Locus 5319

Sequence ID dm3.chr2R
Location 19,443,758 – 19,443,838
Length 80
Max. P 0.989999
window7291 window7292

overview

Window 1

Location 19,443,758 – 19,443,838
Length 80
Sequences 5
Columns 80
Reading direction forward
Mean pairwise identity 77.71
Shannon entropy 0.39260
G+C content 0.54419
Mean single sequence MFE -26.78
Consensus MFE -20.39
Energy contribution -21.20
Covariance contribution 0.81
Combinations/Pair 1.21
Mean z-score -2.15
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.23
SVM RNA-class probability 0.986262
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 19443758 80 + 21146708
GUUCGGGGUUCGUUGCUGGUUCCGGUUCAAGUUCCAUUUCUUCGCCGCAACUACAGUGCCUAUCGGUUGCGGCGAAUUGC
....((..((.(..((((....)))).).))..)).....((((((((((((............)))))))))))).... ( -28.50, z-score =  -2.38, R)
>droEre2.scaffold_4845 20807429 74 + 22589142
UUAUCGGAUUCGAUGCCGGUUCCGGCUCACGAUC------UUCGCCGCAACUACAGUGUCUAUCGGUUCCGGCGAAUUGG
.....((((.((..((((....))))...)))))------)((((((.((((............)))).))))))..... ( -23.40, z-score =  -0.98, R)
>droYak2.chr2R 19405025 68 + 21139217
------AUUCCGAAUUCGGAGCCGGUUCAAGUUC------UUCGCCGCAAAUACGGUGUCUAUCGGUUGCGGCGAAUUGG
------.(((((....)))))(((((((..(...------..)(((((((...((((....)))).)))))))))))))) ( -27.00, z-score =  -3.02, R)
>droSec1.super_9 2724762 80 + 3197100
GCUCGGGGUUCGUUGCUGGUUCCGGUUCCAGUUCCAUUUCUUCGCCGCAACUACAGUUCCUAUCGAUUGCGGCGAAUUGA
....((..((.(..((((....))))..)))..)).....((((((((((................)))))))))).... ( -25.09, z-score =  -1.45, R)
>droSim1.chr2R 18013782 80 + 19596830
GCUCGGGGUUCGUUGCUGGUUCCGGUUCCAGUUCCAUUUCUUCGCCGCAACUACAGUUCCUAUCGGUUGCGGCGAAUUGA
....((..((.(..((((....))))..)))..)).....((((((((((((............)))))))))))).... ( -29.90, z-score =  -2.92, R)
>consensus
GCUCGGGGUUCGUUGCUGGUUCCGGUUCAAGUUCCAUUUCUUCGCCGCAACUACAGUGCCUAUCGGUUGCGGCGAAUUGA
.....(((......((((....))))......))).....((((((((((((............)))))))))))).... (-20.39 = -21.20 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 19,443,758 – 19,443,838
Length 80
Sequences 5
Columns 80
Reading direction reverse
Mean pairwise identity 77.71
Shannon entropy 0.39260
G+C content 0.54419
Mean single sequence MFE -24.58
Consensus MFE -16.52
Energy contribution -17.00
Covariance contribution 0.48
Combinations/Pair 1.07
Mean z-score -2.49
Structure conservation index 0.67
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.40
SVM RNA-class probability 0.989999
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 19443758 80 - 21146708
GCAAUUCGCCGCAACCGAUAGGCACUGUAGUUGCGGCGAAGAAAUGGAACUUGAACCGGAACCAGCAACGAACCCCGAAC
((..(((((((((((..((((...)))).)))))))))))....(((..((......))..))))).............. ( -24.10, z-score =  -2.39, R)
>droEre2.scaffold_4845 20807429 74 - 22589142
CCAAUUCGCCGGAACCGAUAGACACUGUAGUUGCGGCGAA------GAUCGUGAGCCGGAACCGGCAUCGAAUCCGAUAA
....(((((((.(((..((((...)))).))).)))))))------.(((((((((((....)))).)))....)))).. ( -26.80, z-score =  -2.56, R)
>droYak2.chr2R 19405025 68 - 21139217
CCAAUUCGCCGCAACCGAUAGACACCGUAUUUGCGGCGAA------GAACUUGAACCGGCUCCGAAUUCGGAAU------
....((((((((((.((........))...))))))))))------..............((((....))))..------ ( -21.70, z-score =  -2.61, R)
>droSec1.super_9 2724762 80 - 3197100
UCAAUUCGCCGCAAUCGAUAGGAACUGUAGUUGCGGCGAAGAAAUGGAACUGGAACCGGAACCAGCAACGAACCCCGAGC
((..(((((((((((..((((...)))).)))))))))))(...(((..(((....)))..))).)...))......... ( -24.40, z-score =  -2.12, R)
>droSim1.chr2R 18013782 80 - 19596830
UCAAUUCGCCGCAACCGAUAGGAACUGUAGUUGCGGCGAAGAAAUGGAACUGGAACCGGAACCAGCAACGAACCCCGAGC
((..(((((((((((..((((...)))).)))))))))))(...(((..(((....)))..))).)...))......... ( -25.90, z-score =  -2.77, R)
>consensus
CCAAUUCGCCGCAACCGAUAGGCACUGUAGUUGCGGCGAAGAAAUGGAACUUGAACCGGAACCAGCAACGAACCCCGAAC
....(((((((((((..((((...)))).)))))))))))........................................ (-16.52 = -17.00 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:45:57 2011