Locus 7158

Sequence ID dm3.chr3L
Location 12,596,837 – 12,596,951
Length 114
Max. P 0.968101
window9852 window9853

overview

Window 2

Location 12,596,837 – 12,596,951
Length 114
Sequences 3
Columns 114
Reading direction forward
Mean pairwise identity 95.25
Shannon entropy 0.06444
G+C content 0.28929
Mean single sequence MFE -22.40
Consensus MFE -19.69
Energy contribution -19.47
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -1.76
Structure conservation index 0.88
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.40
SVM RNA-class probability 0.681586
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 12596837 114 + 24543557
AUAAUCACUUUUGUUACGCCGGAAAAUGAAACAUUUUCCAAAUGAUAAAUCAAUCAGGUACUACUAUGUGUGUGUGUGGUUAGUGUUUGUAACUAAUUAAUAUAAAAUAAGUUU
.....(((....((...(((((((((((...))))))))...((((......)))))))...))...)))(((((.((((((((.......))))))))))))).......... ( -22.80, z-score =  -1.52, R)
>droSec1.super_0 4783154 109 + 21120651
AUAAUCACUUUCGUUACGCCGGAAAAUGAAACAUUUUCCAAAUGAUAAAUCAAUCAGGUACUA-----UGUGUGUGUGGUUAGUGCUUGUAACUAAUUAAUUUAAAAUAAGUUU
.....(((...(((...(((((((((((...))))))))...((((......)))))))...)-----))...)))((((((((.......))))))))............... ( -22.20, z-score =  -1.88, R)
>droSim1.chr3L 11982357 109 + 22553184
AUAAUCACUUUCGUUACGCCGGAAAAUGAAACAUUUUCCAAAUGAUAAAUCAAUCAGGUACUA-----UGUGUGUGUGGUUAGUGCUUGUAACUAAUUAAUUUAAAAUAAGUUU
.....(((...(((...(((((((((((...))))))))...((((......)))))))...)-----))...)))((((((((.......))))))))............... ( -22.20, z-score =  -1.88, R)
>consensus
AUAAUCACUUUCGUUACGCCGGAAAAUGAAACAUUUUCCAAAUGAUAAAUCAAUCAGGUACUA_____UGUGUGUGUGGUUAGUGCUUGUAACUAAUUAAUUUAAAAUAAGUUU
((((.((((..(..((((((((((((((...))))))))...((((......)))).............).)))))..)..)))).))))........................ (-19.69 = -19.47 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 12,596,837 – 12,596,951
Length 114
Sequences 3
Columns 114
Reading direction reverse
Mean pairwise identity 95.25
Shannon entropy 0.06444
G+C content 0.28929
Mean single sequence MFE -19.31
Consensus MFE -18.90
Energy contribution -19.23
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.99
Structure conservation index 0.98
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.79
SVM RNA-class probability 0.968101
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 12596837 114 - 24543557
AAACUUAUUUUAUAUUAAUUAGUUACAAACACUAACCACACACACACAUAGUAGUACCUGAUUGAUUUAUCAUUUGGAAAAUGUUUCAUUUUCCGGCGUAACAAAAGUGAUUAU
.............(((((((((.(((....((((..............)))).))).)))))))))..(((((((((((((((...))))))))(......)..)))))))... ( -17.84, z-score =  -1.36, R)
>droSec1.super_0 4783154 109 - 21120651
AAACUUAUUUUAAAUUAAUUAGUUACAAGCACUAACCACACACACA-----UAGUACCUGAUUGAUUUAUCAUUUGGAAAAUGUUUCAUUUUCCGGCGUAACGAAAGUGAUUAU
..........((((((((((((.(((....................-----..))).))))))))))))....((((((((((...))))))))))....((....))...... ( -20.05, z-score =  -2.30, R)
>droSim1.chr3L 11982357 109 - 22553184
AAACUUAUUUUAAAUUAAUUAGUUACAAGCACUAACCACACACACA-----UAGUACCUGAUUGAUUUAUCAUUUGGAAAAUGUUUCAUUUUCCGGCGUAACGAAAGUGAUUAU
..........((((((((((((.(((....................-----..))).))))))))))))....((((((((((...))))))))))....((....))...... ( -20.05, z-score =  -2.30, R)
>consensus
AAACUUAUUUUAAAUUAAUUAGUUACAAGCACUAACCACACACACA_____UAGUACCUGAUUGAUUUAUCAUUUGGAAAAUGUUUCAUUUUCCGGCGUAACGAAAGUGAUUAU
..........((((((((((((.(((...........................))).))))))))))))((((((((((((((...))))))))(......)..)))))).... (-18.90 = -19.23 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:21:33 2011