Locus 14490

Sequence ID dm3.chrX
Location 13,630,851 – 13,630,948
Length 97
Max. P 0.944714
window19945 window19946

overview

Window 5

Location 13,630,851 – 13,630,943
Length 92
Sequences 4
Columns 114
Reading direction forward
Mean pairwise identity 84.26
Shannon entropy 0.23385
G+C content 0.38084
Mean single sequence MFE -26.05
Consensus MFE -19.05
Energy contribution -19.05
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.21
Structure conservation index 0.73
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.02
SVM RNA-class probability 0.875661
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 13630851 92 + 22422827
ACAACUACUCAAUAAUUUUGUAUU-----------------GGAGAUAUCUUAAGUUGAUGGCUUGCAGCCAGGCGAUUGACGGCAAAGCUUGAGAUAUAUAUGUAUAG-----
(((....(((((((......))))-----------------.)))((((((((((((..((((.....))))(.((.....)).)..))))))))))))...)))....----- ( -23.40, z-score =  -1.97, R)
>droSim1.chrX 10437296 97 + 17042790
ACAACUACUCAAUAAUUCUGUAUU-----------------GGAGAUAUCUUAAGUUGAUGGCUUGCAGCCAGACGAUUGACGGCAAAGCUUGAGAUAUAUAUGUAUAGAGGUG
...............((((((((.-----------------....((((((((((((..((((.....))))..((.....))....))))))))))))....))))))))... ( -25.80, z-score =  -2.19, R)
>droSec1.super_20 269271 97 + 1148123
ACAACUACUCAAUAAUUCUGUAUU-----------------GGAGAUAUCUUAAGUUGAUGGCUUGCAGCCAGACGAUUGACGGCAAAGCUUGAGAUAUAUAUGUAUAGAGGUG
...............((((((((.-----------------....((((((((((((..((((.....))))..((.....))....))))))))))))....))))))))... ( -25.80, z-score =  -2.19, R)
>droYak2.chrX 7924839 110 + 21770863
ACAACUACUCAAUAAAUGUGUAUUAAUGAGAGACACGUAUUGGAGAUAUCUUAAGUUGAUGGCUUGCAGCCAGGCGAUUGACGGCAAAGCUUGAGAUAUAUAUAGAGGUG----
((..((((((.....((((((.((.....)).))))))....)))((((((((((((..((((.....))))(.((.....)).)..))))))))))))...)))..)).---- ( -29.20, z-score =  -2.49, R)
>consensus
ACAACUACUCAAUAAUUCUGUAUU_________________GGAGAUAUCUUAAGUUGAUGGCUUGCAGCCAGACGAUUGACGGCAAAGCUUGAGAUAUAUAUGUAUAGA____
.............................................((((((((((((..((((.....))))(.((.....)).)..))))))))))))............... (-19.05 = -19.05 +   0.00)

alignment

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secondary structure

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dotplot

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Window 6

Location 13,630,857 – 13,630,948
Length 91
Sequences 4
Columns 114
Reading direction forward
Mean pairwise identity 81.99
Shannon entropy 0.27101
G+C content 0.38928
Mean single sequence MFE -27.05
Consensus MFE -21.35
Energy contribution -23.23
Covariance contribution 1.87
Combinations/Pair 1.04
Mean z-score -2.11
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.50
SVM RNA-class probability 0.944714
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 13630857 91 + 22422827
---------------ACUCA--AUAAUUUUGUAUUGGAGAUAUCUUAAGUUGAUGGCUUGCAGCCAGGCGAUUGACGGCAAAGCUUGAGAUAUAUAUGUAUAGAGGUU------
---------------.....--....((((((((.....((((((((((((..((((.....))))(.((.....)).)..))))))))))))....))))))))...------ ( -25.40, z-score =  -2.49, R)
>droSim1.chrX 10437302 97 + 17042790
---------------ACUCA--AUAAUUCUGUAUUGGAGAUAUCUUAAGUUGAUGGCUUGCAGCCAGACGAUUGACGGCAAAGCUUGAGAUAUAUAUGUAUAGAGGUGCAGGUU
---------------.((((--....((((((((.....((((((((((((..((((.....))))..((.....))....))))))))))))....)))))))).)).))... ( -27.30, z-score =  -2.13, R)
>droSec1.super_20 269277 97 + 1148123
---------------ACUCA--AUAAUUCUGUAUUGGAGAUAUCUUAAGUUGAUGGCUUGCAGCCAGACGAUUGACGGCAAAGCUUGAGAUAUAUAUGUAUAGAGGUGCAGGUU
---------------.((((--....((((((((.....((((((((((((..((((.....))))..((.....))....))))))))))))....)))))))).)).))... ( -27.30, z-score =  -2.13, R)
>droYak2.chrX 7924845 110 + 21770863
ACUCAAUAAAUGUGUAUUAAUGAGAGACACGUAUUGGAGAUAUCUUAAGUUGAUGGCUUGCAGCCAGGCGAUUGACGGCAAAGCUUGAGAUAUAUAU----AGAGGUGCAGGUU
.(((.(((.((((((.((.....)).)))))).......((((((((((((..((((.....))))(.((.....)).)..)))))))))))).)))----.)))......... ( -28.20, z-score =  -1.70, R)
>consensus
_______________ACUCA__AUAAUUCUGUAUUGGAGAUAUCUUAAGUUGAUGGCUUGCAGCCAGACGAUUGACGGCAAAGCUUGAGAUAUAUAUGUAUAGAGGUGCAGGUU
..........................((((((((.....((((((((((((..((((.....))))(.((.....)).)..))))))))))))....))))))))......... (-21.35 = -23.23 +   1.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:41:05 2011