Locus 12587

Sequence ID dm3.chrX
Location 1,030,018 – 1,030,125
Length 107
Max. P 0.852437
window17308 window17309

overview

Window 8

Location 1,030,018 – 1,030,125
Length 107
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 73.82
Shannon entropy 0.43052
G+C content 0.44486
Mean single sequence MFE -29.30
Consensus MFE -20.78
Energy contribution -21.02
Covariance contribution 0.24
Combinations/Pair 1.05
Mean z-score -1.30
Structure conservation index 0.71
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.88
SVM RNA-class probability 0.842082
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 1030018 107 + 22422827
-----UGCGUAUGGAGUUCUUUGUUGCGUUU---UUGUUUGACCUGCUCUUCACUUGAGCAGCCUCAAGUGUGUAAAGCAAAAGUGCGCAAUGUCGAGCAUCAACGU-----UUUGGAAG
-----.((((.((..((((..((((((((((---((((((....(((....((((((((....)))))))).)))))))))))..))))))))..))))..))))))-----........ ( -34.50, z-score =  -1.94, R)
>droEre2.scaffold_4644 1012411 96 + 2521924
---------------------UAUGUCAUUU---UUGUUUGACCUGCUCUUCACUUGAGGCGCCUCAAGUGUGUAAAGCAAAAGUACGCAAUGUCGAGCAUCAACAUCAACGUUUGGAAG
---------------------.((((.....---.((((((((.(((....((((((((....)))))))).)))..((........))...))))))))...))))............. ( -23.70, z-score =  -0.86, R)
>droYak2.chrX 942525 104 + 21770863
UGCGUUUGGAGUUCAGUUCUUUGUUGUAUUUGUGUUGUUUGACCUGCUCUUCAGUUGAGGCGCCUCAAGUGUGCAAAGCAAAAGUACGCAAUCUCGAGCAUCAG----------------
...(((((((...(((....)))......((((((..((((...(((....((.(((((....))))).)).)))...))))...)))))))).))))).....---------------- ( -25.30, z-score =   0.34, R)
>droSec1.super_10 856838 98 + 3036183
UGCGUAUGGAGUUC-----UUUGUUGCCUUU---UUGUUUGACUUGCUCUUCACUUGAGCCGCCUCAAGUGUGUAAAGCAAAAGUUAGCAAUGUCGAGCAUCAACG--------------
..(((.((..((((-----..((((((.(((---((((((....(((....((((((((....)))))))).))))))))))))...))))))..))))..)))))-------------- ( -28.50, z-score =  -1.92, R)
>droSim1.chrX 819086 107 + 17042790
-----UGCGUAUGGAGUUCUUUGUUGCGUUU---UUGUUUGACCUGCUCUUCACUUGAGCCGCCUCAAGUGUGUAAAGCAAAAGUGCGCAAUGUCGAGCAUCAACGU-----UUUGGAAG
-----.((((.((..((((..((((((((((---((((((....(((....((((((((....)))))))).)))))))))))..))))))))..))))..))))))-----........ ( -34.50, z-score =  -2.12, R)
>consensus
_____UGCGAAUGCAGUUCUUUGUUGCAUUU___UUGUUUGACCUGCUCUUCACUUGAGCCGCCUCAAGUGUGUAAAGCAAAAGUACGCAAUGUCGAGCAUCAACGU_____UUUGGAAG
...................................((((((((.(((....((((((((....)))))))).)))..((........))...)))))))).................... (-20.78 = -21.02 +   0.24)

alignment

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secondary structure

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dotplot

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Window 9

Location 1,030,018 – 1,030,125
Length 107
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 73.82
Shannon entropy 0.43052
G+C content 0.44486
Mean single sequence MFE -24.34
Consensus MFE -20.98
Energy contribution -21.22
Covariance contribution 0.24
Combinations/Pair 1.05
Mean z-score -0.94
Structure conservation index 0.86
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.92
SVM RNA-class probability 0.852437
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 1030018 107 - 22422827
CUUCCAAA-----ACGUUGAUGCUCGACAUUGCGCACUUUUGCUUUACACACUUGAGGCUGCUCAAGUGAAGAGCAGGUCAAACAA---AAACGCAACAAAGAACUCCAUACGCA-----
........-----.(((((..(.((....(((((......((((((...((((((((....)))))))).))))))(......)..---...)))))....)).)..)).)))..----- ( -24.10, z-score =  -0.54, R)
>droEre2.scaffold_4644 1012411 96 - 2521924
CUUCCAAACGUUGAUGUUGAUGCUCGACAUUGCGUACUUUUGCUUUACACACUUGAGGCGCCUCAAGUGAAGAGCAGGUCAAACAA---AAAUGACAUA---------------------
.......((((.(((((((.....)))))))))))....(((((((...((((((((....)))))))).)))))))((((.....---...))))...--------------------- ( -30.90, z-score =  -3.35, R)
>droYak2.chrX 942525 104 - 21770863
----------------CUGAUGCUCGAGAUUGCGUACUUUUGCUUUGCACACUUGAGGCGCCUCAACUGAAGAGCAGGUCAAACAACACAAAUACAACAAAGAACUGAACUCCAAACGCA
----------------..............(((((...((((((((...((.(((((....))))).)).))))))))...................((......))........))))) ( -18.30, z-score =   0.78, R)
>droSec1.super_10 856838 98 - 3036183
--------------CGUUGAUGCUCGACAUUGCUAACUUUUGCUUUACACACUUGAGGCGGCUCAAGUGAAGAGCAAGUCAAACAA---AAAGGCAACAAA-----GAACUCCAUACGCA
--------------.((((.....))))..(((.....((((((((...((((((((....)))))))).))))))))........---...(....)...-----...........))) ( -24.30, z-score =  -1.16, R)
>droSim1.chrX 819086 107 - 17042790
CUUCCAAA-----ACGUUGAUGCUCGACAUUGCGCACUUUUGCUUUACACACUUGAGGCGGCUCAAGUGAAGAGCAGGUCAAACAA---AAACGCAACAAAGAACUCCAUACGCA-----
........-----.(((((..(.((....(((((......((((((...((((((((....)))))))).))))))(......)..---...)))))....)).)..)).)))..----- ( -24.10, z-score =  -0.43, R)
>consensus
CUUCCAAA_____ACGUUGAUGCUCGACAUUGCGCACUUUUGCUUUACACACUUGAGGCGGCUCAAGUGAAGAGCAGGUCAAACAA___AAACGCAACAAAGAACUCAACACCAA_____
................(((((((........))......(((((((...((((((((....)))))))).))))))))))))...................................... (-20.98 = -21.22 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:05:06 2011