Locus 2607

Sequence ID dm3.chr2L
Location 20,486,197 – 20,486,311
Length 114
Max. P 0.900365
window3580 window3581

overview

Window 0

Location 20,486,197 – 20,486,311
Length 114
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 86.92
Shannon entropy 0.23548
G+C content 0.63376
Mean single sequence MFE -45.74
Consensus MFE -34.88
Energy contribution -34.56
Covariance contribution -0.32
Combinations/Pair 1.08
Mean z-score -1.80
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.50
SVM RNA-class probability 0.721924
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 20486197 114 + 23011544
CGGUACACUUAAGGCGGCCUGGGAAACGCCUGCAAUCUGCUGGUCGCGAACUGCAGAUUGCAUCCAUGUGCCAGGCGACCAUGCGACCAUGUGACCAUGUGCCCGCCCGACGCC
.((((((....(((((.(....)...)))))(((((((((.(((.....)))))))))))).....)))))).((((.....(((..(((((....)))))..)))....)))) ( -44.50, z-score =  -1.48, R)
>droEre2.scaffold_4845 18633615 92 - 22589142
CGGUACACUUAGGGCGUCCUGGGAAACGCCUGCAAUCUGCUGGCCGCGAGCUGCAGAUUGCAUCCAUGUGCCAGGCGACCAUGUG-CCACGUC---------------------
.((((((.....((((.(((((.(......((((((((((.(((.....)))))))))))))......).))))))).)).))))-)).....--------------------- ( -41.30, z-score =  -2.31, R)
>droYak2.chr2R 6841528 113 + 21139217
CGGUACACUUAAGGCGUCCUGGGAAACGCCUGCAAUCUGCUGGCCGCGAACUGCAGAUUGCAUCCAUGUGCCAGGCGACCAAGCGACCAUGUUACCAUGUGCC-GCCCGACGCC
.((((((....((((((........))))))(((((((((.(........).))))))))).....)))))).((((.....(((.(((((....)))).).)-))....)))) ( -44.90, z-score =  -2.35, R)
>droSec1.super_18 364460 114 + 1342155
CGGUACACUUAAGGCGGCCUGGGAAACGCCUGCAAUCUGCUGGCCGCGAACUGCAGAUUGCAUCCAUGUGCCAGGCGGCCAGGCGACCAUGCGACCAUAUGCCCGCCCGACGCC
.((((((....(((((.(....)...)))))(((((((((.(........).))))))))).....)))))).((((..(.((((..((((......))))..)))).).)))) ( -48.30, z-score =  -1.62, R)
>droSim1.chr2L 20049675 114 + 22036055
CGGUACACUUAAGGCGGCCUGGGAAACGCCUGCAAUCUGCUGGCCGCGAACUGCAGAUUGCAUCCAUGUGCCAGGCGGCCAGGCGACCAGGCGACCAUGUGCCCGCCCGACGCC
.((((((....(((((.(....)...)))))(((((((((.(........).))))))))).....)))))).((((..(.((((....((((......)))))))).).)))) ( -49.70, z-score =  -1.23, R)
>consensus
CGGUACACUUAAGGCGGCCUGGGAAACGCCUGCAAUCUGCUGGCCGCGAACUGCAGAUUGCAUCCAUGUGCCAGGCGACCAGGCGACCAUGUGACCAUGUGCCCGCCCGACGCC
.((((((....(((((.(....)...)))))(((((((((.(........).))))))))).....)))))).((((......)).)).......................... (-34.88 = -34.56 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 20,486,197 – 20,486,311
Length 114
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 86.92
Shannon entropy 0.23548
G+C content 0.63376
Mean single sequence MFE -50.84
Consensus MFE -39.51
Energy contribution -39.54
Covariance contribution 0.03
Combinations/Pair 1.12
Mean z-score -2.08
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.15
SVM RNA-class probability 0.900365
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 20486197 114 - 23011544
GGCGUCGGGCGGGCACAUGGUCACAUGGUCGCAUGGUCGCCUGGCACAUGGAUGCAAUCUGCAGUUCGCGACCAGCAGAUUGCAGGCGUUUCCCAGGCCGCCUUAAGUGUACCG
((((((((((((.((..((..(....)..))..)).))))))))).......((((((((((.(((...)))..))))))))))(((.(.....).))))))............ ( -47.00, z-score =  -0.89, R)
>droEre2.scaffold_4845 18633615 92 + 22589142
---------------------GACGUGG-CACAUGGUCGCCUGGCACAUGGAUGCAAUCUGCAGCUCGCGGCCAGCAGAUUGCAGGCGUUUCCCAGGACGCCCUAAGUGUACCG
---------------------..((..(-(((..((.(((((((...(((..((((((((((.((.....))..))))))))))..)))...))))).)).))...))))..)) ( -39.60, z-score =  -1.92, R)
>droYak2.chr2R 6841528 113 - 21139217
GGCGUCGGGC-GGCACAUGGUAACAUGGUCGCUUGGUCGCCUGGCACAUGGAUGCAAUCUGCAGUUCGCGGCCAGCAGAUUGCAGGCGUUUCCCAGGACGCCUUAAGUGUACCG
((((((((((-(((.((((....))))))))))))).)))).((.((((...((((((((((.((.....))..))))))))))((((((......))))))....)))).)). ( -56.20, z-score =  -3.94, R)
>droSec1.super_18 364460 114 - 1342155
GGCGUCGGGCGGGCAUAUGGUCGCAUGGUCGCCUGGCCGCCUGGCACAUGGAUGCAAUCUGCAGUUCGCGGCCAGCAGAUUGCAGGCGUUUCCCAGGCCGCCUUAAGUGUACCG
((((((((((((.(((........))).))))))))).((((((...(((..((((((((((.((.....))..))))))))))..)))...)))))).)))............ ( -53.30, z-score =  -1.36, R)
>droSim1.chr2L 20049675 114 - 22036055
GGCGUCGGGCGGGCACAUGGUCGCCUGGUCGCCUGGCCGCCUGGCACAUGGAUGCAAUCUGCAGUUCGCGGCCAGCAGAUUGCAGGCGUUUCCCAGGCCGCCUUAAGUGUACCG
((((((((((((.(....).)))))))).)))).(((.((((((...(((..((((((((((.((.....))..))))))))))..)))...)))))).)))............ ( -58.10, z-score =  -2.32, R)
>consensus
GGCGUCGGGCGGGCACAUGGUCACAUGGUCGCAUGGUCGCCUGGCACAUGGAUGCAAUCUGCAGUUCGCGGCCAGCAGAUUGCAGGCGUUUCCCAGGCCGCCUUAAGUGUACCG
...(((.....)))............((((((..(((.((((((...(((..((((((((((.((.....))..))))))))))..)))...)))))).)))....))).))). (-39.51 = -39.54 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:54:26 2011