Locus 14942

Sequence ID dm3.chrX
Location 16,479,626 – 16,479,728
Length 102
Max. P 0.973499
window20585 window20586

overview

Window 5

Location 16,479,626 – 16,479,728
Length 102
Sequences 4
Columns 106
Reading direction forward
Mean pairwise identity 83.02
Shannon entropy 0.27624
G+C content 0.28114
Mean single sequence MFE -20.48
Consensus MFE -15.98
Energy contribution -15.60
Covariance contribution -0.38
Combinations/Pair 1.22
Mean z-score -2.37
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.89
SVM RNA-class probability 0.973499
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 16479626 102 + 22422827
UUCAAAGAAACGCACAGAAAGAAACACAGUUUUUAUGAAACAAAUUGAUGUUUCAUAGAUAAAUAGUUUCU-UAUCGUUUGGCAUAUAGAAUAUGCGAUUAAC---
.((....(((((......(((((((......(((((((((((......)))))))))))......))))))-)..))))).((((((...)))))))).....--- ( -23.10, z-score =  -3.51, R)
>droEre2.scaffold_4690 6837688 97 + 18748788
UUCAAAGAAAAGCACAGAAAGAAAUACCGUUUUCAUUAAACAAAUUGAUGUUUAGUAGAUAAACAGUUUUUGUAUACUUUGGCUCGUAGAAUAUAUG---------
.((((((.............((((......)))).....(((((....((((((.....))))))...)))))...))))))...............--------- ( -13.70, z-score =  -0.27, R)
>droSec1.super_17 302810 105 + 1527944
UUCAAAGAAACGCACAGAAAGAAACACAGUUUUUAUGAAACAAAUUCAUGUUUCAUAGAUAAAUAGUUUCU-UAUCGUUUUUCAUGUAGAAUAUUCGAUUCUUAAC
....(((((.........(((((((......(((((((((((......)))))))))))......))))))-).(((...(((.....)))....))))))))... ( -22.20, z-score =  -3.28, R)
>droSim1.chrX 12674707 105 + 17042790
UUCAAAGAAACGCACAGAAAGAAACAUAGUUUUUAUGAAGCAAACUGAUGUUUCAUAGAUAAAUAGUUUCU-UAUCGUUUGGCAUGUAGAAUAUUCGAUUCUUAAC
....(((((.(((.(((((((((((.((...(((((((((((......)))))))))))....))))))))-)....)))))).....((....))).)))))... ( -22.90, z-score =  -2.42, R)
>consensus
UUCAAAGAAACGCACAGAAAGAAACACAGUUUUUAUGAAACAAAUUGAUGUUUCAUAGAUAAAUAGUUUCU_UAUCGUUUGGCAUGUAGAAUAUUCGAUUCUU___
...........((.((((.((((((......(((((((((((......)))))))))))......))))))......))))))....................... (-15.98 = -15.60 +  -0.38)

alignment

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secondary structure

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dotplot

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Window 6

Location 16,479,626 – 16,479,728
Length 102
Sequences 4
Columns 106
Reading direction reverse
Mean pairwise identity 83.02
Shannon entropy 0.27624
G+C content 0.28114
Mean single sequence MFE -19.47
Consensus MFE -12.70
Energy contribution -13.01
Covariance contribution 0.31
Combinations/Pair 1.13
Mean z-score -2.59
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.51
SVM RNA-class probability 0.945583
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 16479626 102 - 22422827
---GUUAAUCGCAUAUUCUAUAUGCCAAACGAUA-AGAAACUAUUUAUCUAUGAAACAUCAAUUUGUUUCAUAAAAACUGUGUUUCUUUCUGUGCGUUUCUUUGAA
---.....((((((((...)))))).(((((..(-((((((........(((((((((......)))))))))........)))))))......)))))....)). ( -22.19, z-score =  -3.93, R)
>droEre2.scaffold_4690 6837688 97 - 18748788
---------CAUAUAUUCUACGAGCCAAAGUAUACAAAAACUGUUUAUCUACUAAACAUCAAUUUGUUUAAUGAAAACGGUAUUUCUUUCUGUGCUUUUCUUUGAA
---------...........((((..((((((((.(((.(((((((.((...((((((......))))))..))))))))).....))).))))))))..)))).. ( -16.90, z-score =  -2.48, R)
>droSec1.super_17 302810 105 - 1527944
GUUAAGAAUCGAAUAUUCUACAUGAAAAACGAUA-AGAAACUAUUUAUCUAUGAAACAUGAAUUUGUUUCAUAAAAACUGUGUUUCUUUCUGUGCGUUUCUUUGAA
....(((((.....))))).((.((((.(((..(-((((((........(((((((((......)))))))))........)))))))..)))...))))..)).. ( -22.29, z-score =  -2.93, R)
>droSim1.chrX 12674707 105 - 17042790
GUUAAGAAUCGAAUAUUCUACAUGCCAAACGAUA-AGAAACUAUUUAUCUAUGAAACAUCAGUUUGCUUCAUAAAAACUAUGUUUCUUUCUGUGCGUUUCUUUGAA
....(((((.....)))))..((((((...((((-((......))))))...(((((((.(((((.........))))))))))))....)).))))......... ( -16.50, z-score =  -1.02, R)
>consensus
___AAGAAUCGAAUAUUCUACAUGCCAAACGAUA_AGAAACUAUUUAUCUAUGAAACAUCAAUUUGUUUCAUAAAAACUGUGUUUCUUUCUGUGCGUUUCUUUGAA
..........................((((((((.((((((........(((((((((......)))))))))........))))))...))).)))))....... (-12.70 = -13.01 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:49:57 2011