Locus 10979

Sequence ID dm3.chr3R
Location 17,914,316 – 17,914,435
Length 119
Max. P 0.958730
window15086 window15087

overview

Window 6

Location 17,914,316 – 17,914,435
Length 119
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 74.16
Shannon entropy 0.38237
G+C content 0.28249
Mean single sequence MFE -16.60
Consensus MFE -10.94
Energy contribution -11.50
Covariance contribution 0.56
Combinations/Pair 1.05
Mean z-score -2.12
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.66
SVM RNA-class probability 0.958730
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 17914316 119 + 27905053
AGCAUGCGAAAACAAUUAAAAUUGUAAAAGGAUUACUUAACAAUCAUACAAUUUUGAUUUAAGCGUAUAACUUAAGAG-AAUAGUAUUGAUUCCCGGACAUCCAAGAAUAAAAACCUAAG
...(((((.....(((((((((((((....((((.......)))).)))))))))))))....)))))..........-..(((.....((((..((....))..))))......))).. ( -19.50, z-score =  -2.43, R)
>droEre2.scaffold_4820 307193 99 - 10470090
AACAUGCGAAAACAAUUAAAAUUGUAAAAGGAUUACUUAACAAUCAUACAAUUUCGAUUUAAGAGUAUGACCCAAAAAUAAUAAGAACACAAGCAUAAG---------------------
..(((((......(((..((((((((....((((.......)))).))))))))..))).....)))))..............................--------------------- ( -13.40, z-score =  -2.97, R)
>droYak2.chr3R 18754017 98 + 28832112
AGCAUGCGAAAACAAUUAAAAUUGUAAAAGGAUUACUUAGCAAUCAUACAAUUUCGAUUUAAGCAUCGAACUUAGAGG-AAUAAAACUGCAGCCUUAAG---------------------
.((.((((.......(..((((((((....((((.......)))).))))))))..)((((((.......))))))..-........))))))......--------------------- ( -13.60, z-score =  -0.33, R)
>droSim1.chr3R_random 887091 98 + 1307089
AGCAUGCGAAAACAAUUAAAAUUGUAAAAGGAUUACUUAACAAUCAUACAAUUUUGAUUUAAGCGUAUAACUUAAAGG-UAUAGUGUUGAUUCACUAAG---------------------
...(((((.....(((((((((((((....((((.......)))).)))))))))))))....)))))..........-..(((((......)))))..--------------------- ( -19.90, z-score =  -2.74, R)
>consensus
AGCAUGCGAAAACAAUUAAAAUUGUAAAAGGAUUACUUAACAAUCAUACAAUUUCGAUUUAAGCGUAUAACUUAAAAG_AAUAAUAUUGAAUCCCUAAG_____________________
...((((......(((((((((((((....((((.......)))).)))))))))))))...))))...................................................... (-10.94 = -11.50 +   0.56)

alignment

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secondary structure

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dotplot

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Window 7

Location 17,914,316 – 17,914,435
Length 119
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 74.16
Shannon entropy 0.38237
G+C content 0.28249
Mean single sequence MFE -18.67
Consensus MFE -9.98
Energy contribution -9.60
Covariance contribution -0.38
Combinations/Pair 1.14
Mean z-score -2.07
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.69
SVM RNA-class probability 0.786445
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 17914316 119 - 27905053
CUUAGGUUUUUAUUCUUGGAUGUCCGGGAAUCAAUACUAUU-CUCUUAAGUUAUACGCUUAAAUCAAAAUUGUAUGAUUGUUAAGUAAUCCUUUUACAAUUUUAAUUGUUUUCGCAUGCU
....(((.((.((((((((....)))))))).)).)))...-...((((((.....))))))...(((((((((.(((((.....)))))....)))))))))................. ( -21.00, z-score =  -1.63, R)
>droEre2.scaffold_4820 307193 99 + 10470090
---------------------CUUAUGCUUGUGUUCUUAUUAUUUUUGGGUCAUACUCUUAAAUCGAAAUUGUAUGAUUGUUAAGUAAUCCUUUUACAAUUUUAAUUGUUUUCGCAUGUU
---------------------..(((((.((((..((((.......)))).))))......(((..((((((((.(((((.....)))))....))))))))..)))......))))).. ( -16.40, z-score =  -2.19, R)
>droYak2.chr3R 18754017 98 - 28832112
---------------------CUUAAGGCUGCAGUUUUAUU-CCUCUAAGUUCGAUGCUUAAAUCGAAAUUGUAUGAUUGCUAAGUAAUCCUUUUACAAUUUUAAUUGUUUUCGCAUGCU
---------------------.....((((((.........-....(((((.....)))))(((..((((((((.((((((...))))))....))))))))..)))......))).))) ( -20.20, z-score =  -2.12, R)
>droSim1.chr3R_random 887091 98 - 1307089
---------------------CUUAGUGAAUCAACACUAUA-CCUUUAAGUUAUACGCUUAAAUCAAAAUUGUAUGAUUGUUAAGUAAUCCUUUUACAAUUUUAAUUGUUUUCGCAUGCU
---------------------....(((((..((((.....-..(((((((.....)))))))..(((((((((.(((((.....)))))....)))))))))...)))))))))..... ( -17.10, z-score =  -2.32, R)
>consensus
_____________________CUUAGGGAAGCAAUACUAUU_CCUUUAAGUUAUACGCUUAAAUCAAAAUUGUAUGAUUGUUAAGUAAUCCUUUUACAAUUUUAAUUGUUUUCGCAUGCU
..............................................(((((.....)))))(((.(((((((((.(((((.....)))))....))))))))).)))............. ( -9.98 =  -9.60 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:34:06 2011