Locus 13964

Sequence ID dm3.chrX
Location 10,293,481 – 10,293,611
Length 130
Max. P 0.876459
window19208 window19209 window19210

overview

Window 8

Location 10,293,481 – 10,293,587
Length 106
Sequences 3
Columns 110
Reading direction forward
Mean pairwise identity 82.05
Shannon entropy 0.23375
G+C content 0.34147
Mean single sequence MFE -22.80
Consensus MFE -16.13
Energy contribution -17.80
Covariance contribution 1.67
Combinations/Pair 1.00
Mean z-score -2.29
Structure conservation index 0.71
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.03
SVM RNA-class probability 0.876459
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10293481 106 + 22422827
UGGUCAUGAAAAUUCAAAUUCCUAUACAACUAU----ACAUAUUAUUGAAAAUAUGUUGAAAUUAGCCUUUUGCCAGCAAAUGGCUCUGCACAUGGCCAAAAUGCGAUGA
((((((((....(((((.....((((....)))----)((((((......)))))))))))...((((.((((....)))).)))).....))))))))........... ( -24.10, z-score =  -1.77, R)
>droSim1.chrX 8017087 92 + 17042790
UGGUCCUAAAAAUCCAAAUUCCUAUAGAACUAGGAAAACAUAUUAUUGAAAAUAUGU------------------AGCAAAUGGCUGUGCACAUGGCCAAAAUGCGAUGA
(((..........)))..((((((......)))))).(((((((......)))))))------------------.(((..(((((((....)))))))...)))..... ( -21.80, z-score =  -2.43, R)
>droSec1.super_15 989761 92 + 1954846
UGGUCAUAAAAAUCCAAAUUCCUAUAGAACUAGGAAAACAUAUUAUUGAAAAUAUGU------------------AGCAAAUGGCUGUGCACAUGGCCAAAAUGCGAUGA
..(((.............((((((......)))))).(((((((......)))))))------------------.(((..(((((((....)))))))...)))))).. ( -22.50, z-score =  -2.68, R)
>consensus
UGGUCAUAAAAAUCCAAAUUCCUAUAGAACUAGGAAAACAUAUUAUUGAAAAUAUGU__________________AGCAAAUGGCUGUGCACAUGGCCAAAAUGCGAUGA
..(((.............((((((......)))))).(((((((......)))))))...................(((..(((((((....)))))))...)))))).. (-16.13 = -17.80 +   1.67)

alignment

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secondary structure

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dotplot

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Window 9

Location 10,293,514 – 10,293,611
Length 97
Sequences 3
Columns 100
Reading direction forward
Mean pairwise identity 82.98
Shannon entropy 0.22039
G+C content 0.34855
Mean single sequence MFE -18.87
Consensus MFE -17.03
Energy contribution -17.37
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.30
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.63
SVM RNA-class probability 0.768859
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10293514 97 + 22422827
---ACAUAUUAUUGAAAAUAUGUUGAAAUUAGCCUUUUGCCAGCAAAUGGCUCUGCACAUGGCCAAAAUGCGAUGACAGAAGAUGUUGUAUGUGAAAAAU
---(((((((......))))))).......((((.((((....)))).))))...(((((.((......)).(..(((.....)))..))))))...... ( -19.60, z-score =  -0.44, R)
>droSim1.chrX 8017121 82 + 17042790
AAAACAUAUUAUUGAAAAUAUGU------------------AGCAAAUGGCUGUGCACAUGGCCAAAAUGCGAUGACAGAAGAUGUUGUGUGUGGAAAAU
...(((((((......)))))))------------------.(((..(((((((....)))))))...))).(..(((.....)))..)........... ( -18.50, z-score =  -1.58, R)
>droSec1.super_15 989795 82 + 1954846
AAAACAUAUUAUUGAAAAUAUGU------------------AGCAAAUGGCUGUGCACAUGGCCAAAAUGCGAUGACAGAAGAUGUUGUAUGUGGAAAAU
...(((((((......)))))))------------------.(((..(((((((....)))))))...))).(..(((.....)))..)........... ( -18.50, z-score =  -1.87, R)
>consensus
AAAACAUAUUAUUGAAAAUAUGU__________________AGCAAAUGGCUGUGCACAUGGCCAAAAUGCGAUGACAGAAGAUGUUGUAUGUGGAAAAU
...(((((((......)))))))...................(((..(((((((....)))))))...))).(..(((.....)))..)........... (-17.03 = -17.37 +   0.33)

alignment

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secondary structure

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dotplot

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Window 0

Location 10,293,514 – 10,293,611
Length 97
Sequences 3
Columns 100
Reading direction reverse
Mean pairwise identity 82.98
Shannon entropy 0.22039
G+C content 0.34855
Mean single sequence MFE -15.13
Consensus MFE -11.77
Energy contribution -11.77
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.57
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.11
SVM RNA-class probability 0.550038
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10293514 97 - 22422827
AUUUUUCACAUACAACAUCUUCUGUCAUCGCAUUUUGGCCAUGUGCAGAGCCAUUUGCUGGCAAAAGGCUAAUUUCAACAUAUUUUCAAUAAUAUGU---
....................((((((((.((......)).))).)))))(((.((((....)))).)))........(((((((......)))))))--- ( -20.40, z-score =  -1.65, R)
>droSim1.chrX 8017121 82 - 17042790
AUUUUCCACACACAACAUCUUCUGUCAUCGCAUUUUGGCCAUGUGCACAGCCAUUUGCU------------------ACAUAUUUUCAAUAAUAUGUUUU
.............................(((...((((..((....))))))..))).------------------(((((((......)))))))... ( -12.50, z-score =  -1.54, R)
>droSec1.super_15 989795 82 - 1954846
AUUUUCCACAUACAACAUCUUCUGUCAUCGCAUUUUGGCCAUGUGCACAGCCAUUUGCU------------------ACAUAUUUUCAAUAAUAUGUUUU
.............................(((...((((..((....))))))..))).------------------(((((((......)))))))... ( -12.50, z-score =  -1.53, R)
>consensus
AUUUUCCACAUACAACAUCUUCUGUCAUCGCAUUUUGGCCAUGUGCACAGCCAUUUGCU__________________ACAUAUUUUCAAUAAUAUGUUUU
.............................(((...((((..........))))..)))...................(((((((......)))))))... (-11.77 = -11.77 +   0.00)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:31:06 2011