Locus 7410

Sequence ID dm3.chr3L
Location 14,671,970 – 14,672,105
Length 135
Max. P 0.974179
window10206 window10207

overview

Window 6

Location 14,671,970 – 14,672,066
Length 96
Sequences 4
Columns 108
Reading direction forward
Mean pairwise identity 78.64
Shannon entropy 0.33708
G+C content 0.28365
Mean single sequence MFE -19.80
Consensus MFE -13.02
Energy contribution -14.65
Covariance contribution 1.63
Combinations/Pair 1.19
Mean z-score -2.49
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.90
SVM RNA-class probability 0.974179
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 14671970 96 + 24543557
AUAACCGUUAGUCUUACAAGGUUUCAAUAAAGAAAUAAGAAAUGUGGCAAUGACGCAUUAUACUUAUAUAAUGGGUCAUUAAAGCCACGUUUUUUA------------
..((((.............))))............(((((((((((((((((((.(((((((....))))))).))))))...)))))))))))))------------ ( -30.12, z-score =  -5.76, R)
>droEre2.scaffold_4784 14642353 107 + 25762168
AUAACCGUUAGUCUUACAAAGUUUCAAUAAAGCAAUAAGAUAGGUAG-AAUGACCCAUUAUACUUAUAUAAUAGGUCAAUUAAUCGUCCAUUCAAUCAGUUCAGUUCA
...(((....((((((....((((.....))))..)))))).)))..-..(((((.((((((....)))))).))))).............................. ( -15.80, z-score =  -2.25, R)
>droSec1.super_0 6797088 96 + 21120651
AUAACCGUUAGUAUUACAAGGUUUCAAUAAAGAAAUAAGAAAUGUGGCAAUGACGCGUUAUACUUAUAUAAUGGAUCAUUAAAGCAACAUUUUAUA------------
....................(((((......)))))..(((((((.(((((((..(((((((....)))))))..)))))...)).)))))))...------------ ( -16.80, z-score =  -1.52, R)
>droSim1.chr3L 14003561 99 + 22553184
AUAACUGUUAGUUUUACAAAGUUUCAAUAAAGAAAAAAGAAAUGUGGCAAUGACGCGUUAUACUUAUGUAAUGGUUCAUAAAAGCAACGUUUUUUUUUA---------
.................................((((((((((((.((.(((((.(((((((....)))))))).))))....)).)))))))))))).--------- ( -16.50, z-score =  -0.44, R)
>consensus
AUAACCGUUAGUCUUACAAAGUUUCAAUAAAGAAAUAAGAAAUGUGGCAAUGACGCAUUAUACUUAUAUAAUGGGUCAUUAAAGCAACGUUUUAUA____________
....................(((((......)))))..(((((((.((((((((.(((((((....))))))).))))))...)).)))))))............... (-13.02 = -14.65 +   1.63)

alignment

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secondary structure

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dotplot

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Window 7

Location 14,672,004 – 14,672,105
Length 101
Sequences 4
Columns 114
Reading direction forward
Mean pairwise identity 75.58
Shannon entropy 0.38728
G+C content 0.29183
Mean single sequence MFE -21.60
Consensus MFE -12.70
Energy contribution -13.83
Covariance contribution 1.13
Combinations/Pair 1.23
Mean z-score -2.06
Structure conservation index 0.59
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.16
SVM RNA-class probability 0.902216
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 14672004 101 + 24543557
AUAAGAAAUGUGGCAAUGACGCAUUAUACUUAUAUAAUGGGUCAUUAAAGCCACGUUUUUU---AUUCAGU-------AUCGCUUUU---AAUAGUUUUGGUGCACUUCAGUUA
((((((((((((((((((((.(((((((....))))))).))))))...))))))))))))---))...((-------((((((...---...)))...))))).......... ( -34.00, z-score =  -6.07, R)
>droEre2.scaffold_4784 14642387 113 + 25762168
AUAAGAUAGGUAG-AAUGACCCAUUAUACUUAUAUAAUAGGUCAAUUAAUCGUCCAUUCAAUCAGUUCAGUUCAUUCAAUCGUUUUUUGUAAUAGUUUUACAGCACUUUAGGUU
....(((.(((.(-(.(((((.((((((....)))))).))))).)).)))))).......................((((.....((((((.....)))))).......)))) ( -15.20, z-score =  -0.89, R)
>droSec1.super_0 6797122 100 + 21120651
AUAAGAAAUGUGGCAAUGACGCGUUAUACUUAUAUAAUGGAUCAUUAAAGCAACAUUUUAU---AUUCAAU-------AUUGCUUUU---AAUAGUUUUAACGCACUUCAGUU-
....(((.((((..(((((..(((((((....)))))))..)))))(((((((.(((....---....)))-------.))))))).---...........)))).)))....- ( -19.00, z-score =  -1.65, R)
>droSim1.chr3L 14003595 104 + 22553184
AAAAGAAAUGUGGCAAUGACGCGUUAUACUUAUGUAAUGGUUCAUAAAAGCAACGUUUUUUUUUAUUGAAU-------AUAGCUUUU---AAUAGUUUUAGCGCACUUGAGUUA
(((((((((((.((.(((((.(((((((....)))))))).))))....)).)))))))))))........-------.((((((..---....((....))......)))))) ( -18.20, z-score =   0.38, R)
>consensus
AUAAGAAAUGUGGCAAUGACGCAUUAUACUUAUAUAAUGGGUCAUUAAAGCAACGUUUUAU___AUUCAAU_______AUCGCUUUU___AAUAGUUUUAGCGCACUUCAGUUA
....(((((((.((((((((.(((((((....))))))).))))))...)).)))))))....................................................... (-12.70 = -13.83 +   1.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:26:25 2011