Locus 12308

Sequence ID dm3.chr3R
Location 27,272,086 – 27,272,199
Length 113
Max. P 0.968550
window16919 window16920

overview

Window 9

Location 27,272,086 – 27,272,199
Length 113
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 86.67
Shannon entropy 0.22799
G+C content 0.34298
Mean single sequence MFE -21.26
Consensus MFE -16.14
Energy contribution -15.54
Covariance contribution -0.60
Combinations/Pair 1.21
Mean z-score -2.19
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.15
SVM RNA-class probability 0.900183
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 27272086 113 + 27905053
GUUUUCAUUUUAUUAAAUACUCGUAGUUCGCCUUGUAAAUUUCGAUGCAGAGCAAAGUUUUGUCUGUUUCCGUACGCUUUGCAUUGCUCUGCAAAAA---UGUUUACCAAUAUUCU
((...((((((.........(((.((((..(...)..)))).)))((((((((((.((...((.((......)).))...)).))))))))))))))---))...))......... ( -24.20, z-score =  -2.66, R)
>droSim1.chr3R 26902417 114 + 27517382
GUUUCCAUUUUAUUAAAUACUCGUAGUUCGCCUUGUAAAUUCCGAUGCAGAGCAAAGUU--GUCUGUUUCCGUGCUCUUUGCAUUGCUCUGCAAAAAAAAUGUUUACCAAUAUUCU
((...((((((.........(((.((((..(...)..)))).)))((((((((((.((.--....((......)).....)).))))))))))...))))))...))......... ( -24.10, z-score =  -3.21, R)
>droSec1.super_4 6072075 116 + 6179234
GUUUCCAUUUUAUUAAAUACUCGUAGUUCGCCUUGUAGAUUCCGAUGCAGAGCAUAGUUUUGUCUGUUUCCGUGCACUUUGCAUUGCUCUGCAAAAAAAAUGUUUACCAAUAUUCU
((...((((((.........(((.((((..(...)..)))).)))((((((((((((......))))....((((.....)))).))))))))...))))))...))......... ( -24.60, z-score =  -2.52, R)
>droYak2.chr3R 28202104 107 + 28832112
GUUUUCAUUUUAUUAAAUA---GUUCGUC---UUGUAAAUUUCAAUGCAGAGUAAAGUUCUGUCUGUUUCCAUGCUCUUUGCACUGCGCUGCAAAAA---UAUUUACCAAUAUUCU
...................---.......---..((((((..((.(((((.((((((....((.((....)).)).)))))).))))).))......---.))))))......... ( -15.10, z-score =  -0.53, R)
>droEre2.scaffold_4820 9757847 109 - 10470090
-GUUUCAUUUUAUUAAAUA---GUUCGUCGUCUUGUAAAUUUCGAUGCAGAGUAAAGUUCUGUCUGUUUCCUUGCUCUUUGCACUGCUCUGCAAAAA---UAUUUACCAAUAUUCU
-..................---............((((((.....(((((((((.((......)).......(((.....))).)))))))))....---.))))))......... ( -18.30, z-score =  -2.02, R)
>consensus
GUUUUCAUUUUAUUAAAUACUCGUAGUUCGCCUUGUAAAUUUCGAUGCAGAGCAAAGUUCUGUCUGUUUCCGUGCUCUUUGCAUUGCUCUGCAAAAA___UGUUUACCAAUAUUCU
..................................((((((.....(((((((((..((.......((......)).....))..)))))))))........))))))......... (-16.14 = -15.54 +  -0.60)

alignment

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secondary structure

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dotplot

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Window 0

Location 27,272,086 – 27,272,199
Length 113
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 86.67
Shannon entropy 0.22799
G+C content 0.34298
Mean single sequence MFE -23.76
Consensus MFE -18.26
Energy contribution -19.58
Covariance contribution 1.32
Combinations/Pair 1.12
Mean z-score -2.55
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.80
SVM RNA-class probability 0.968550
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 27272086 113 - 27905053
AGAAUAUUGGUAAACA---UUUUUGCAGAGCAAUGCAAAGCGUACGGAAACAGACAAAACUUUGCUCUGCAUCGAAAUUUACAAGGCGAACUACGAGUAUUUAAUAAAAUGAAAAC
.(((((((.(((....---....((((((((((.((...))((..(....)..))......))))))))))(((............)))..))).))))))).............. ( -26.10, z-score =  -3.04, R)
>droSim1.chr3R 26902417 114 - 27517382
AGAAUAUUGGUAAACAUUUUUUUUGCAGAGCAAUGCAAAGAGCACGGAAACAGAC--AACUUUGCUCUGCAUCGGAAUUUACAAGGCGAACUACGAGUAUUUAAUAAAAUGGAAAC
.(((((((.(((...........(((((((((((((.....))).(....)....--....))))))))))(((............)))..))).))))))).............. ( -27.60, z-score =  -3.54, R)
>droSec1.super_4 6072075 116 - 6179234
AGAAUAUUGGUAAACAUUUUUUUUGCAGAGCAAUGCAAAGUGCACGGAAACAGACAAAACUAUGCUCUGCAUCGGAAUCUACAAGGCGAACUACGAGUAUUUAAUAAAAUGGAAAC
.(((((((.(((...........(((((((((.(((.....))).(....)...........)))))))))(((............)))..))).))))))).............. ( -27.30, z-score =  -2.98, R)
>droYak2.chr3R 28202104 107 - 28832112
AGAAUAUUGGUAAAUA---UUUUUGCAGCGCAGUGCAAAGAGCAUGGAAACAGACAGAACUUUACUCUGCAUUGAAAUUUACAA---GACGAAC---UAUUUAAUAAAAUGAAAAC
.........((((((.---((..(((((.(..((((.....))))(....).............).)))))..)).))))))..---.......---................... ( -17.70, z-score =  -0.99, R)
>droEre2.scaffold_4820 9757847 109 + 10470090
AGAAUAUUGGUAAAUA---UUUUUGCAGAGCAGUGCAAAGAGCAAGGAAACAGACAGAACUUUACUCUGCAUCGAAAUUUACAAGACGACGAAC---UAUUUAAUAAAAUGAAAC-
.........((((((.---((..(((((((...(((.....))).(....).............)))))))..)).))))))............---..................- ( -20.10, z-score =  -2.22, R)
>consensus
AGAAUAUUGGUAAACA___UUUUUGCAGAGCAAUGCAAAGAGCACGGAAACAGACAAAACUUUGCUCUGCAUCGAAAUUUACAAGGCGAACUACGAGUAUUUAAUAAAAUGAAAAC
.(((((((.((............(((((((((((((.....))).(....)..........))))))))))(((............)))...)).))))))).............. (-18.26 = -19.58 +   1.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:59:40 2011