Locus 5445

Sequence ID dm3.chr2R
Location 20,355,693 – 20,355,782
Length 89
Max. P 0.567989
window7473 window7474

overview

Window 3

Location 20,355,693 – 20,355,782
Length 89
Sequences 5
Columns 90
Reading direction forward
Mean pairwise identity 72.37
Shannon entropy 0.49996
G+C content 0.49078
Mean single sequence MFE -23.72
Consensus MFE -10.74
Energy contribution -11.46
Covariance contribution 0.72
Combinations/Pair 1.55
Mean z-score -1.56
Structure conservation index 0.45
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.15
SVM RNA-class probability 0.565157
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 20355693 89 + 21146708
UUUCAUCC-CAUCCGCCCCAGCAUGCACUUGACUUUUCGCCAUGUGCAUGUGCUGGUGGGAUCUUCUUGCCCGAUACUCGUUGGCUCUAU
....((((-((((.((....((((((((.((.(.....).)).)))))))))).))))))))......(((((.....))..)))..... ( -29.80, z-score =  -3.16, R)
>droSim1.chr2R 18814598 89 + 19596830
UUUCAUCC-CAUCCGCCCCUGCAUGCACUUGACUUUUCGCCAUGUGCAUGUGUUGGAGGGAUCUUCUUGCCCGGUACUCGUUGGCUCUAU
....((((-(.((((.(...((((((((.((.(.....).)).))))))))).)))))))))......(((((.....))..)))..... ( -25.60, z-score =  -1.42, R)
>droYak2.chr2R 20319033 89 + 21139217
UUUCAUCC-CAGCCGCCCCUGCAUGCACUUGACUUUUCGCCAUGUGCAUGUGUUGCUGGGAUCUUCAUGCCCGGUACUCGUUGGCUCUAU
....((((-((((.((....((((((((.((.(.....).)).)))))))))).))))))))......(((((.....))..)))..... ( -29.90, z-score =  -2.77, R)
>droEre2.scaffold_4845 21717147 87 + 22589142
UUUCA-CC-CAUCCACCC-UGCAUGCACUUGACUUUUCACCAUAUGGGUGUGUUGGCGGGAUCUUCUUGCCCGGUACUCAUCGGCUCUAU
.....-..-.((((..((-.((((((...(((....)))((....)))))))).))..))))......(((.(((....))))))..... ( -19.50, z-score =   0.31, R)
>droWil1.scaffold_180699 2154129 85 + 2593675
UUUCACCUAUGCUUUUGCCUUUAUACCCUAGAAUCAAAGGAAAAAAAGUGAGCUUGUAAGACUUUCUCU-----UGCUUUUUCUCUCUAU
..........((((((.(((((.............)))))...))))))(((...((((((.....)))-----))).....)))..... ( -13.82, z-score =  -0.77, R)
>consensus
UUUCAUCC_CAUCCGCCCCUGCAUGCACUUGACUUUUCGCCAUGUGCAUGUGUUGGUGGGAUCUUCUUGCCCGGUACUCGUUGGCUCUAU
....((((.((((.((....((((((((.((.........)).)))))))))).))))))))............................ (-10.74 = -11.46 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 20,355,693 – 20,355,782
Length 89
Sequences 5
Columns 90
Reading direction reverse
Mean pairwise identity 72.37
Shannon entropy 0.49996
G+C content 0.49078
Mean single sequence MFE -26.40
Consensus MFE -11.42
Energy contribution -13.22
Covariance contribution 1.80
Combinations/Pair 1.35
Mean z-score -1.66
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.15
SVM RNA-class probability 0.567989
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 20355693 89 - 21146708
AUAGAGCCAACGAGUAUCGGGCAAGAAGAUCCCACCAGCACAUGCACAUGGCGAAAAGUCAAGUGCAUGCUGGGGCGGAUG-GGAUGAAA
.....(((..((.....)))))......((((((((((((..(((((.((((.....)))).)))))))))))......))-)))).... ( -33.20, z-score =  -3.35, R)
>droSim1.chr2R 18814598 89 - 19596830
AUAGAGCCAACGAGUACCGGGCAAGAAGAUCCCUCCAACACAUGCACAUGGCGAAAAGUCAAGUGCAUGCAGGGGCGGAUG-GGAUGAAA
.....(((..((.....)))))......((((((((..(.(((((((.((((.....)))).)))))))....)..))).)-)))).... ( -31.10, z-score =  -2.88, R)
>droYak2.chr2R 20319033 89 - 21139217
AUAGAGCCAACGAGUACCGGGCAUGAAGAUCCCAGCAACACAUGCACAUGGCGAAAAGUCAAGUGCAUGCAGGGGCGGCUG-GGAUGAAA
.....(((..((.....)))))......((((((((..(.(((((((.((((.....)))).))))))).....)..))))-)))).... ( -34.80, z-score =  -3.73, R)
>droEre2.scaffold_4845 21717147 87 - 22589142
AUAGAGCCGAUGAGUACCGGGCAAGAAGAUCCCGCCAACACACCCAUAUGGUGAAAAGUCAAGUGCAUGCA-GGGUGGAUG-GG-UGAAA
.....(((...........)))..........((((....(((((.((((.(((....)))....))))..-)))))....-))-))... ( -20.60, z-score =   0.44, R)
>droWil1.scaffold_180699 2154129 85 - 2593675
AUAGAGAGAAAAAGCA-----AGAGAAAGUCUUACAAGCUCACUUUUUUUCCUUUGAUUCUAGGGUAUAAAGGCAAAAGCAUAGGUGAAA
...(.((((.....(.-----...)....)))).)....((((((((((((((((((((....))).)))))).)))))...)))))).. ( -12.30, z-score =   1.22, R)
>consensus
AUAGAGCCAACGAGUACCGGGCAAGAAGAUCCCACCAACACAUGCACAUGGCGAAAAGUCAAGUGCAUGCAGGGGCGGAUG_GGAUGAAA
.....(((...........)))......((((..((....(((((((.((((.....)))).)))))))...))..)))).......... (-11.42 = -13.22 +   1.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:48:30 2011