Locus 6852

Sequence ID dm3.chr3L
Location 10,282,378 – 10,282,476
Length 98
Max. P 0.930243
window9420 window9421

overview

Window 0

Location 10,282,378 – 10,282,476
Length 98
Sequences 3
Columns 98
Reading direction forward
Mean pairwise identity 98.64
Shannon entropy 0.01874
G+C content 0.44218
Mean single sequence MFE -22.30
Consensus MFE -21.63
Energy contribution -21.97
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.55
Structure conservation index 0.97
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.86
SVM RNA-class probability 0.838572
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 10282378 98 + 24543557
CCAGCGUCGCAGUUGCUGCACUGCACUUGCCGCUGCUGGAAAAACUUCAUUUUGGGUAAUUUUUCUCGCCCGUCUUUGUUUCUCAUUUUCAUUUUCAU
(((((((.((((.(((......))).)))).)).)))))..((((.......((((..(......)..)))).....))))................. ( -23.80, z-score =  -1.87, R)
>droSim1.chr3L 9671582 98 + 22553184
CCAGCGUCGCAGUUGCUGCACUGCACUUGCCGCUGCUGGAAAAACUUCAUUUUGGGUAAUUUUUCUCGCCCGUCUUUGUUUCUCAUUUUCAUUUUCAU
(((((((.((((.(((......))).)))).)).)))))..((((.......((((..(......)..)))).....))))................. ( -23.80, z-score =  -1.87, R)
>droSec1.super_0 2496577 98 + 21120651
CCAGCGUCGCAGUUACUGCACUGCACUUGCCGCUGCUGGAAAAACUUUAUUUUGGGUAAUUUUUCUCGCCCGUCUUUGUUUCUCAUUUUCAUUUUCAU
((((((.(((((...))))...((....)).).))))))..((((.......((((..(......)..)))).....))))................. ( -19.30, z-score =  -0.89, R)
>consensus
CCAGCGUCGCAGUUGCUGCACUGCACUUGCCGCUGCUGGAAAAACUUCAUUUUGGGUAAUUUUUCUCGCCCGUCUUUGUUUCUCAUUUUCAUUUUCAU
(((((((.((((.(((......))).)))).)).)))))..((((.......((((..(......)..)))).....))))................. (-21.63 = -21.97 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 10,282,378 – 10,282,476
Length 98
Sequences 3
Columns 98
Reading direction reverse
Mean pairwise identity 98.64
Shannon entropy 0.01874
G+C content 0.44218
Mean single sequence MFE -24.64
Consensus MFE -24.64
Energy contribution -24.64
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.64
Structure conservation index 1.00
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.35
SVM RNA-class probability 0.930243
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 10282378 98 - 24543557
AUGAAAAUGAAAAUGAGAAACAAAGACGGGCGAGAAAAAUUACCCAAAAUGAAGUUUUUCCAGCAGCGGCAAGUGCAGUGCAGCAACUGCGACGCUGG
..............(((((((......(((..(......)..)))........)))))))...(((((.....((((((......)))))).))))). ( -24.64, z-score =  -1.46, R)
>droSim1.chr3L 9671582 98 - 22553184
AUGAAAAUGAAAAUGAGAAACAAAGACGGGCGAGAAAAAUUACCCAAAAUGAAGUUUUUCCAGCAGCGGCAAGUGCAGUGCAGCAACUGCGACGCUGG
..............(((((((......(((..(......)..)))........)))))))...(((((.....((((((......)))))).))))). ( -24.64, z-score =  -1.46, R)
>droSec1.super_0 2496577 98 - 21120651
AUGAAAAUGAAAAUGAGAAACAAAGACGGGCGAGAAAAAUUACCCAAAAUAAAGUUUUUCCAGCAGCGGCAAGUGCAGUGCAGUAACUGCGACGCUGG
..............(((((((......(((..(......)..)))........)))))))...(((((.....((((((......)))))).))))). ( -24.64, z-score =  -2.02, R)
>consensus
AUGAAAAUGAAAAUGAGAAACAAAGACGGGCGAGAAAAAUUACCCAAAAUGAAGUUUUUCCAGCAGCGGCAAGUGCAGUGCAGCAACUGCGACGCUGG
..............(((((((......(((..(......)..)))........)))))))...(((((.....((((((......)))))).))))). (-24.64 = -24.64 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:15:36 2011