Locus 12515

Sequence ID dm3.chrX
Location 653,493 – 653,592
Length 99
Max. P 0.818572
window17211 window17212

overview

Window 1

Location 653,493 – 653,592
Length 99
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 59.91
Shannon entropy 0.62958
G+C content 0.43037
Mean single sequence MFE -22.80
Consensus MFE -11.54
Energy contribution -12.34
Covariance contribution 0.80
Combinations/Pair 1.20
Mean z-score -0.98
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.79
SVM RNA-class probability 0.818572
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 653493 99 + 22422827
---------------------AUUUAAUUGCAGCCCGAAAAUGUCCCUGAAAAUGUCGUACACGGUGCAUGUAUUCGCUAAAUGUCUAGUGAAGACACAGACCGACAAGUAUUUUGCACC
---------------------.......(((((..(((.....((...)).....)))..).((((...(((.(((((((......))))))).)))...))))..........)))).. ( -19.80, z-score =  -0.45, R)
>droSim1.chrX 540187 82 + 17042790
--------------------------UUUGCAGCCCGAAAAUGCC------------GUGGACGGUGCAUGUAUUCGCUAAAUGUCUAGUGAAGACACAUACCGGCUAGUAUUUUGCACC
--------------------------......((...(((((((.------------.(((.(((((..(((.(((((((......))))))).)))..))))).))))))))))))... ( -23.20, z-score =  -1.35, R)
>droSec1.super_10 503092 82 + 3036183
--------------------------UUUGCAGCCCGAAAAUGCC------------GUGGACGGUGCAUGUAUUCGCUAAAUGUCUAGUGAAGACAUAUACCGGCUAGUAUUUUGCACC
--------------------------......((...(((((((.------------.(((.(((((.((((.(((((((......))))))).)))).))))).))))))))))))... ( -24.90, z-score =  -2.11, R)
>droYak2.chrX 579837 119 + 21770863
ACGGAAUUCAAUUAGUGUGAACCUUUAUUUUCGCCCAAACAUUACCUAAAAAAUGUCGUACAUGGUGUGUGCAUUGGCUAA-UGUCUAGAGAAGACACAAGCCAACAGGUAUUUUGCGAC
.((.((........(.(((((........))))).)......(((((..........((((((...)))))).((((((..-(((((.....)))))..)))))).)))))..)).)).. ( -28.20, z-score =  -1.11, R)
>droEre2.scaffold_4644 618625 94 + 2521924
------------AUGGAAUUCAAUUAAUUUUCGACUAAAAAUAUC------------ACAUAUGGUGUGUGUAUUGGCUAAAGGCGUAGAGAAGACCCGAACCAAUAGGU--CUUGCGCC
------------.(((((..........)))))......((((.(------------((((.....))))))))).......((((((....(((((..........)))--)))))))) ( -17.90, z-score =   0.12, R)
>consensus
_______________________UU_AUUGCAGCCCGAAAAUGCC____________GUACACGGUGCAUGUAUUCGCUAAAUGUCUAGUGAAGACACAAACCGACAAGUAUUUUGCACC
..............................................................((((..((((.(((((((......))))))).))))..))))................ (-11.54 = -12.34 +   0.80)

alignment

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secondary structure

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dotplot

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Window 2

Location 653,493 – 653,592
Length 99
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 59.91
Shannon entropy 0.62958
G+C content 0.43037
Mean single sequence MFE -22.35
Consensus MFE -10.78
Energy contribution -10.82
Covariance contribution 0.04
Combinations/Pair 1.31
Mean z-score -0.98
Structure conservation index 0.48
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.51
SVM RNA-class probability 0.724621
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 653493 99 - 22422827
GGUGCAAAAUACUUGUCGGUCUGUGUCUUCACUAGACAUUUAGCGAAUACAUGCACCGUGUACGACAUUUUCAGGGACAUUUUCGGGCUGCAAUUAAAU---------------------
((((((.........(((.(..((((((.....))))))..).))).....))))))(((..(((.................)))..).))........--------------------- ( -21.17, z-score =  -0.13, R)
>droSim1.chrX 540187 82 - 17042790
GGUGCAAAAUACUAGCCGGUAUGUGUCUUCACUAGACAUUUAGCGAAUACAUGCACCGUCCAC------------GGCAUUUUCGGGCUGCAAA--------------------------
(((((...(((((....)))))((((.(((.((((....)))).))).)))))))))((((..------------.........))))......-------------------------- ( -22.20, z-score =  -1.05, R)
>droSec1.super_10 503092 82 - 3036183
GGUGCAAAAUACUAGCCGGUAUAUGUCUUCACUAGACAUUUAGCGAAUACAUGCACCGUCCAC------------GGCAUUUUCGGGCUGCAAA--------------------------
(((((...(((((....)))))((((.(((.((((....)))).))).)))))))))((((..------------.........))))......-------------------------- ( -21.90, z-score =  -1.50, R)
>droYak2.chrX 579837 119 - 21770863
GUCGCAAAAUACCUGUUGGCUUGUGUCUUCUCUAGACA-UUAGCCAAUGCACACACCAUGUACGACAUUUUUUAGGUAAUGUUUGGGCGAAAAUAAAGGUUCACACUAAUUGAAUUCCGU
.((((.........(((((((.((((((.....)))))-).))))))).......(((.....((((((........))))))))))))).......((((((.......))))..)).. ( -29.70, z-score =  -1.69, R)
>droEre2.scaffold_4644 618625 94 - 2521924
GGCGCAAG--ACCUAUUGGUUCGGGUCUUCUCUACGCCUUUAGCCAAUACACACACCAUAUGU------------GAUAUUUUUAGUCGAAAAUUAAUUGAAUUCCAU------------
((((.(((--((((........))))))).....))))......((((...((((.....)))------------)..((((((....))))))..))))........------------ ( -16.80, z-score =  -0.51, R)
>consensus
GGUGCAAAAUACUUGUCGGUAUGUGUCUUCACUAGACAUUUAGCGAAUACAUGCACCGUCUAC____________GACAUUUUCGGGCUGCAAU_AA_______________________
................((((.(((((.(((.((((....)))).))).))))).)))).............................................................. (-10.78 = -10.82 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:03:46 2011