Locus 4592

Sequence ID dm3.chr2R
Location 14,327,989 – 14,328,056
Length 67
Max. P 0.703308
window6290 window6291

overview

Window 0

Location 14,327,989 – 14,328,056
Length 67
Sequences 5
Columns 75
Reading direction forward
Mean pairwise identity 76.78
Shannon entropy 0.38956
G+C content 0.42561
Mean single sequence MFE -18.12
Consensus MFE -9.72
Energy contribution -9.80
Covariance contribution 0.08
Combinations/Pair 1.35
Mean z-score -1.80
Structure conservation index 0.54
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.29
SVM RNA-class probability 0.632078
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 14327989 67 + 21146708
AUGCGGCCGCAUUUGGAUUGAGGGAAAACGGUGAAAUU----UUAUGCAAA----UGGUCACACUAAUAUGAACA
.((.((((((((..(((((..(......).....))))----).))))...----.)))).))............ (  -9.00, z-score =   1.15, R)
>droEre2.scaffold_4845 8535845 73 + 22589142
GUGUGACCGCAUUUUGAUAGUGGGAAAAUGGCAAAAUUUAUUGCGCACAAAGAAACGGUCACACUAAUAAAAA--
(((((((((..(((((...(((.((((((......)))).)).))).)))))...))))))))).........-- ( -21.10, z-score =  -3.63, R)
>droYak2.chr2R 6280766 69 - 21139217
GUGCGGCCGCAUUUGGAUGGGGGGAAAAUGGUUAAAUUCGUUUCGCGCAAA----CGGUCACACUAAUAUGAA--
(((.(((((..((((..((..(.(((..........))).)..))..))))----))))).))).........-- ( -17.70, z-score =  -0.78, R)
>droSec1.super_1 11804740 65 + 14215200
GUGCGACCGCAUUUGGAUGGCGGAAAAAUGGUGACAUU----UCAUGCAUG----UGGUCACACUAAUAUGAA--
(((.((((((((.......(((...(((((....))))----)..))))))----))))).))).........-- ( -22.81, z-score =  -3.04, R)
>droSim1.chr2R 13034390 65 + 19596830
GUGCGACCGCAUUUGGAUGGAGGAAAAAUGGUGACAUU----UCAAGCAUG----UGGUCACACUAAUAUGAA--
(((.(((((((((((((..........(((....))))----))))..)))----))))).))).........-- ( -20.00, z-score =  -2.69, R)
>consensus
GUGCGACCGCAUUUGGAUGGAGGGAAAAUGGUGAAAUU____UCACGCAAA____UGGUCACACUAAUAUGAA__
(((.((((((((((...........)))))((((........)))).........))))).)))........... ( -9.72 =  -9.80 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 14,327,989 – 14,328,056
Length 67
Sequences 5
Columns 75
Reading direction reverse
Mean pairwise identity 76.78
Shannon entropy 0.38956
G+C content 0.42561
Mean single sequence MFE -14.22
Consensus MFE -7.73
Energy contribution -7.81
Covariance contribution 0.08
Combinations/Pair 1.25
Mean z-score -1.88
Structure conservation index 0.54
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.46
SVM RNA-class probability 0.703308
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 14327989 67 - 21146708
UGUUCAUAUUAGUGUGACCA----UUUGCAUAA----AAUUUCACCGUUUUCCCUCAAUCCAAAUGCGGCCGCAU
...........(((((.(((----((((.((((----(((......)))))......)).)))))).)..))))) (  -6.60, z-score =   0.81, R)
>droEre2.scaffold_4845 8535845 73 - 22589142
--UUUUUAUUAGUGUGACCGUUUCUUUGUGCGCAAUAAAUUUUGCCAUUUUCCCACUAUCAAAAUGCGGUCACAC
--.........((((((((((...((((((.((((......))))))............))))..)))))))))) ( -20.60, z-score =  -4.56, R)
>droYak2.chr2R 6280766 69 + 21139217
--UUCAUAUUAGUGUGACCG----UUUGCGCGAAACGAAUUUAACCAUUUUCCCCCCAUCCAAAUGCGGCCGCAC
--.........(((((.(((----((((........(((..........)))........)))..)))).))))) ( -10.29, z-score =  -0.13, R)
>droSec1.super_1 11804740 65 - 14215200
--UUCAUAUUAGUGUGACCA----CAUGCAUGA----AAUGUCACCAUUUUUCCGCCAUCCAAAUGCGGUCGCAC
--.........((((((((.----(((((..((----((((....))))))...)).......))).)))))))) ( -17.61, z-score =  -2.69, R)
>droSim1.chr2R 13034390 65 - 19596830
--UUCAUAUUAGUGUGACCA----CAUGCUUGA----AAUGUCACCAUUUUUCCUCCAUCCAAAUGCGGUCGCAC
--.........((((((((.----(((....((----((((....))))))............))).)))))))) ( -15.99, z-score =  -2.82, R)
>consensus
__UUCAUAUUAGUGUGACCA____UUUGCAUGA____AAUUUCACCAUUUUCCCUCCAUCCAAAUGCGGUCGCAC
...........((((((((................................................)))))))) ( -7.73 =  -7.81 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:32:05 2011