Locus 14113

Sequence ID dm3.chrX
Location 11,274,039 – 11,274,129
Length 90
Max. P 0.998664
window19413 window19414

overview

Window 3

Location 11,274,039 – 11,274,129
Length 90
Sequences 5
Columns 90
Reading direction forward
Mean pairwise identity 84.13
Shannon entropy 0.27905
G+C content 0.39961
Mean single sequence MFE -23.92
Consensus MFE -17.28
Energy contribution -18.96
Covariance contribution 1.68
Combinations/Pair 1.15
Mean z-score -3.80
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.44
SVM RNA-class probability 0.998664
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11274039 90 + 22422827
UGCAAAUUUGAAAUAUUUAGUUUCAAAUUGCCUUGCACAGUUCCCCCGGGAAACCUUUAGUUUCCCAGUGAGCUGUACUUUAUGUACACA
.(((((((((((((.....)))))))))....))))(((((((.(..(((((((.....))))))).).))))))).............. ( -27.60, z-score =  -4.83, R)
>droSim1.chrX 8704531 90 + 17042790
UGUGAAUUUGAAAUAUGUACUUUCGAAUUGCCUUGCCCAGCUCCCCAGGGAAACCUUUAGUUUCCCACUGAGCUGUACUUUAUGUACACA
.((((((((((((.......))))))))).....(..((((((....(((((((.....)))))))...))))))..)........))). ( -26.80, z-score =  -4.60, R)
>droSec1.super_15 1952712 90 + 1954846
UGUGAAUUUGAAAUAUGUAGUUUCGAAUUGCCUUGCCCAGCUCCCCAGGGAAACCUUUAGUUUCCCACUGAGCUGUACUUUAUGUACACA
.(((((((((((((.....)))))))))).....(..((((((....(((((((.....)))))))...))))))..)........))). ( -28.70, z-score =  -4.89, R)
>droYak2.chrX 10891739 85 - 21770863
-----ACUUUAUAUAUAUCAUUUUUAAUUGCCUUGCGUUCUUCCCGAGGGAAACCUUUAGUUUCCCAGUGAGCUGUACUUUAUGUACACA
-----........................((.(..(..((.....))(((((((.....))))))).)..)))(((((.....))))).. ( -17.40, z-score =  -2.27, R)
>droEre2.scaffold_4690 14868361 85 - 18748788
-----AUUUUAUGUAUGCCAUUUUAAAUUGCCCUGCGAACUUCCCCAGGGAAACCUUUAGUUUCCCAGUGAGCUGUACUUUAUGUACACA
-----...........((((((.....((((...)))).........(((((((.....))))))))))).))(((((.....))))).. ( -19.10, z-score =  -2.41, R)
>consensus
UG__AAUUUGAAAUAUGUAAUUUCAAAUUGCCUUGCCCAGUUCCCCAGGGAAACCUUUAGUUUCCCAGUGAGCUGUACUUUAUGUACACA
....((((((((((.....)))))))))).........(((((....(((((((.....)))))))...)))))((((.....))))... (-17.28 = -18.96 +   1.68)

alignment

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secondary structure

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dotplot

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Window 4

Location 11,274,039 – 11,274,129
Length 90
Sequences 5
Columns 90
Reading direction reverse
Mean pairwise identity 84.13
Shannon entropy 0.27905
G+C content 0.39961
Mean single sequence MFE -25.98
Consensus MFE -17.44
Energy contribution -17.44
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -3.22
Structure conservation index 0.67
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.62
SVM RNA-class probability 0.993487
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11274039 90 - 22422827
UGUGUACAUAAAGUACAGCUCACUGGGAAACUAAAGGUUUCCCGGGGGAACUGUGCAAGGCAAUUUGAAACUAAAUAUUUCAAAUUUGCA
............((((((.((.(((((((((.....)))))))))..)).))))))...(((((((((((.......))))))).)))). ( -33.10, z-score =  -5.31, R)
>droSim1.chrX 8704531 90 - 17042790
UGUGUACAUAAAGUACAGCUCAGUGGGAAACUAAAGGUUUCCCUGGGGAGCUGGGCAAGGCAAUUCGAAAGUACAUAUUUCAAAUUCACA
(((((((.....(..((((((...(((((((.....)))))))....))))))..)..((....))....)))))))............. ( -29.80, z-score =  -3.96, R)
>droSec1.super_15 1952712 90 - 1954846
UGUGUACAUAAAGUACAGCUCAGUGGGAAACUAAAGGUUUCCCUGGGGAGCUGGGCAAGGCAAUUCGAAACUACAUAUUUCAAAUUCACA
.(((........(..((((((...(((((((.....)))))))....))))))..)..........((((.......)))).....))). ( -26.70, z-score =  -2.85, R)
>droYak2.chrX 10891739 85 + 21770863
UGUGUACAUAAAGUACAGCUCACUGGGAAACUAAAGGUUUCCCUCGGGAAGAACGCAAGGCAAUUAAAAAUGAUAUAUAUAAAGU-----
..(((((.....)))))((((...(((((((.....)))))))....))....(....)))........................----- ( -18.60, z-score =  -1.98, R)
>droEre2.scaffold_4690 14868361 85 + 18748788
UGUGUACAUAAAGUACAGCUCACUGGGAAACUAAAGGUUUCCCUGGGGAAGUUCGCAGGGCAAUUUAAAAUGGCAUACAUAAAAU-----
..(((((.....)))))((((...(((((((.....)))))))((.((....)).))))))........(((.....))).....----- ( -21.70, z-score =  -1.99, R)
>consensus
UGUGUACAUAAAGUACAGCUCACUGGGAAACUAAAGGUUUCCCUGGGGAACUGCGCAAGGCAAUUCGAAACUACAUAUUUCAAAUU__CA
..(((((.....))))).(((...(((((((.....)))))))..))).......................................... (-17.44 = -17.44 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:33:54 2011