Locus 5282

Sequence ID dm3.chr2R
Location 19,146,694 – 19,146,789
Length 95
Max. P 0.756600
window7239 window7240

overview

Window 9

Location 19,146,694 – 19,146,789
Length 95
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 81.37
Shannon entropy 0.35404
G+C content 0.56152
Mean single sequence MFE -34.14
Consensus MFE -18.70
Energy contribution -19.90
Covariance contribution 1.20
Combinations/Pair 1.17
Mean z-score -1.82
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.05
SVM RNA-class probability 0.517077
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 19146694 95 + 21146708
CAAGAAAAGCGGGCCAAGAGGGCCAAGCCAUAUAAGAGACCGC--GAUGAUGGCGGCAAUUAUACGUGGUGACCAUGUGGCGGGUGGGGU--UUUCCAG
...(((((.(.((((.....))))..(((((((.....(((((--((((((.......))))).))))))....)))))))......).)--))))... ( -32.00, z-score =  -1.58, R)
>droSim1.chrU 6598511 95 + 15797150
CAAGAAAAGCGGGCCAAGAGGGCCAAGCCAUAUAAGAGCCCGC--GAUGAUGGCGGCAAUUAUACGUGGUGGCCAUGUGGCGGGUGGGGU--UUUCCAG
...(((((.(.((((.....)))).............((((((--.((.(((((.((...........)).))))))).))))))..).)--))))... ( -34.90, z-score =  -1.37, R)
>droSec1.super_9 2440130 95 + 3197100
CAAGAAAAGCGGGCCAAGAGGGCCAAGCCAUAUAAGAGCCCGC--GAUGAUGGCGGCAAUUAUACGUGGUGGCCAUGUGGCGGGUGGGGU--UUUCCAG
...(((((.(.((((.....)))).............((((((--.((.(((((.((...........)).))))))).))))))..).)--))))... ( -34.90, z-score =  -1.37, R)
>droYak2.chr2R 19111864 96 + 21139217
CAAGAAAAGCGGGCCAAGAGGGCCAAGCCAUAUAAGAGUCUGC--GAUGAUGGCGGCAAUUAUACGUGGUGGCCAUGUGGCGGGCGGGGU-UUUUCCAC
...(((((((.((((.....)))).............((((((--.((.(((((.((...........)).))))))).))))))...))-)))))... ( -34.40, z-score =  -1.72, R)
>droEre2.scaffold_4845 20514958 97 + 22589142
CAAGAAAAGCGGGCCAAGAGGGCCAAGCCAUAUAAGAGCCCGC--GAUGAUGGCGGCAAUUAUACGUGGUGGCCAUGUGGCGGGUGGUGUGUUUUCCAC
...(((((((.((((.....))))..))(((((....((((((--.((.(((((.((...........)).))))))).)))))).))))))))))... ( -37.50, z-score =  -2.03, R)
>droMoj3.scaffold_6496 4839742 84 - 26866924
CAACAAUGGCCGGC-----AGACCAAAAUGUGUAAACACGCGUAUGAUGAUGGCGGCAAUUAUACGGUCAGCACGAGAUGCUGGCCGGA----------
........((((.(-----(.......((((((....)))))).......)).)))).......(((((((((.....)))))))))..---------- ( -31.14, z-score =  -2.85, R)
>consensus
CAAGAAAAGCGGGCCAAGAGGGCCAAGCCAUAUAAGAGCCCGC__GAUGAUGGCGGCAAUUAUACGUGGUGGCCAUGUGGCGGGUGGGGU__UUUCCAG
........((..((((....((((..(((((((((..(.((((.........)))))..)))))..))))))))...))))..)).............. (-18.70 = -19.90 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 19,146,694 – 19,146,789
Length 95
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 81.37
Shannon entropy 0.35404
G+C content 0.56152
Mean single sequence MFE -27.32
Consensus MFE -18.19
Energy contribution -19.47
Covariance contribution 1.28
Combinations/Pair 1.14
Mean z-score -1.65
Structure conservation index 0.67
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.60
SVM RNA-class probability 0.756600
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 19146694 95 - 21146708
CUGGAAA--ACCCCACCCGCCACAUGGUCACCACGUAUAAUUGCCGCCAUCAUC--GCGGUCUCUUAUAUGGCUUGGCCCUCUUGGCCCGCUUUUCUUG
.(((...--...)))...((((...(((((...(((((((..(((((.......--)))))...)))))))...)))))....))))............ ( -26.20, z-score =  -1.81, R)
>droSim1.chrU 6598511 95 - 15797150
CUGGAAA--ACCCCACCCGCCACAUGGCCACCACGUAUAAUUGCCGCCAUCAUC--GCGGGCUCUUAUAUGGCUUGGCCCUCUUGGCCCGCUUUUCUUG
.(((...--...)))...((((...(((((...(((((((..(((((.......--)).)))..)))))))...)))))....))))............ ( -28.80, z-score =  -1.66, R)
>droSec1.super_9 2440130 95 - 3197100
CUGGAAA--ACCCCACCCGCCACAUGGCCACCACGUAUAAUUGCCGCCAUCAUC--GCGGGCUCUUAUAUGGCUUGGCCCUCUUGGCCCGCUUUUCUUG
.(((...--...)))...((((...(((((...(((((((..(((((.......--)).)))..)))))))...)))))....))))............ ( -28.80, z-score =  -1.66, R)
>droYak2.chr2R 19111864 96 - 21139217
GUGGAAAA-ACCCCGCCCGCCACAUGGCCACCACGUAUAAUUGCCGCCAUCAUC--GCAGACUCUUAUAUGGCUUGGCCCUCUUGGCCCGCUUUUCUUG
((((....-...))))..((((...(((((...(((((((..((.((.......--)).).)..)))))))...)))))....))))............ ( -24.70, z-score =  -1.01, R)
>droEre2.scaffold_4845 20514958 97 - 22589142
GUGGAAAACACACCACCCGCCACAUGGCCACCACGUAUAAUUGCCGCCAUCAUC--GCGGGCUCUUAUAUGGCUUGGCCCUCUUGGCCCGCUUUUCUUG
((((........))))..((((...(((((...(((((((..(((((.......--)).)))..)))))))...)))))....))))............ ( -31.10, z-score =  -2.26, R)
>droMoj3.scaffold_6496 4839742 84 + 26866924
----------UCCGGCCAGCAUCUCGUGCUGACCGUAUAAUUGCCGCCAUCAUCAUACGCGUGUUUACACAUUUUGGUCU-----GCCGGCCAUUGUUG
----------..(((.((((((...)))))).))).(((((.((((.((..((((.....(((....)))....)))).)-----).)))).))))).. ( -24.30, z-score =  -1.47, R)
>consensus
CUGGAAA__ACCCCACCCGCCACAUGGCCACCACGUAUAAUUGCCGCCAUCAUC__GCGGGCUCUUAUAUGGCUUGGCCCUCUUGGCCCGCUUUUCUUG
..................((((...(((((...(((((((..(((((.........)))).)..)))))))...)))))....))))............ (-18.19 = -19.47 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:45:15 2011