Locus 2336

Sequence ID dm3.chr2L
Location 18,126,727 – 18,126,846
Length 119
Max. P 0.956198
window3220

overview

Window 0

Location 18,126,727 – 18,126,846
Length 119
Sequences 13
Columns 147
Reading direction forward
Mean pairwise identity 84.22
Shannon entropy 0.31221
G+C content 0.42553
Mean single sequence MFE -34.05
Consensus MFE -24.26
Energy contribution -24.16
Covariance contribution -0.10
Combinations/Pair 1.47
Mean z-score -2.28
Structure conservation index 0.71
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.63
SVM RNA-class probability 0.956198
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 18126727 119 + 23011544
AAAUACUCCACAAGCUGCGUAUCAAUGAGAACCUGA---UGGCCAUUGCAAUUGAUGGUU------AUUUGGGCGAUAGGAAGUCGCCC---------UACUCCAAGCGCAAUAUCCAGGAAACGAACAAGUGAGUA----------
...(((((.((....(((((......(((.....((---((((((((......)))))))------))).(((((((.....)))))))---------..)))...))))).......(....)......)))))))---------- ( -36.60, z-score =  -2.56, R)
>droSim1.chr2L 17802898 119 + 22036055
AAAUACUCCACAAGCUGCGUAUCAAUGAGAACCUGA---UGGCCAUUGCAAUUGAUGGUU------AUUUGGGCGAUAGGAAGUCGCCC---------UACUCCAAGCGCAAUAUCCAGGAAACGAACAAGUGAGUA----------
...(((((.((....(((((......(((.....((---((((((((......)))))))------))).(((((((.....)))))))---------..)))...))))).......(....)......)))))))---------- ( -36.60, z-score =  -2.56, R)
>droSec1.super_7 1752424 119 + 3727775
AAAUACUCCACAAGCUGCGUAUCAAUGAGAACCUUA---UGGCCAUUGCAAUUGAUGGUU------AUUUGGGCGAUAGGAAGUCGCCC---------UACUCCAAGCGCAAUAUCCAGGAAACGAACAAGUGAGUA----------
...(((((.((....(((((......(((......(---((((((((......)))))))------))..(((((((.....)))))))---------..)))...))))).......(....)......)))))))---------- ( -35.30, z-score =  -2.37, R)
>droYak2.chr2R 4631264 119 + 21139217
AAAUACUCCACAAGCUGCGUAUCAAUGAGAACCUGA---UGGCCAUUGCAAUUGAUGGUU------AUUUGGGCGAUAGGAAGUCGCCC---------UACUCCAAGCGCAAUAUCCAGGAAACGAACAAGUGAGUA----------
...(((((.((....(((((......(((.....((---((((((((......)))))))------))).(((((((.....)))))))---------..)))...))))).......(....)......)))))))---------- ( -36.60, z-score =  -2.56, R)
>droEre2.scaffold_4845 16446177 119 - 22589142
AAAUACUCCACAAGCUGCGUAUCAAUGAGAACCUGA---UGGCCAUUGCAAUUGAUGGUU------AUUUGGGCGAUAGGAAGUCGCCC---------UACUCCAAGCGCAAUAUCCAGGAAACGAACAAGUGAGUA----------
...(((((.((....(((((......(((.....((---((((((((......)))))))------))).(((((((.....)))))))---------..)))...))))).......(....)......)))))))---------- ( -36.60, z-score =  -2.56, R)
>droAna3.scaffold_12916 13388937 129 - 16180835
AAAUACUCUAUAAGCUACGUAUCAAUGAGAACCUGA---UGGCCAUUGCAAUCGAUGGUU------AUUUGGGCGAUAGGAAGUCGCCC---------UACUCCAAGCGGAACAUACAGGAAACGAACAAGUGAGUACUAAGGACUA
...(((((......((.(((....)))))..(((((---(((((((((....))))))))------))..(((((((.....)))))))---------...(((....))).....))))............))))).......... ( -33.80, z-score =  -1.69, R)
>dp4.chr4_group3 1432984 119 - 11692001
AAAUACUCUACAAGCUGCGUAUCAAUGAGAAUUUGA---UGGCCAUUGGAAUUGAUGGUU------AUUUGGGCGAUAGGAAGUCGCCC---------UACUCCAAGCGGAACAUACAGGAAACGAACAAGUGAGUA----------
...(((((.((...((((........(((.....((---((((((((......)))))))------))).(((((((.....)))))))---------..)))...))))........(....)......)))))))---------- ( -34.60, z-score =  -2.52, R)
>droPer1.super_8 2497154 119 - 3966273
AAAUACUCUACAAGCUGCGUAUCAAUGAGAAUUUGA---UGGCCAUUGGAAUUGAUGGUU------AUUUGGGCGAUAGGAAGUCGCCC---------UACUCCAAGCGGAACAUACAGGAAACGAACAAGUGAGUA----------
...(((((.((...((((........(((.....((---((((((((......)))))))------))).(((((((.....)))))))---------..)))...))))........(....)......)))))))---------- ( -34.60, z-score =  -2.52, R)
>droWil1.scaffold_180764 3724668 119 - 3949147
AAAUACUCUAUAAGCUACGUAUCAAUGAGAAUUUGA---UGGCCAUUGCAAUUGAUGGUU------AUUUGGGUGAUAGAAAAUCGCCA---------UAUUCGAAGCGUAACAUCCAGGAAACGAAUAAGUGAGUA----------
...(((((.....(.(((((.((...........((---((((((((......)))))))------)))..((((((.....)))))).---------.....)).))))).).....(....)........)))))---------- ( -30.00, z-score =  -2.24, R)
>droVir3.scaffold_12963 17218342 119 + 20206255
AAAUACUCUACAAGCUGCGUAUCAAUGAGCAAUUGA---UGGCCAUUGGAAUUGAUGGUU------AUUUGGGUGAUAGGAAAUCGCCC---------UACUCCAAGCGUAACAUACAGGAAACGAACAAGUGAGUG----------
...(((((.((..(.(((((((((((.....)))))---)(((((((......)))))))------....(((((((.....)))))))---------........))))).).....(....)......)))))))---------- ( -32.10, z-score =  -1.87, R)
>droMoj3.scaffold_6500 22258951 119 + 32352404
AAAUACUCUACAAGCUGCGUAUCAAUGAGCAAUUGA---UGGUCAUUGGAAUUGAUGGCU------AUUUGGGUGAUAGAAAAUCGCCC---------UAUUCGAAGCGCAACAUACAGGAAACGAAUAAGUGAGUA----------
...(((((.((..(.(((((.((...........((---((((((((......)))))))------))).(((((((.....)))))))---------.....)).))))).).....(....)......)))))))---------- ( -35.80, z-score =  -3.43, R)
>droGri2.scaffold_15252 14643891 119 + 17193109
AAAUACUCUACAAGCUACGUAUCAAUGAGCAUUUGA---UGGCCAUUGGAAUUGAUGGAU------AUUUGGGUGAUAGAAAAUCGCCC---------UACUCCAAGCGUAACAUACAGGAAAUGAGCAAGUGAGUA----------
...(((((.((..(((((((.((((((.((......---..))))))))......((((.------....(((((((.....)))))))---------...)))).))))..(((.......))))))..)))))))---------- ( -32.30, z-score =  -2.34, R)
>anoGam1.chr3R 1210748 137 - 53272125
AAGUACUCACCAAGCGCAAUAUUACCGAGAAUCUUAGCCUGGUGUUUAUUGUCGGCAAUUUGACAGAGUCGGAUGUUCACAGCUCCUCCAUAAAUAAGUUUAAUAAACGAAACAUCCAGGAAACAAACCGGUAAGCA----------
...............((....((((((.(........((((((((((.((((..(((.((((((...)))))))))..))))...............(((.....))).))))).))))).......))))))))).---------- ( -27.76, z-score =  -0.43, R)
>consensus
AAAUACUCUACAAGCUGCGUAUCAAUGAGAACCUGA___UGGCCAUUGCAAUUGAUGGUU______AUUUGGGCGAUAGGAAGUCGCCC_________UACUCCAAGCGCAACAUCCAGGAAACGAACAAGUGAGUA__________
...(((((.((....(((((......(((...........(((((((......)))))))..........(((((((.....)))))))...........)))...))))).......(....)......))))))).......... (-24.26 = -24.16 +  -0.10)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:49:22 2011