Locus 5457

Sequence ID dm3.chr2R
Location 20,482,469 – 20,482,602
Length 133
Max. P 0.788253
window7490 window7491

overview

Window 0

Location 20,482,469 – 20,482,564
Length 95
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 81.55
Shannon entropy 0.33350
G+C content 0.53743
Mean single sequence MFE -28.00
Consensus MFE -15.51
Energy contribution -17.32
Covariance contribution 1.81
Combinations/Pair 1.15
Mean z-score -2.24
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.69
SVM RNA-class probability 0.788253
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 20482469 95 + 21146708
CCGUCAUUACCUCACCUU------UCUUCCGCGGAGUUGGCUUUCGGUUGGCCAAGCCAAAGCCA------UCGAGUGUGUACUCGAUUUGUUUCUGCUGUCCGCUG
..................------......(((((..(((((((.((((.....)))))))))))------((((((....)))))).............))))).. ( -28.90, z-score =  -2.22, R)
>droAna3.scaffold_13266 16034901 87 + 19884421
CCGACAUUACCUUACCAC---------CUCACCUUCCUAGCAAUCCG-----AGUGCCAAAGCCG------GCGAGUGUGUACUCGAUUUGUUUCUGUUGCCUUUUG
.(((((............---------...........(((((..((-----(((((((..(...------.)...)).)))))))..)))))..)))))....... ( -16.11, z-score =  -0.75, R)
>droEre2.scaffold_4845 21857376 101 + 22589142
CCGUCAUUACCUCACCUUCCGCGUUCUUCCGCGGAGUUGUCCCUCGGCUGGCACAGCCAAAGCCA------UCGAGUGUGUACUCGAUUUGUUUCUGCUGUCCGCUG
................(((((((......)))))))........((((.((.(((((..((((.(------((((((....)))))))..))))..))))))))))) ( -34.20, z-score =  -3.51, R)
>droYak2.chr2R 20454287 101 + 21139217
CCGUCAUUACCUCACCUU------UCUUCCGCGGAGUUGGCUCUCCGUGGGCAAAGCCAAAGCCAAAGCCAUCGAGUGUGUACUCGAUUUGUUUCUGCUGUCCGCUG
..................------...(((((((((......)))))))))...(((...(((..((((.(((((((....)))))))..))))..)))....))). ( -31.00, z-score =  -2.24, R)
>droSec1.super_23 355997 95 + 989336
CCGUCAUUACCUCACCUU------UCUUCCGCGGAGUUGGCUUUCGGUUGGCCAAGCCAAAGCCA------UCGAGUGUGUACUCGAUUUGUUUCAACUGUCCGCUG
..................------......(((((..(((((((.((((.....)))))))))))------((((((....)))))).............))))).. ( -28.90, z-score =  -2.49, R)
>droSim1.chr2R 18943333 95 + 19596830
CCGUCAUUACCUCACCUU------UCUUCCGCGGAGUUGGCUUUCGGUUGGCCAAGCCAAAGCCA------UCGAGUGUGUACUCGAUUUGUUUCUGCUGUCCGCUG
..................------......(((((..(((((((.((((.....)))))))))))------((((((....)))))).............))))).. ( -28.90, z-score =  -2.22, R)
>consensus
CCGUCAUUACCUCACCUU______UCUUCCGCGGAGUUGGCUUUCGGUUGGCAAAGCCAAAGCCA______UCGAGUGUGUACUCGAUUUGUUUCUGCUGUCCGCUG
..............................(((((..(((((...((((.....))))..)))))......((((((....)))))).............))))).. (-15.51 = -17.32 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 20,482,503 – 20,482,602
Length 99
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 85.81
Shannon entropy 0.26874
G+C content 0.51459
Mean single sequence MFE -31.36
Consensus MFE -21.11
Energy contribution -22.89
Covariance contribution 1.78
Combinations/Pair 1.08
Mean z-score -1.91
Structure conservation index 0.67
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.32
SVM RNA-class probability 0.641794
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 20482503 99 - 21146708
GUAACGGGUUAUUCGCCCAUCGGUGAUUGUGCUAAUUCCAGCGGACAGCAGAAACAAAUCGAGUACACACUCGA------UGGCUUUGGCUUGGCCAACCGAAAG
.....((((.....)))).(((((......(((((..((.((.....))........(((((((....))))))------)))..))))).......)))))... ( -31.02, z-score =  -1.88, R)
>droAna3.scaffold_13266 16034936 88 - 19884421
CUAACGG--UUCUCGCCCAUCGGCGAUUGUGCUAAUUCCAAAAGGCAACAGAAACAAAUCGAGUACACACUCGC------CGGCUUUGGCACUCGG---------
....(((--...(((((....)))))..(((((((..((....(((....((......))((((....))))))------)))..)))))))))).--------- ( -26.80, z-score =  -2.62, R)
>droEre2.scaffold_4845 21857416 99 - 22589142
GUAACGGGUUAUUCGCCCAUCGGUGAUUGUGCUAAUUCCAGCGGACAGCAGAAACAAAUCGAGUACACACUCGA------UGGCUUUGGCUGUGCCAGCCGAGGG
.....((((.....)))).(((((......(((......)))(((((((.(((....(((((((....))))))------)...))).))))).)).)))))... ( -33.90, z-score =  -1.60, R)
>droYak2.chr2R 20454321 105 - 21139217
GUAACGGGUUAUUCGCCCAUCGGUGAUUGUGCUAAUUCCAGCGGACAGCAGAAACAAAUCGAGUACACACUCGAUGGCUUUGGCUUUGGCUUUGCCCACGGAGAG
.....((((.....)))).((.(((.((.((((...(((...))).)))).))....(((((((....)))))))(((...(((....)))..)))))).))... ( -31.50, z-score =  -0.91, R)
>droSec1.super_23 356031 99 - 989336
GUAACGGGUUAUUCGCCCAUCGGUGAUUGGGCUAAUUCCAGCGGACAGUUGAAACAAAUCGAGUACACACUCGA------UGGCUUUGGCUUGGCCAACCGAAAG
.....((((.....)))).(((((..(..((((((..(((((.....))).......(((((((....))))))------)))..))))))..)...)))))... ( -33.90, z-score =  -2.54, R)
>droSim1.chr2R 18943367 99 - 19596830
GUAACGGGUUAUUCGCCCAUCGGUGAUUGUGCUAAUUCCAGCGGACAGCAGAAACAAAUCGAGUACACACUCGA------UGGCUUUGGCUUGGCCAACCGAAAG
.....((((.....)))).(((((......(((((..((.((.....))........(((((((....))))))------)))..))))).......)))))... ( -31.02, z-score =  -1.88, R)
>consensus
GUAACGGGUUAUUCGCCCAUCGGUGAUUGUGCUAAUUCCAGCGGACAGCAGAAACAAAUCGAGUACACACUCGA______UGGCUUUGGCUUGGCCAACCGAAAG
.....((((.....)))).(((((......(((((..(((((.....)).........((((((....))))))......)))..))))).......)))))... (-21.11 = -22.89 +   1.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:48:44 2011