Locus 12797

Sequence ID dm3.chrX
Location 2,229,305 – 2,229,427
Length 122
Max. P 0.879772
window17590 window17591 window17592

overview

Window 0

Location 2,229,305 – 2,229,408
Length 103
Sequences 3
Columns 103
Reading direction forward
Mean pairwise identity 82.59
Shannon entropy 0.22936
G+C content 0.39177
Mean single sequence MFE -23.73
Consensus MFE -20.39
Energy contribution -20.17
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -1.22
Structure conservation index 0.86
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.20
SVM RNA-class probability 0.589919
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 2229305 103 + 22422827
AACCAGAAUUGCGUUUUGGGUUGUUGACGUCCAGCUGCGUUUGCAAAUUUAGGAAUUAUGCGAUUAUCGCAUAAUAAACAUACGUAUGUACAUAUGUAUAUAG
..(((((((...))))))).((((.(((((......))))).))))........((((((((.....))))))))....((((((((....)))))))).... ( -27.70, z-score =  -1.92, R)
>droSec1.super_10 2005633 87 + 3036183
AGCUAGAAUUGCGUUUUGGGUUGUUGACGUCCUGCUGCGUUUGCAAAUUUUGGGAUUAUGCGAUUAUCGCAUAAUAUACACACAUAG----------------
..((((((((((((..((((.((....)).))))..)))).....)))))))).((((((((.....))))))))............---------------- ( -21.30, z-score =  -0.75, R)
>droSim1.chrX 1575492 87 + 17042790
AGCUAGAAUUGCGUUUUGGGUUGUUGACGUCCAGCUGCGUUUGCAAAUUUGGGGAUUAUGCGAUUAUCGCAUAAUAUACACACAUAG----------------
..(((((.(((((....(.((.((((.....)))).)).).))))).)))))..((((((((.....))))))))............---------------- ( -22.20, z-score =  -1.00, R)
>consensus
AGCUAGAAUUGCGUUUUGGGUUGUUGACGUCCAGCUGCGUUUGCAAAUUUAGGGAUUAUGCGAUUAUCGCAUAAUAUACACACAUAG________________
..(((((((...))))))).((((.(((((......))))).)))).....(..((((((((.....))))))))...)........................ (-20.39 = -20.17 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 1

Location 2,229,305 – 2,229,408
Length 103
Sequences 3
Columns 103
Reading direction reverse
Mean pairwise identity 82.59
Shannon entropy 0.22936
G+C content 0.39177
Mean single sequence MFE -18.00
Consensus MFE -15.28
Energy contribution -15.40
Covariance contribution 0.12
Combinations/Pair 1.12
Mean z-score -1.24
Structure conservation index 0.85
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.15
SVM RNA-class probability 0.567004
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 2229305 103 - 22422827
CUAUAUACAUAUGUACAUACGUAUGUUUAUUAUGCGAUAAUCGCAUAAUUCCUAAAUUUGCAAACGCAGCUGGACGUCAACAACCCAAAACGCAAUUCUGGUU
......((((((((....))))))))..((((((((.....)))))))).((..(((((((....)))(((((...........)))....))))))..)).. ( -19.90, z-score =  -1.18, R)
>droSec1.super_10 2005633 87 - 3036183
----------------CUAUGUGUGUAUAUUAUGCGAUAAUCGCAUAAUCCCAAAAUUUGCAAACGCAGCAGGACGUCAACAACCCAAAACGCAAUUCUAGCU
----------------...(((((....((((((((.....)))))))).......(((((.......)))))................)))))......... ( -16.10, z-score =  -0.92, R)
>droSim1.chrX 1575492 87 - 17042790
----------------CUAUGUGUGUAUAUUAUGCGAUAAUCGCAUAAUCCCCAAAUUUGCAAACGCAGCUGGACGUCAACAACCCAAAACGCAAUUCUAGCU
----------------...(((((....((((((((.....))))))))..(((...((((....)))).)))................)))))......... ( -18.00, z-score =  -1.62, R)
>consensus
________________CUAUGUGUGUAUAUUAUGCGAUAAUCGCAUAAUCCCAAAAUUUGCAAACGCAGCUGGACGUCAACAACCCAAAACGCAAUUCUAGCU
...................(((.((((.((((((((.....)))))))).........)))).))).((((((((((............)))....))))))) (-15.28 = -15.40 +   0.12)

alignment

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secondary structure

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dotplot

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Window 2

Location 2,229,327 – 2,229,427
Length 100
Sequences 4
Columns 100
Reading direction reverse
Mean pairwise identity 57.88
Shannon entropy 0.68630
G+C content 0.38985
Mean single sequence MFE -17.90
Consensus MFE -6.25
Energy contribution -6.50
Covariance contribution 0.25
Combinations/Pair 1.44
Mean z-score -1.71
Structure conservation index 0.35
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.04
SVM RNA-class probability 0.879772
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 2229327 100 - 22422827
ACUCACCACUGCCCGAUGACUAUAUACAUAUGUACAUACGUAUGUUUAUUAUGCGAUAAUCGCAUAAUUCCUAAAUUUGCAAACGCAGCUGGACGUCAAC
.....(((((((.............((((((((....))))))))..((((((((.....))))))))................)))).)))........ ( -24.50, z-score =  -3.11, R)
>droSec1.super_10 2005655 84 - 3036183
ACUCACCGCUGCCCGAUGACUAU----------------GUGUGUAUAUUAUGCGAUAAUCGCAUAAUCCCAAAAUUUGCAAACGCAGCAGGACGUCAAC
.....(((((((....((...((----------------...((...((((((((.....))))))))..))..))...))...))))).))........ ( -19.80, z-score =  -1.37, R)
>droSim1.chrX 1575514 84 - 17042790
ACUCACCGCUGCCCGAUGACUAU----------------GUGUGUAUAUUAUGCGAUAAUCGCAUAAUCCCCAAAUUUGCAAACGCAGCUGGACGUCAAC
.....(((((((....((...((----------------...((...((((((((.....))))))))...)).))...))...))))).))........ ( -19.70, z-score =  -1.49, R)
>droGri2.scaffold_14853 4895075 91 - 10151454
ACUCAUCUCUAGCUAAGUUUUUUGUAUCAGAUUUUCUUUCAUUUCUUUUUUUUUAACAAUAAUUUGUUAUUU--CCUUGCACACUUUGUGUAU-------
....((((...((..........))...)))).....................((((((....))))))...--...(((((.....))))).------- (  -7.60, z-score =  -0.87, R)
>consensus
ACUCACCGCUGCCCGAUGACUAU________________GUGUGUAUAUUAUGCGAUAAUCGCAUAAUCCCUAAAUUUGCAAACGCAGCUGGACGUCAAC
.....(((((((...................................((((((((.....))))))))..........(....))))).)))........ ( -6.25 =  -6.50 +   0.25)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:08:58 2011