Locus 10396

Sequence ID dm3.chr3R
Location 13,573,148 – 13,573,219
Length 71
Max. P 0.997567
window14299 window14300

overview

Window 9

Location 13,573,148 – 13,573,219
Length 71
Sequences 7
Columns 85
Reading direction forward
Mean pairwise identity 70.65
Shannon entropy 0.54648
G+C content 0.45115
Mean single sequence MFE -20.01
Consensus MFE -10.20
Energy contribution -10.93
Covariance contribution 0.74
Combinations/Pair 1.33
Mean z-score -2.68
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.13
SVM RNA-class probability 0.997567
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 13573148 71 + 27905053
UCUGUAAGGAACCUAUCGGUCA--------------GCCGAAAGAGUUCCGAACUAAUAAACGUUAAGUUCAACCAAGAGACAGU
.((((..(((((((.((((...--------------.)))).)).)))))((((((((....))).))))).........)))). ( -22.50, z-score =  -4.51, R)
>droSim1.chr3R 19598525 71 - 27517382
UCUGUAAGGAACCUAUCGGCCA--------------GCCGAAAGAGUUCCGAACUAAUAAACUUUAAGUUCAACCCAGAGGCAGU
.((((..(((((((.((((...--------------.)))).)).)))))(((((((......)).))))).........)))). ( -22.60, z-score =  -3.98, R)
>droSec1.super_12 1535168 71 - 2123299
UCUGUAAGGAACCUAUCGGCCA--------------GCCGAAAGAGUUCCGAACUAAUAAACUUUAAGUUCAACCCAGAGGCAGU
.((((..(((((((.((((...--------------.)))).)).)))))(((((((......)).))))).........)))). ( -22.60, z-score =  -3.98, R)
>droYak2.chr3R 2150995 71 + 28832112
UCUGUAAGGAACCUAUCGGCCA--------------GCCGAAAGAGUUCCUAACUAAUAAACUUUAAGUUCAACCAAGAGGCAGU
.((((.((((((((.((((...--------------.)))).)).))))))..........((((..(.....)..)))))))). ( -19.80, z-score =  -3.09, R)
>droEre2.scaffold_4770 9688892 70 - 17746568
UCUGUA-GGAACCUGUCGGCCA--------------GCCGAAAGAGUUCCUGACUAAUAAACCCUAAGUUCAACCAAGAGGCAGU
.(((((-(((((((.((((...--------------.)))).)).)))))).................(((......))))))). ( -19.10, z-score =  -2.14, R)
>droAna3.scaffold_13340 12867459 82 - 23697760
UCUGCAAGGA-CCUAUCGGCCAUCCUUGGACCAUCGGCCGAAAGAGUUCUCA--UAAUAAACUUUAAGUUCAACUCGACGAAUAU
......((((-(((.((((((.((....)).....)))))).)).)))))..--.............((((........)))).. ( -17.80, z-score =  -1.16, R)
>anoGam1.chr2R 50032596 76 + 62725911
UUUUCAACAGAUUCGCCGGACAGUUGGC--------GACAAAAAAAA-CCGAAACGAUGGACGUGCAUCCUGGCCAAGAACAGGA
..............((((..((.((((.--------...........-)))).....))..)).)).(((((........))))) ( -15.70, z-score =   0.11, R)
>consensus
UCUGUAAGGAACCUAUCGGCCA______________GCCGAAAGAGUUCCGAACUAAUAAACUUUAAGUUCAACCAAGAGGCAGU
.......(((((((.(((((................))))).)).)))))................................... (-10.20 = -10.93 +   0.74)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 13,573,148 – 13,573,219
Length 71
Sequences 7
Columns 85
Reading direction reverse
Mean pairwise identity 70.65
Shannon entropy 0.54648
G+C content 0.45115
Mean single sequence MFE -20.56
Consensus MFE -10.76
Energy contribution -10.98
Covariance contribution 0.21
Combinations/Pair 1.53
Mean z-score -1.40
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.93
SVM RNA-class probability 0.856075
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 13573148 71 - 27905053
ACUGUCUCUUGGUUGAACUUAACGUUUAUUAGUUCGGAACUCUUUCGGC--------------UGACCGAUAGGUUCCUUACAGA
.((((.........(((((...........)))))(((((.((.((((.--------------...)))).)))))))..)))). ( -20.70, z-score =  -2.49, R)
>droSim1.chr3R 19598525 71 + 27517382
ACUGCCUCUGGGUUGAACUUAAAGUUUAUUAGUUCGGAACUCUUUCGGC--------------UGGCCGAUAGGUUCCUUACAGA
......((((....(((((...........)))))(((((.((.((((.--------------...)))).)))))))...)))) ( -22.20, z-score =  -2.06, R)
>droSec1.super_12 1535168 71 + 2123299
ACUGCCUCUGGGUUGAACUUAAAGUUUAUUAGUUCGGAACUCUUUCGGC--------------UGGCCGAUAGGUUCCUUACAGA
......((((....(((((...........)))))(((((.((.((((.--------------...)))).)))))))...)))) ( -22.20, z-score =  -2.06, R)
>droYak2.chr3R 2150995 71 - 28832112
ACUGCCUCUUGGUUGAACUUAAAGUUUAUUAGUUAGGAACUCUUUCGGC--------------UGGCCGAUAGGUUCCUUACAGA
...(((....)))(((((.....)))))...((.((((((.((.((((.--------------...)))).)))))))).))... ( -22.00, z-score =  -2.34, R)
>droEre2.scaffold_4770 9688892 70 + 17746568
ACUGCCUCUUGGUUGAACUUAGGGUUUAUUAGUCAGGAACUCUUUCGGC--------------UGGCCGACAGGUUCC-UACAGA
.(((.((((.((.....)).))))..........((((((.((.((((.--------------...)))).)))))))-).))). ( -21.60, z-score =  -1.20, R)
>droAna3.scaffold_13340 12867459 82 + 23697760
AUAUUCGUCGAGUUGAACUUAAAGUUUAUUA--UGAGAACUCUUUCGGCCGAUGGUCCAAGGAUGGCCGAUAGG-UCCUUGCAGA
....((((((.((((((.....(((((....--...)))))..))))))))))))..(((((...(((....))-)))))).... ( -20.40, z-score =  -0.41, R)
>anoGam1.chr2R 50032596 76 - 62725911
UCCUGUUCUUGGCCAGGAUGCACGUCCAUCGUUUCGG-UUUUUUUUGUC--------GCCAACUGUCCGGCGAAUCUGUUGAAAA
(((((........))))).............((((..-(........((--------(((........)))))....)..)))). ( -14.80, z-score =   0.79, R)
>consensus
ACUGCCUCUUGGUUGAACUUAAAGUUUAUUAGUUCGGAACUCUUUCGGC______________UGGCCGAUAGGUUCCUUACAGA
.............(((((.....)))))...((..(((((.((.(((((................))))).)))))))..))... (-10.76 = -10.98 +   0.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:23:12 2011