Locus 10572

Sequence ID dm3.chr3R
Location 14,796,639 – 14,796,713
Length 74
Max. P 0.999967
window14532 window14533

overview

Window 2

Location 14,796,639 – 14,796,713
Length 74
Sequences 6
Columns 76
Reading direction forward
Mean pairwise identity 67.63
Shannon entropy 0.60810
G+C content 0.45336
Mean single sequence MFE -28.67
Consensus MFE -12.31
Energy contribution -12.76
Covariance contribution 0.45
Combinations/Pair 1.58
Mean z-score -5.45
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 5.36
SVM RNA-class probability 0.999967
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 14796639 74 + 27905053
CCAUUUUGUGAUGCUCUUCGGAGCAUCAUGCUCACCGAAAAGUGUAGCCUACUUAUUAGGGCAUCACA--AAAUGG
((((((((((((((((((((((((.....)))..)))))(((((.....)))))....))))))))))--)))))) ( -34.20, z-score =  -7.06, R)
>droSec1.super_166 11448 67 - 36471
CCAUUUUGUGAUGCUC-------CAAAAUGCUCACCAAAAAGUGUAGCAUACAUAUUGGGGCAUCACA--AAAUGG
((((((((((((((((-------(((.((((((((......))).))))).....)))))))))))))--)))))) ( -36.30, z-score =  -9.02, R)
>droYak2.chr3R 3477270 67 + 28832112
CUAUUUUGUGGUGCUC-------CAAAAUGCUUACUGAAAAGUGUGGCCUACUUAUUGGGGCAUCACA--AAGUGG
((((((((((((((((-------(((...(((((((....)))).))).......)))))))))))))--)))))) ( -31.20, z-score =  -6.51, R)
>droEre2.scaffold_4770 10911939 67 - 17746568
CCAUUUUGUGGUGCUC-------UUAAAUGCUUACCGAAAAGUGUUGCCUACUUAUUAGGGCAUCGCA--CAAUGG
(((((.((((((((((-------(..(((((((......)))))))...........)))))))))))--.))))) ( -23.02, z-score =  -3.68, R)
>droAna3.scaffold_12911 3159767 72 + 5364042
GCAUUUUGUGGCACCUCCAACCGUGAAGAGGUUUGCCAAAAAUAUUGCCUACC--UUUGAGCGCCACA--AAAUGG
.((((((((((((((((..........)))))..((((((.............--)))).))))))))--))))). ( -24.52, z-score =  -3.61, R)
>dp4.chr2 14916023 60 + 30794189
CCAUUUUGCGCGGUCC-------------GGU---CCGAAAGUGUAGCAUACCUUUUUGGGCGCCACACAAAAUGG
((((((((.(.(((..-------------.((---(((((((.(((...))).)))))))))))).).)))))))) ( -22.80, z-score =  -2.83, R)
>consensus
CCAUUUUGUGGUGCUC_______CAAAAUGCUUACCGAAAAGUGUAGCCUACUUAUUAGGGCAUCACA__AAAUGG
((((((((((((((((................(((......)))..............))))))))))..)))))) (-12.31 = -12.76 +   0.45)

alignment

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secondary structure

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dotplot

Postscript

Window 3

Location 14,796,639 – 14,796,713
Length 74
Sequences 6
Columns 76
Reading direction reverse
Mean pairwise identity 67.63
Shannon entropy 0.60810
G+C content 0.45336
Mean single sequence MFE -25.20
Consensus MFE -3.62
Energy contribution -4.15
Covariance contribution 0.53
Combinations/Pair 1.25
Mean z-score -4.23
Structure conservation index 0.14
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.28
SVM RNA-class probability 0.987588
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 14796639 74 - 27905053
CCAUUU--UGUGAUGCCCUAAUAAGUAGGCUACACUUUUCGGUGAGCAUGAUGCUCCGAAGAGCAUCACAAAAUGG
((((((--((((((((((((.....))))......(((((((..(((.....)))))))))))))))))))))))) ( -32.80, z-score =  -6.51, R)
>droSec1.super_166 11448 67 + 36471
CCAUUU--UGUGAUGCCCCAAUAUGUAUGCUACACUUUUUGGUGAGCAUUUUG-------GAGCAUCACAAAAUGG
((((((--((((((((.((((.....(((((.((((....))))))))).)))-------).)))))))))))))) ( -35.50, z-score =  -8.27, R)
>droYak2.chr3R 3477270 67 - 28832112
CCACUU--UGUGAUGCCCCAAUAAGUAGGCCACACUUUUCAGUAAGCAUUUUG-------GAGCACCACAAAAUAG
....((--((((.(((.((((.......((...(((....)))..))...)))-------).))).)))))).... ( -14.80, z-score =  -1.89, R)
>droEre2.scaffold_4770 10911939 67 + 17746568
CCAUUG--UGCGAUGCCCUAAUAAGUAGGCAACACUUUUCGGUAAGCAUUUAA-------GAGCACCACAAAAUGG
((((((--((((((((((....((((.(....)))))...))...)))))...-------..)))).....))))) ( -14.20, z-score =  -0.96, R)
>droAna3.scaffold_12911 3159767 72 - 5364042
CCAUUU--UGUGGCGCUCAAA--GGUAGGCAAUAUUUUUGGCAAACCUCUUCACGGUUGGAGGUGCCACAAAAUGC
.(((((--((((((((.((((--((((.....))))))))))..((((((........))))))))))))))))). ( -32.70, z-score =  -5.46, R)
>dp4.chr2 14916023 60 - 30794189
CCAUUUUGUGUGGCGCCCAAAAAGGUAUGCUACACUUUCGG---ACC-------------GGACCGCGCAAAAUGG
(((((((((((((((..(..(((((((...))).))))..)---..)-------------)..))))))))))))) ( -21.20, z-score =  -2.27, R)
>consensus
CCAUUU__UGUGAUGCCCAAAUAAGUAGGCUACACUUUUCGGUAAGCAUUUUG_______GAGCACCACAAAAUGG
(((((...((((.(((..............................................))).)))).))))) ( -3.62 =  -4.15 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:26:26 2011