Locus 2695

Sequence ID dm3.chr2L
Location 21,157,313 – 21,157,423
Length 110
Max. P 0.892831
window3692 window3693

overview

Window 2

Location 21,157,313 – 21,157,423
Length 110
Sequences 3
Columns 110
Reading direction forward
Mean pairwise identity 96.97
Shannon entropy 0.04174
G+C content 0.49697
Mean single sequence MFE -30.50
Consensus MFE -29.25
Energy contribution -29.70
Covariance contribution 0.45
Combinations/Pair 1.04
Mean z-score -1.72
Structure conservation index 0.96
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.11
SVM RNA-class probability 0.892831
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 21157313 110 + 23011544
ACAAGGCGCCCACGGUCUCCGGCAGCAUGAGCAAGAAGUUUAACACCAAAAAGGACUUUAAAAGGAAGCAAAUCGGCGGAGAUAGUGAUAGUCCGCAUGCCAUGAAGAAG
.((.((((..(((.(((((((.(.((....))..(((((((...........)))))))...............).))))))).)))...(....).)))).))...... ( -26.90, z-score =  -0.72, R)
>droSim1.chr2L 20740398 110 + 22036055
ACAAGGCUCCCACAGUCUCCGGCAGCAUGAGCAAGAAGUUUAACACCAAAAAGGACUUCAAAAGGAAGCAAAUCGGCGGAGAUAGUGAGAGUCCGCAUGCCAUGAAGAGG
....(((((.(((.(((((((.(.((....))..(((((((...........)))))))...............).))))))).))).)))))................. ( -32.30, z-score =  -2.22, R)
>droSec1.super_18 1078492 110 + 1342155
ACAAGGCUCCCACAGUCUCCGGCAGCAUGAGCAAGAAGUUUAACACCAAAAAGGACUUCAAAAGGAAGCAAAUCGGCGGAGAUAGUGAGAGUCCGCAUGCCAUGAAGAGG
....(((((.(((.(((((((.(.((....))..(((((((...........)))))))...............).))))))).))).)))))................. ( -32.30, z-score =  -2.22, R)
>consensus
ACAAGGCUCCCACAGUCUCCGGCAGCAUGAGCAAGAAGUUUAACACCAAAAAGGACUUCAAAAGGAAGCAAAUCGGCGGAGAUAGUGAGAGUCCGCAUGCCAUGAAGAGG
....(((((.(((.(((((((.(.((....))..(((((((...........)))))))...............).))))))).))).)))))................. (-29.25 = -29.70 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 21,157,313 – 21,157,423
Length 110
Sequences 3
Columns 110
Reading direction reverse
Mean pairwise identity 96.97
Shannon entropy 0.04174
G+C content 0.49697
Mean single sequence MFE -29.73
Consensus MFE -28.33
Energy contribution -29.33
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.20
Structure conservation index 0.95
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.15
SVM RNA-class probability 0.566475
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 21157313 110 - 23011544
CUUCUUCAUGGCAUGCGGACUAUCACUAUCUCCGCCGAUUUGCUUCCUUUUAAAGUCCUUUUUGGUGUUAAACUUCUUGCUCAUGCUGCCGGAGACCGUGGGCGCCUUGU
......((.(((..(((((...........))))).............(((((...((.....))..)))))......(((((((.....(....))))))))))).)). ( -23.40, z-score =   0.67, R)
>droSim1.chr2L 20740398 110 - 22036055
CCUCUUCAUGGCAUGCGGACUCUCACUAUCUCCGCCGAUUUGCUUCCUUUUGAAGUCCUUUUUGGUGUUAAACUUCUUGCUCAUGCUGCCGGAGACUGUGGGAGCCUUGU
..........(((...((.(((((((..((((((((((...(((((.....))))).....)))))............((....))....)))))..))))))))).))) ( -32.90, z-score =  -2.13, R)
>droSec1.super_18 1078492 110 - 1342155
CCUCUUCAUGGCAUGCGGACUCUCACUAUCUCCGCCGAUUUGCUUCCUUUUGAAGUCCUUUUUGGUGUUAAACUUCUUGCUCAUGCUGCCGGAGACUGUGGGAGCCUUGU
..........(((...((.(((((((..((((((((((...(((((.....))))).....)))))............((....))....)))))..))))))))).))) ( -32.90, z-score =  -2.13, R)
>consensus
CCUCUUCAUGGCAUGCGGACUCUCACUAUCUCCGCCGAUUUGCUUCCUUUUGAAGUCCUUUUUGGUGUUAAACUUCUUGCUCAUGCUGCCGGAGACUGUGGGAGCCUUGU
..........(((...((.(((((((..((((((((((...(((((.....))))).....)))))............((....))....)))))..))))))))).))) (-28.33 = -29.33 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:56:00 2011