Locus 5360

Sequence ID dm3.chr2R
Location 19,752,844 – 19,752,957
Length 113
Max. P 0.630754
window7350 window7351

overview

Window 0

Location 19,752,844 – 19,752,957
Length 113
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 87.57
Shannon entropy 0.22178
G+C content 0.57013
Mean single sequence MFE -40.42
Consensus MFE -30.26
Energy contribution -32.26
Covariance contribution 2.00
Combinations/Pair 1.07
Mean z-score -1.76
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.24
SVM RNA-class probability 0.609550
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 19752844 113 + 21146708
GUAAAUUAAUGGCCGACCAGUGUGGCCAGCGUCGCGCAAAAUAUCGUGCACCAGCGA-GGAAUCCAGCGCUAUCGAUAACAUU-CGGCCCGCGCGCUUUGGGCACCUCCGGUCAC
.........((((((....(((((((....)))))))........((((.(((((..-((...)).((((..((((......)-)))...))))))..)))))))...)))))). ( -38.70, z-score =  -0.63, R)
>droSim1.chr2R 18316304 115 + 19596830
GUAAAUUAAUGACCGACCAGUGUGGCCAGCGCCGCGCGAAAUAUCGUGCACCAGCGAUGGCAUCCAGCGCUAUCGAUAACAUUUCGGCCUGCGCGCUUUGUGCACCUCCGGUCAC
.........((((((....(((((((....)))))))........((((((.(((..(((...)))((((..((((.......))))...)))))))..))))))...)))))). ( -44.80, z-score =  -2.60, R)
>droSec1.super_9 3044219 115 + 3197100
GUAAAUUAAUGACCGACCAGUGUGGCCAGCGCCGCGCGAAAUAUCGAGCACCAGCGAUGGCAUCCAGCGCUAUCGAUAACAUUUCGGCCCGCGCGCUUUGGGCACCUCCGGUCAC
.........((((((...((.(((.((((.(((((((((((((((((.....((((.(((...))).)))).))))))...)))))...)))).)).)))).))))).)))))). ( -44.30, z-score =  -2.15, R)
>droYak2.chr2R 19738274 113 + 21139217
GUAAAUUAAUGGCCAAGUAGUGUGGCCAGCGCAGCGCG--AUAUCGUUCAAUAGCGAUGGCAUCCACCGCUAUCGAUAACAUUUCGGCCAGCCCGCACUACGCACCUCCGGCCAC
.........(((((..(((((((((...((...((.((--((((((....((((((.(((...))).))))))))))).....)))))..)))))))))))(......)))))). ( -39.80, z-score =  -2.55, R)
>droEre2.scaffold_4845 21133559 114 + 22589142
GUAAAUUAAUGACCGAGCAGUGUGGCCAGCGUAG-GCGAAAUAUCGUUCAGCAGCGAUGGCACCCAACGCUAUCGAUAACAUUUCAGGCAGCCCGCAGUGUGCACCUCCGGUCAC
.........((((((.(((.(((((.(.((...(-((((....)))))..)).((((((((.......))))))((.......))..)).).))))).))).......)))))). ( -34.50, z-score =  -0.86, R)
>consensus
GUAAAUUAAUGACCGACCAGUGUGGCCAGCGCCGCGCGAAAUAUCGUGCACCAGCGAUGGCAUCCAGCGCUAUCGAUAACAUUUCGGCCAGCGCGCUUUGGGCACCUCCGGUCAC
.........((((((....((((((((.((...((((((....))))))....))((((((.......))))))...........)))).))))((.....)).....)))))). (-30.26 = -32.26 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 19,752,844 – 19,752,957
Length 113
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 87.57
Shannon entropy 0.22178
G+C content 0.57013
Mean single sequence MFE -44.60
Consensus MFE -35.88
Energy contribution -36.12
Covariance contribution 0.24
Combinations/Pair 1.16
Mean z-score -1.57
Structure conservation index 0.80
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.29
SVM RNA-class probability 0.630754
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 19752844 113 - 21146708
GUGACCGGAGGUGCCCAAAGCGCGCGGGCCG-AAUGUUAUCGAUAGCGCUGGAUUCC-UCGCUGGUGCACGAUAUUUUGCGCGACGCUGGCCACACUGGUCGGCCAUUAAUUUAC
.(((((((..(((.(((..(((((((...((-((...(((((...((((..(.....-...)..)))).))))).)))))))).)))))).))).)))))))............. ( -41.20, z-score =  -0.52, R)
>droSim1.chr2R 18316304 115 - 19596830
GUGACCGGAGGUGCACAAAGCGCGCAGGCCGAAAUGUUAUCGAUAGCGCUGGAUGCCAUCGCUGGUGCACGAUAUUUCGCGCGGCGCUGGCCACACUGGUCGGUCAUUAAUUUAC
((((((((.((((.....(((((.(..((((((((((..(((.(((((.(((...))).))))).)).)..)))))))).)))))))).....))))..))))))))........ ( -44.40, z-score =  -1.13, R)
>droSec1.super_9 3044219 115 - 3197100
GUGACCGGAGGUGCCCAAAGCGCGCGGGCCGAAAUGUUAUCGAUAGCGCUGGAUGCCAUCGCUGGUGCUCGAUAUUUCGCGCGGCGCUGGCCACACUGGUCGGUCAUUAAUUUAC
((((((((.((((.....(((((.((.((.((((((((..((.(((((.(((...))).))))).))...)))))))))).))))))).....))))..))))))))........ ( -47.40, z-score =  -1.35, R)
>droYak2.chr2R 19738274 113 - 21139217
GUGGCCGGAGGUGCGUAGUGCGGGCUGGCCGAAAUGUUAUCGAUAGCGGUGGAUGCCAUCGCUAUUGAACGAUAU--CGCGCUGCGCUGGCCACACUACUUGGCCAUUAAUUUAC
(((((((.....((((((((((((....))...(((((.(((((((((((((...)))))))))))))..)))))--)))))))))))))))))..................... ( -51.60, z-score =  -3.73, R)
>droEre2.scaffold_4845 21133559 114 - 22589142
GUGACCGGAGGUGCACACUGCGGGCUGCCUGAAAUGUUAUCGAUAGCGUUGGGUGCCAUCGCUGCUGAACGAUAUUUCGC-CUACGCUGGCCACACUGCUCGGUCAUUAAUUUAC
((((((((.((((..((.((..(((.....((((((((.(((.(((((.(((...))).))))).)))..))))))))))-)..)).))....))))..))))))))........ ( -38.40, z-score =  -1.08, R)
>consensus
GUGACCGGAGGUGCACAAAGCGCGCGGGCCGAAAUGUUAUCGAUAGCGCUGGAUGCCAUCGCUGGUGCACGAUAUUUCGCGCGGCGCUGGCCACACUGGUCGGUCAUUAAUUUAC
((((((((.((((.....(((((((....(((((((((..((.(((((.(((...))).))))).))...))))))))).))).)))).....))))..))))))))........ (-35.88 = -36.12 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:46:46 2011