCACA-UCCCAACCCAAAAUCCCGCUCCCUCAUACGCGUCCUUGUGAUGUGGUCAUGUCAUUGCCUCGGCAUGCUGAUAAAAAUUUU
----------------.......((((.-(((((-((.(((..........(((..........)))...))).))))))).((((((........))))))..))))........ ( -18.12, z-score =  -1.41, R)
>consensus
GUGUCC_CAU_CUCC_CACUCCACACUCCCCACA_UCCCAUCCCAAAAACCCGCUCCCUCAUGCGCGUCCUUGUGAUGUGGCCAUGUCAUUGCCUCGGCAUGCUGAUAAAAAUUUU
....................................((((((.(((..((.(((........))).))..))).)))).))...(((((.(((....)))...)))))........ (-14.18 = -15.34 +   1.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:27:56 2011