Locus 11276

Sequence ID dm3.chr3R
Location 19,952,525 – 19,952,627
Length 102
Max. P 0.917808
window15496 window15497

overview

Window 6

Location 19,952,525 – 19,952,627
Length 102
Sequences 3
Columns 111
Reading direction forward
Mean pairwise identity 69.11
Shannon entropy 0.40685
G+C content 0.32057
Mean single sequence MFE -18.70
Consensus MFE -12.33
Energy contribution -12.33
Covariance contribution 0.01
Combinations/Pair 1.17
Mean z-score -1.71
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.14
SVM RNA-class probability 0.898513
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 19952525 102 + 27905053
CCACUGUGCGUAUACGUGAU---------AAAUUAAGUAUACGCAGCGUUGUUGGUUCUAUUUCAACCUAGUUUAUAUAUACUUGAAUUUAUUUUCAUAUUUCAUUAUUUA
..(((((((((((((.(((.---------...))).))))))))).....(((((.......))))).))))...........((((......)))).............. ( -17.30, z-score =  -1.09, R)
>droEre2.scaffold_4820 2363481 94 - 10470090
CCAUUGGGCGUAUACGUGAUUUAUUUCAAAAAUUAAGUAUACGCACUGCUGUCGGUUCUAGUUCAGUCUAGCU-----------------AUUUUCCAUUUGAAUAAUUUA
.((.(((((((((((.((((((.......)))))).))))))))((((....)))).((((......))))..-----------------.....)))..))......... ( -19.50, z-score =  -1.78, R)
>droSim1.chr3R 19783811 92 + 27517382
CCACUCUGCGUAUACGUGAU---------AAAUUAAGUAUACGCAGCGCUAUCGGUUAUAGUUAAACCCAGUUUC----------AAUGUAUUUUCCUAUUUGAUUAUUUA
...(.((((((((((.(((.---------...))).)))))))))).)..(((((..((((..(((..((.....----------..))..)))..)))))))))...... ( -19.30, z-score =  -2.25, R)
>consensus
CCACUGUGCGUAUACGUGAU_________AAAUUAAGUAUACGCAGCGCUGUCGGUUCUAGUUCAACCUAGUUU___________AAU_UAUUUUCCUAUUUAAUUAUUUA
.....((((((((((.((((...........)))).)))))))))).......((((.......))))........................................... (-12.33 = -12.33 +   0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 19,952,525 – 19,952,627
Length 102
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 69.11
Shannon entropy 0.40685
G+C content 0.32057
Mean single sequence MFE -17.57
Consensus MFE -11.23
Energy contribution -11.90
Covariance contribution 0.67
Combinations/Pair 1.18
Mean z-score -1.84
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.26
SVM RNA-class probability 0.917808
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 19952525 102 - 27905053
UAAAUAAUGAAAUAUGAAAAUAAAUUCAAGUAUAUAUAAACUAGGUUGAAAUAGAACCAACAACGCUGCGUAUACUUAAUUU---------AUCACGUAUACGCACAGUGG
.......((((.(((....)))..))))...............((((.......)))).....((((((((((((.......---------.....))))))))..)))). ( -18.00, z-score =  -2.07, R)
>droEre2.scaffold_4820 2363481 94 + 10470090
UAAAUUAUUCAAAUGGAAAAU-----------------AGCUAGACUGAACUAGAACCGACAGCAGUGCGUAUACUUAAUUUUUGAAAUAAAUCACGUAUACGCCCAAUGG
.............(((.....-----------------..((((......)))).............((((((((...((((.......))))...))))))))))).... ( -15.10, z-score =  -1.17, R)
>droSim1.chr3R 19783811 92 - 27517382
UAAAUAAUCAAAUAGGAAAAUACAUU----------GAAACUGGGUUUAACUAUAACCGAUAGCGCUGCGUAUACUUAAUUU---------AUCACGUAUACGCAGAGUGG
...........((((..(((..((..----------.....))..)))..))))........((.((((((((((.......---------.....)))))))))).)).. ( -19.60, z-score =  -2.27, R)
>consensus
UAAAUAAUCAAAUAGGAAAAUA_AUU___________AAACUAGGUUGAACUAGAACCGACAGCGCUGCGUAUACUUAAUUU_________AUCACGUAUACGCACAGUGG
........................................((((......))))..(((......((((((((((.....................))))))))))..))) (-11.23 = -11.90 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:39:47 2011