Locus 11399

Sequence ID dm3.chr3R
Location 20,835,928 – 20,836,050
Length 122
Max. P 0.982963
window15666 window15667

overview

Window 6

Location 20,835,928 – 20,836,050
Length 122
Sequences 5
Columns 135
Reading direction forward
Mean pairwise identity 71.64
Shannon entropy 0.51089
G+C content 0.34499
Mean single sequence MFE -24.30
Consensus MFE -15.75
Energy contribution -16.19
Covariance contribution 0.44
Combinations/Pair 1.38
Mean z-score -1.73
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.05
SVM RNA-class probability 0.980678
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 20835928 122 + 27905053
AUUGAACUUAAGUA-UAGUACAAAUUACUAGAAACAUGCCAAAUAAGCAUAGAAAUCAG------------UUUAGUUCACACUCUUUUAUAAGCCGAACUUGUACACAAACUGAUUAACCAGUUAUUUGGCUCA
...........((.-(((((.....)))))...))..(((((((((.......((((((------------((((((....)))....((((((.....))))))...)))))))))......)))))))))... ( -22.52, z-score =  -1.72, R)
>droSim1.chr3R 20667504 123 + 27517382
-----------AUU-AAACUCAAAUUACUCGAAACUUGCCAAAUAAGUUUAGAAAUCAGUAUUUAUAUCAGUUCAGGUCACACACUCUUAUAACCCGAACUUCUACACUAACUGGUUAACCAGUUAUUUGGCUCA
-----------...-......................(((((((((((.((((................(((((.(((..............))).))))))))).))).(((((....)))))))))))))... ( -24.53, z-score =  -3.32, R)
>droSec1.super_33 97420 123 + 478481
-----------AUU-AAACUUAAAUUACUAGAAACAUGCCAAAUAAGUUUAGAAAUCAGUAUUUAUAUCAGUUCAGGUCACACACUCAUAUAACCCGAAUUUCUACACAAACUGAUUAAGCAGUUAUUUGGCUCA
-----------...-......................((((((((((((((...((((((.........(((((.(((..............))).))))).........)))))))))))..)))))))))... ( -22.01, z-score =  -2.76, R)
>droYak2.chr3R 3169687 134 - 28832112
AUUAUAUACAAAUAAUAGUUUAAAUUACUGGCAACAAGCCAAAUAAGUGUCGAAAUCAGUAACUAUACUAGUUUAGGUCACACACUCCAUUAGCCCGAACUUCAGCACAAGUUGAGUAG-CAUCUUUUUGGCACA
............................((((.....)))).....(((((((((..((...((((...((((..(((..............)))..))))(((((....)))))))))-...))))))))))). ( -26.54, z-score =  -1.79, R)
>droEre2.scaffold_4820 3252696 133 - 10470090
AUUCCACUCAAUUG-UAGUACAAAUUACUGGACACAUGCCACAUAGGUUUCGAAAUCAGCAGCUAUAACAGUUGGGGUCACACACUCCUAUAACCUGAACUCCUGCACAAGCUGGGUAAACAGUU-UUUGGCACA
..((((.....(((-.....))).....))))....(((((....((((....)))).((((......(((..(((((.....)))))......))).....))))..((((((......)))))-).))))).. ( -25.90, z-score =   0.94, R)
>consensus
AUU__A___AAAUA_UAGUUCAAAUUACUAGAAACAUGCCAAAUAAGUUUAGAAAUCAGUAUCUAUAUCAGUUCAGGUCACACACUCCUAUAACCCGAACUUCUACACAAACUGAUUAACCAGUUAUUUGGCUCA
.....................................(((((((((.......(((((((.........(((((.(((..............))).))))).........)))))))......)))))))))... (-15.75 = -16.19 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 20,835,928 – 20,836,050
Length 122
Sequences 5
Columns 135
Reading direction reverse
Mean pairwise identity 71.64
Shannon entropy 0.51089
G+C content 0.34499
Mean single sequence MFE -32.05
Consensus MFE -17.03
Energy contribution -20.55
Covariance contribution 3.52
Combinations/Pair 1.07
Mean z-score -2.17
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.12
SVM RNA-class probability 0.982963
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 20835928 122 - 27905053
UGAGCCAAAUAACUGGUUAAUCAGUUUGUGUACAAGUUCGGCUUAUAAAAGAGUGUGAACUAAA------------CUGAUUUCUAUGCUUAUUUGGCAUGUUUCUAGUAAUUUGUACUA-UACUUAAGUUCAAU
((((((((((((((((..(((((((((.......((((((((((......)))).)))))))))------------)))))).))).).))))))))).......(((((.....)))))-.........))).. ( -29.81, z-score =  -2.32, R)
>droSim1.chr3R 20667504 123 - 27517382
UGAGCCAAAUAACUGGUUAACCAGUUAGUGUAGAAGUUCGGGUUAUAAGAGUGUGUGACCUGAACUGAUAUAAAUACUGAUUUCUAAACUUAUUUGGCAAGUUUCGAGUAAUUUGAGUUU-AAU-----------
...(((((((((((((....))))))).((((..(((((((((((((......)))))))))))))..))))....................))))))....((((((...))))))...-...----------- ( -37.40, z-score =  -4.66, R)
>droSec1.super_33 97420 123 - 478481
UGAGCCAAAUAACUGCUUAAUCAGUUUGUGUAGAAAUUCGGGUUAUAUGAGUGUGUGACCUGAACUGAUAUAAAUACUGAUUUCUAAACUUAUUUGGCAUGUUUCUAGUAAUUUAAGUUU-AAU-----------
...(((((((((......(((((((...((((..(.((((((((((((....)))))))))))).)..))))...))))))).......)))))))))......................-...----------- ( -36.02, z-score =  -4.90, R)
>droYak2.chr3R 3169687 134 + 28832112
UGUGCCAAAAAGAUG-CUACUCAACUUGUGCUGAAGUUCGGGCUAAUGGAGUGUGUGACCUAAACUAGUAUAGUUACUGAUUUCGACACUUAUUUGGCUUGUUGCCAGUAAUUUAAACUAUUAUUUGUAUAUAAU
(((((....(((.((-.....)).))).(((((.....((((((((..((((((.(((....((.(((((....))))).)))))))))))..))))))))....)))))................))))).... ( -24.50, z-score =   0.86, R)
>droEre2.scaffold_4820 3252696 133 + 10470090
UGUGCCAAA-AACUGUUUACCCAGCUUGUGCAGGAGUUCAGGUUAUAGGAGUGUGUGACCCCAACUGUUAUAGCUGCUGAUUUCGAAACCUAUGUGGCAUGUGUCCAGUAAUUUGUACUA-CAAUUGAGUGGAAU
.((((((..-....((((...((((..((..((.((((..(((((((......)))))))..)))).))...)).))))......)))).....))))))...((((.(...(((.....-)))...).)))).. ( -32.50, z-score =   0.16, R)
>consensus
UGAGCCAAAUAACUGGUUAAUCAGUUUGUGUAGAAGUUCGGGUUAUAAGAGUGUGUGACCUAAACUGAUAUAAAUACUGAUUUCUAAACUUAUUUGGCAUGUUUCCAGUAAUUUGAACUA_AAUUU___U__AAU
...(((((((((......(((((((.........((((.((((((((......)))))))).)))).........))))))).......)))))))))..................................... (-17.03 = -20.55 +   3.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:42:11 2011