Locus 9693

Sequence ID dm3.chr3R
Location 8,340,164 – 8,340,260
Length 96
Max. P 0.922166
window13297 window13298

overview

Window 7

Location 8,340,164 – 8,340,260
Length 96
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 68.86
Shannon entropy 0.57426
G+C content 0.47607
Mean single sequence MFE -31.78
Consensus MFE -14.37
Energy contribution -14.55
Covariance contribution 0.18
Combinations/Pair 1.54
Mean z-score -1.74
Structure conservation index 0.45
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.24
SVM RNA-class probability 0.914679
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 8340164 96 + 27905053
-----GUGUAACACUCC----GGAUUCAGUUGCCUAAGCUGGUUAGCUUGGCAUCCGGAUAAGGAGGUGCCAAAAAACUGGCACUUCUGUGGGUAUUUG--CCACUA
-----......((((((----(((......((((.(((((....)))))))))))))))...((((((((((......)))))))))))))(((....)--)).... ( -39.80, z-score =  -3.76, R)
>droWil1.scaffold_181130 2136110 75 + 16660200
-------------CUCC--CUGGACUUUGUGUUGAAAACUAUUUGGCAAUCUAGGUGGUUUGGGUAAGGUCAAGUUUUUGGCAUUUAUUU-----------------
-------------..((--..((((((..(.(((.(((((((((((....)))))))))))...))).)..))))))..)).........----------------- ( -16.30, z-score =  -0.41, R)
>droAna3.scaffold_12911 3271388 106 + 5364042
GGUACGUAUGACCCUCCCACCGGAUUUAGUUGACUAAGCUGGUUAGCAGGGUAUUCAGAUGGGUAGGUGUCACAAA-CUGGUGUUUCUGUUGGGAUUUGUGCCAGUG
........((((((((((((.((((...(((((((.....))))))).....)))).).)))).))).))))...(-((((..(.(((....)))...)..))))). ( -32.60, z-score =  -0.46, R)
>droEre2.scaffold_4770 4433963 96 - 17746568
-----GUGUAGCACACC----GGAUUCAGUUGCCUAAGCUGGUUAGCUUGGUAUCCGGAUAAGGAGGUGCCAAAAAACUGGCAUUUCUGUGGGGAUUUG--CCACUG
-----(((...))).((----(((((((((((((......)).)))).))).))))))....((((((((((......))))))))))((((.......--)))).. ( -34.30, z-score =  -1.92, R)
>droYak2.chr3R 12624139 96 + 28832112
-----GUGUAACACUCC----GGAUUCAGUUGCCUAAGCUGGUUAGCUUGGUAUCCGGAUAAGGAGGUGCCAAAAAACUGGCAUUUUUGUGGGGACUUG--CCACUG
-----.........(((----(((((((((((((......)).)))).))).)))))))...((((((((((......))))))))))((((.......--)))).. ( -32.30, z-score =  -1.66, R)
>droSim1.chr3R_random 521735 96 + 1307089
-----GGGUAACACUCC----GGAUUCAGUUGCCUAAGCUGGUUAGCUUGGCAUCCGGAUAAGGAGGUGCCAAAAAACUGGCAUUUUUGUGGGGAUUUG--CCACUG
-----.(((((((((((----(((......((((.(((((....)))))))))))))))...((((((((((......))))))))))))).....)))--)).... ( -35.40, z-score =  -2.23, R)
>consensus
_____GUGUAACACUCC____GGAUUCAGUUGCCUAAGCUGGUUAGCUUGGUAUCCGGAUAAGGAGGUGCCAAAAAACUGGCAUUUCUGUGGGGAUUUG__CCACUG
.....................((((((.(.((.(((((((....))))))))).).))))..((((((((((......)))))))))).............)).... (-14.37 = -14.55 +   0.18)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 8,340,164 – 8,340,260
Length 96
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 68.86
Shannon entropy 0.57426
G+C content 0.47607
Mean single sequence MFE -27.38
Consensus MFE -8.64
Energy contribution -9.25
Covariance contribution 0.61
Combinations/Pair 1.31
Mean z-score -2.49
Structure conservation index 0.32
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.29
SVM RNA-class probability 0.922166
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 8340164 96 - 27905053
UAGUGG--CAAAUACCCACAGAAGUGCCAGUUUUUUGGCACCUCCUUAUCCGGAUGCCAAGCUAACCAGCUUAGGCAACUGAAUCC----GGAGUGUUACAC-----
..((((--((..........((.(((((((....))))))).))....(((((((((((((((....))))).))))......)))----))).))))))..----- ( -36.90, z-score =  -4.56, R)
>droWil1.scaffold_181130 2136110 75 - 16660200
-----------------AAAUAAAUGCCAAAAACUUGACCUUACCCAAACCACCUAGAUUGCCAAAUAGUUUUCAACACAAAGUCCAG--GGAG-------------
-----------------..........................(((..........((..((......))..)).((.....))...)--))..------------- (  -5.10, z-score =   1.16, R)
>droAna3.scaffold_12911 3271388 106 - 5364042
CACUGGCACAAAUCCCAACAGAAACACCAG-UUUGUGACACCUACCCAUCUGAAUACCCUGCUAACCAGCUUAGUCAACUAAAUCCGGUGGGAGGGUCAUACGUACC
.(((((....................))))-).((((((.(((.((((((.((.......(((....)))((((....)))).)).)))))))))))))))...... ( -28.25, z-score =  -1.74, R)
>droEre2.scaffold_4770 4433963 96 + 17746568
CAGUGG--CAAAUCCCCACAGAAAUGCCAGUUUUUUGGCACCUCCUUAUCCGGAUACCAAGCUAACCAGCUUAGGCAACUGAAUCC----GGUGUGCUACAC-----
..((((--((..........((..((((((....))))))..)).....((((((.....(((....)))((((....))))))))----))..))))))..----- ( -31.40, z-score =  -3.17, R)
>droYak2.chr3R 12624139 96 - 28832112
CAGUGG--CAAGUCCCCACAAAAAUGCCAGUUUUUUGGCACCUCCUUAUCCGGAUACCAAGCUAACCAGCUUAGGCAACUGAAUCC----GGAGUGUUACAC-----
..((((--((..............((((((....))))))........(((((((.....(((....)))((((....))))))))----))).))))))..----- ( -30.50, z-score =  -3.14, R)
>droSim1.chr3R_random 521735 96 - 1307089
CAGUGG--CAAAUCCCCACAAAAAUGCCAGUUUUUUGGCACCUCCUUAUCCGGAUGCCAAGCUAACCAGCUUAGGCAACUGAAUCC----GGAGUGUUACCC-----
..((((--((..............((((((....)))))).((((..((.(((.(((((((((....))))).)))).))).))..----))))))))))..----- ( -32.10, z-score =  -3.46, R)
>consensus
CAGUGG__CAAAUCCCCACAGAAAUGCCAGUUUUUUGGCACCUCCUUAUCCGGAUACCAAGCUAACCAGCUUAGGCAACUGAAUCC____GGAGUGUUACAC_____
.........................(((((....)))))..((((...............(((....)))((((....))))........))))............. ( -8.64 =  -9.25 +   0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:09:18 2011