Locus 1686

Sequence ID dm3.chr2L
Location 13,027,288 – 13,027,382
Length 94
Max. P 0.978127
window2304 window2305

overview

Window 4

Location 13,027,288 – 13,027,382
Length 94
Sequences 7
Columns 94
Reading direction forward
Mean pairwise identity 84.34
Shannon entropy 0.26936
G+C content 0.53865
Mean single sequence MFE -29.94
Consensus MFE -25.43
Energy contribution -24.99
Covariance contribution -0.45
Combinations/Pair 1.10
Mean z-score -2.22
Structure conservation index 0.85
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.99
SVM RNA-class probability 0.978127
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 13027288 94 + 23011544
CUAGUGGUUGAGUUCGUGGUGGUGGUGUUCGGCGACGUCAGACUGUCGGCACUUGCCUCGUUUUGACUCGCUUUCUGCUCACCGUGCUCUAAAA
.........((((...((((((..(.....(((((.((((((.((..(((....))).)).)))))))))))..)..).))))).))))..... ( -32.10, z-score =  -1.50, R)
>droSim1.chr2L 12817655 94 + 22036055
CUAGUGGUUGAGUUCGUGGUGGUGGUGUUCGGCGACGUCAGACUGUCGGCACUUGCCUCGUUUUGACUCGCUUUCUGCUCACCGUGCUCUAAAA
.........((((...((((((..(.....(((((.((((((.((..(((....))).)).)))))))))))..)..).))))).))))..... ( -32.10, z-score =  -1.50, R)
>droSec1.super_16 1183280 94 + 1878335
CUAGUGGUUGAGUUCGUGGUGGUGGUGUUCGGCGACGUCAGACUGUCGGCACUUGCCUCGUUUUGACUCGCUUUCUGCUCACCGUGCUCUAAAA
.........((((...((((((..(.....(((((.((((((.((..(((....))).)).)))))))))))..)..).))))).))))..... ( -32.10, z-score =  -1.50, R)
>droYak2.chr2L 9446285 88 + 22324452
CUAGUGGUUG------UGGUGGUGGUGUUCGGCGACGUCAGACUGUCGGCACUUGCCUCGUUUUGACUCGCUUUCUGCUCACCGUGCUCUAAAA
.(((.(((..------.(((((..(.....(((((.((((((.((..(((....))).)).)))))))))))..)..).))))..))))))... ( -29.70, z-score =  -1.59, R)
>droVir3.scaffold_12963 6883821 76 + 20206255
------------------CUGGUGAUUGUGGGCGACGUCAGACUGUCGGCACUUGCCUCGUUUUGACUCGCUUUCUGCUCACCGUGCUCUAAAA
------------------..(((((..(..(((((.((((((.((..(((....))).)).)))))))))))..)...)))))........... ( -27.40, z-score =  -2.98, R)
>droMoj3.scaffold_6500 26062290 76 + 32352404
------------------CUGGUGAUUGUGGGCGACGUCAGACUGUCGGCACUUGCCUCAUUUUGACUCGCUUUCUGCUCACCGUGCUCUAAUA
------------------..(((((..(..(((((.((((((.((..(((....))).)).)))))))))))..)...)))))........... ( -28.10, z-score =  -3.66, R)
>droGri2.scaffold_15252 10054387 79 + 17193109
---------------CUUGGGGUGAUUGUGGGCGACGUCAGACUGUCGGCACUUGCCUCAUUUUGACUCGCUUUCUGCUCACCGUGCUCUAAAA
---------------.....(((((..(..(((((.((((((.((..(((....))).)).)))))))))))..)...)))))........... ( -28.10, z-score =  -2.84, R)
>consensus
CUAGUGGUUG______UGGUGGUGGUGUUCGGCGACGUCAGACUGUCGGCACUUGCCUCGUUUUGACUCGCUUUCUGCUCACCGUGCUCUAAAA
....................(((((.....(((((.((((((.((..(((....))).)).)))))))))))......)))))........... (-25.43 = -24.99 +  -0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 13,027,288 – 13,027,382
Length 94
Sequences 7
Columns 94
Reading direction reverse
Mean pairwise identity 84.34
Shannon entropy 0.26936
G+C content 0.53865
Mean single sequence MFE -21.50
Consensus MFE -19.51
Energy contribution -19.30
Covariance contribution -0.20
Combinations/Pair 1.06
Mean z-score -1.29
Structure conservation index 0.91
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.93
SVM RNA-class probability 0.853991
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 13027288 94 - 23011544
UUUUAGAGCACGGUGAGCAGAAAGCGAGUCAAAACGAGGCAAGUGCCGACAGUCUGACGUCGCCGAACACCACCACCACGAACUCAACCACUAG
.....(((...((((........((((((((..((..(((....)))....)).)))).))))..........)))).....)))......... ( -20.27, z-score =  -0.10, R)
>droSim1.chr2L 12817655 94 - 22036055
UUUUAGAGCACGGUGAGCAGAAAGCGAGUCAAAACGAGGCAAGUGCCGACAGUCUGACGUCGCCGAACACCACCACCACGAACUCAACCACUAG
.....(((...((((........((((((((..((..(((....)))....)).)))).))))..........)))).....)))......... ( -20.27, z-score =  -0.10, R)
>droSec1.super_16 1183280 94 - 1878335
UUUUAGAGCACGGUGAGCAGAAAGCGAGUCAAAACGAGGCAAGUGCCGACAGUCUGACGUCGCCGAACACCACCACCACGAACUCAACCACUAG
.....(((...((((........((((((((..((..(((....)))....)).)))).))))..........)))).....)))......... ( -20.27, z-score =  -0.10, R)
>droYak2.chr2L 9446285 88 - 22324452
UUUUAGAGCACGGUGAGCAGAAAGCGAGUCAAAACGAGGCAAGUGCCGACAGUCUGACGUCGCCGAACACCACCACCA------CAACCACUAG
...........((((.(......((((((((..((..(((....)))....)).)))).))))......)))))....------.......... ( -20.10, z-score =  -0.74, R)
>droVir3.scaffold_12963 6883821 76 - 20206255
UUUUAGAGCACGGUGAGCAGAAAGCGAGUCAAAACGAGGCAAGUGCCGACAGUCUGACGUCGCCCACAAUCACCAG------------------
...........(((((.......((((((((..((..(((....)))....)).)))).))))......)))))..------------------ ( -22.82, z-score =  -2.31, R)
>droMoj3.scaffold_6500 26062290 76 - 32352404
UAUUAGAGCACGGUGAGCAGAAAGCGAGUCAAAAUGAGGCAAGUGCCGACAGUCUGACGUCGCCCACAAUCACCAG------------------
...........(((((.......((((((((...((.(((....)))..))...)))).))))......)))))..------------------ ( -23.82, z-score =  -3.10, R)
>droGri2.scaffold_15252 10054387 79 - 17193109
UUUUAGAGCACGGUGAGCAGAAAGCGAGUCAAAAUGAGGCAAGUGCCGACAGUCUGACGUCGCCCACAAUCACCCCAAG---------------
...........(((((.......((((((((...((.(((....)))..))...)))).))))......))))).....--------------- ( -22.92, z-score =  -2.58, R)
>consensus
UUUUAGAGCACGGUGAGCAGAAAGCGAGUCAAAACGAGGCAAGUGCCGACAGUCUGACGUCGCCGAACACCACCACCA______CAACCACUAG
...........((((........((((((((..((..(((....)))....)).)))).)))).......)))).................... (-19.51 = -19.30 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:36:41 2011