Locus 12792

Sequence ID dm3.chrX
Location 2,196,413 – 2,196,513
Length 100
Max. P 0.961551
window17581 window17582

overview

Window 1

Location 2,196,413 – 2,196,513
Length 100
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 85.44
Shannon entropy 0.26687
G+C content 0.49365
Mean single sequence MFE -37.10
Consensus MFE -23.14
Energy contribution -24.78
Covariance contribution 1.64
Combinations/Pair 1.08
Mean z-score -2.85
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.69
SVM RNA-class probability 0.961551
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 2196413 100 + 22422827
UAUUGUCUUGGCCGCUGCUGUGGCCAAGUGGGCAUGUGUAUCUGUCCCUCGAGCAUUUACA--GUGGCGGCAAAGACAUUGAUGAAAUUGUCCGCCC---UAAAA----
...((((((.(((((..((((((((.((.(((((........))))))).).))...))))--)..))))).))))))...................---.....---- ( -37.00, z-score =  -2.73, R)
>droAna3.scaffold_12929 2102730 95 + 3277472
UAGUAUCUCAACCGCCGCUGUAG------------AUACAUUUGUAUCUUUAGCAUUUACG--GUGGCGGCAAAGACAUUGAUGAAAUUGUCUGGCCGUCUGGAGAAGA
.....((((.((((..((((.((------------((((....)))))).)))).....))--))((((((..(((((.(......).))))).))))))..))))... ( -34.80, z-score =  -3.91, R)
>droEre2.scaffold_4644 2162318 100 + 2521924
UAUUGGCUUGGCCGCUGCUGUGGCCAAGUGGGCAUGUGUAUCUGUCCCUCGAGCAUUUACA--GUGGCGGCAAAGACAUUGAUGAAAUUGUCCGCCC---UAAAA----
....(((...(((((..((((((((.((.(((((........))))))).).))...))))--)..)))))...((((.(......).)))).))).---.....---- ( -36.70, z-score =  -1.98, R)
>droYak2.chrX 15640212 102 - 21770863
UAUUAGCUUGGCCGCUGCUGUGGCCAAGCGGGCAUGUGUAUCUGUCCCUCGAGCAUUUACACAGUGGCGGCAAAGACAUUGAUGAAAUUGUCCGCCC---UAAAA----
.....((((((((((....))))))))))((((.((((((..(((.......)))..))))))...........((((.(......).)))).))))---.....---- ( -40.10, z-score =  -3.01, R)
>droSec1.super_10 1981655 100 + 3036183
UAUUGUCUUGGCCGCUGCUGUGGCCAAGUGGGCAUGUGUAUCUGUCCCUCGAGCAUUUACA--GUGGCGGCAAAGACAUUGAUGAAAUUGUCCGCCC---UAAAA----
...((((((.(((((..((((((((.((.(((((........))))))).).))...))))--)..))))).))))))...................---.....---- ( -37.00, z-score =  -2.73, R)
>droSim1.chrX 1552366 100 + 17042790
UAUUGUCUUGGCCGCUGCUGUGGCCAAGUGGGCAUGUGUAUCUGUCCCUCGAGCAUUUACA--GUGGCGGCAAAGACAUUGAUGAAAUUGUCCGCCC---UAAAA----
...((((((.(((((..((((((((.((.(((((........))))))).).))...))))--)..))))).))))))...................---.....---- ( -37.00, z-score =  -2.73, R)
>consensus
UAUUGUCUUGGCCGCUGCUGUGGCCAAGUGGGCAUGUGUAUCUGUCCCUCGAGCAUUUACA__GUGGCGGCAAAGACAUUGAUGAAAUUGUCCGCCC___UAAAA____
...((((((.((((((((.(((.((....)).))).((((..(((.......)))..))))..)))))))).))))))............................... (-23.14 = -24.78 +   1.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 2,196,413 – 2,196,513
Length 100
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 85.44
Shannon entropy 0.26687
G+C content 0.49365
Mean single sequence MFE -32.33
Consensus MFE -21.31
Energy contribution -23.17
Covariance contribution 1.86
Combinations/Pair 1.04
Mean z-score -2.58
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.48
SVM RNA-class probability 0.942127
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 2196413 100 - 22422827
----UUUUA---GGGCGGACAAUUUCAUCAAUGUCUUUGCCGCCAC--UGUAAAUGCUCGAGGGACAGAUACACAUGCCCACUUGGCCACAGCAGCGGCCAAGACAAUA
----...((---((((((.(((...((....))...)))))))).)--))...........(((.((........))))).(((((((.(....).)))))))...... ( -32.10, z-score =  -2.45, R)
>droAna3.scaffold_12929 2102730 95 - 3277472
UCUUCUCCAGACGGCCAGACAAUUUCAUCAAUGUCUUUGCCGCCAC--CGUAAAUGCUAAAGAUACAAAUGUAU------------CUACAGCGGCGGUUGAGAUACUA
...((((..(.((((.(((((..........)))))..)))).)((--(((...((((..((((((....))))------------))..))))))))).))))..... ( -29.10, z-score =  -3.70, R)
>droEre2.scaffold_4644 2162318 100 - 2521924
----UUUUA---GGGCGGACAAUUUCAUCAAUGUCUUUGCCGCCAC--UGUAAAUGCUCGAGGGACAGAUACACAUGCCCACUUGGCCACAGCAGCGGCCAAGCCAAUA
----...((---((((((.(((...((....))...)))))))).)--))...........(((.((........))))).(((((((.(....).)))))))...... ( -31.40, z-score =  -1.75, R)
>droYak2.chrX 15640212 102 + 21770863
----UUUUA---GGGCGGACAAUUUCAUCAAUGUCUUUGCCGCCACUGUGUAAAUGCUCGAGGGACAGAUACACAUGCCCGCUUGGCCACAGCAGCGGCCAAGCUAAUA
----.....---((((((.(((...((....))...))))).....((((((..((((....)).))..)))))).))))((((((((.(....).))))))))..... ( -37.20, z-score =  -2.69, R)
>droSec1.super_10 1981655 100 - 3036183
----UUUUA---GGGCGGACAAUUUCAUCAAUGUCUUUGCCGCCAC--UGUAAAUGCUCGAGGGACAGAUACACAUGCCCACUUGGCCACAGCAGCGGCCAAGACAAUA
----...((---((((((.(((...((....))...)))))))).)--))...........(((.((........))))).(((((((.(....).)))))))...... ( -32.10, z-score =  -2.45, R)
>droSim1.chrX 1552366 100 - 17042790
----UUUUA---GGGCGGACAAUUUCAUCAAUGUCUUUGCCGCCAC--UGUAAAUGCUCGAGGGACAGAUACACAUGCCCACUUGGCCACAGCAGCGGCCAAGACAAUA
----...((---((((((.(((...((....))...)))))))).)--))...........(((.((........))))).(((((((.(....).)))))))...... ( -32.10, z-score =  -2.45, R)
>consensus
____UUUUA___GGGCGGACAAUUUCAUCAAUGUCUUUGCCGCCAC__UGUAAAUGCUCGAGGGACAGAUACACAUGCCCACUUGGCCACAGCAGCGGCCAAGACAAUA
.............(((((.(((...((....))...)))))))).................(((.((........))))).(((((((.(....).)))))))...... (-21.31 = -23.17 +   1.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:08:50 2011