Locus 7809

Sequence ID dm3.chr3L
Location 17,484,374 – 17,484,515
Length 141
Max. P 0.939104
window10741 window10742

overview

Window 1

Location 17,484,374 – 17,484,484
Length 110
Sequences 3
Columns 115
Reading direction reverse
Mean pairwise identity 80.00
Shannon entropy 0.26351
G+C content 0.31545
Mean single sequence MFE -20.10
Consensus MFE -15.62
Energy contribution -17.07
Covariance contribution 1.45
Combinations/Pair 1.04
Mean z-score -1.43
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.18
SVM RNA-class probability 0.578905
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 17484374 110 - 24543557
UUAAGCAUUGUCUGUUGUUCAUCCUACUUAGUUUGUGCAUUUGCACAAAUAUGCUUCCGUUAGAAAUAAUCUUGUAAUCAUACGAUGAGUA---CUAUCCCUU--AUUUCAGUUC
..((((((.(..((.....))..)......((((((((....))))))))))))))......(((((((....(((.((((...)))).))---)......))--)))))..... ( -20.00, z-score =  -1.68, R)
>droSec1.super_0 9537019 100 - 21120651
--------------UUAAGCAU-CUACUUAGUUUGUGCAUUUGUACAAAUAUGCUUCCGUUAGAAAUAAUCUUAUUUUCAGACGAUGAGUAGGGAUAGUACUUAUAUUUCAGUUC
--------------.......(-(((((((((((((((....)))))))).......((((.((((.........)))).)))).))))))))...................... ( -20.90, z-score =  -1.57, R)
>droSim1.chr3L 16825346 100 - 22553184
--------------UUAAGCAU-CUACUUAGUUUGUGCAUUUGUACAAAUAUGCUUCCGUUAGAAAUAAUCUUAUUUUAAGACGAUGAGUAGGGAUAGUACUUAUAUUUCAGUUC
--------------.......(-(((((((((((((((....)))))))).......((((.((((((....))))))..)))).))))))))...................... ( -19.40, z-score =  -1.05, R)
>consensus
______________UUAAGCAU_CUACUUAGUUUGUGCAUUUGUACAAAUAUGCUUCCGUUAGAAAUAAUCUUAUUUUCAGACGAUGAGUAGGGAUAGUACUUAUAUUUCAGUUC
.......................(((((((((((((((....)))))))).......((((.((((.........)))).)))).)))))))....................... (-15.62 = -17.07 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 17,484,404 – 17,484,515
Length 111
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 85.53
Shannon entropy 0.19028
G+C content 0.31898
Mean single sequence MFE -21.40
Consensus MFE -19.74
Energy contribution -19.30
Covariance contribution -0.44
Combinations/Pair 1.08
Mean z-score -1.79
Structure conservation index 0.92
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.45
SVM RNA-class probability 0.939104
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 17484404 111 - 24543557
CAUAUGUCUGCUCUGGAUGAAGUGUGUUUUAUUAAGCAUUGUCUGUUGUUCAUCCUACUUAGUUUGUGCAUUUGCACAAAUAUGCUUCCGUUAGAAAUAAUCUUGUAAUCA
..............((((((((.((((((....))))))...)).....))))))......((((((((....)))))))).(((....((((....))))...))).... ( -22.50, z-score =  -1.08, R)
>droSec1.super_0 9537054 96 - 21120651
CAUGUGUCUGCUCUAGAUGAAGUGUGUUUUAUUAAGCAU---------------CUACUUAGUUUGUGCAUUUGUACAAAUAUGCUUCCGUUAGAAAUAAUCUUAUUUUCA
...........(((((..(((((((((((.((((((...---------------...))))))..((((....)))))))))))))))..)))))................ ( -18.90, z-score =  -1.35, R)
>droSim1.chr3L 16825381 96 - 22553184
CAUAUGUCUGCUCUAGCUGAAGUGUGUUUUAUUAAGCAU---------------CUACUUAGUUUGUGCAUUUGUACAAAUAUGCUUCCGUUAGAAAUAAUCUUAUUUUAA
...........((((((.(((((((((((.((((((...---------------...))))))..((((....))))))))))))))).))))))................ ( -22.80, z-score =  -2.95, R)
>consensus
CAUAUGUCUGCUCUAGAUGAAGUGUGUUUUAUUAAGCAU_______________CUACUUAGUUUGUGCAUUUGUACAAAUAUGCUUCCGUUAGAAAUAAUCUUAUUUUCA
...........(((((..(((((((((((....))))))......................((((((((....))))))))..)))))..)))))................ (-19.74 = -19.30 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:33:50 2011