Locus 7573

Sequence ID dm3.chr3L
Location 15,646,636 – 15,646,769
Length 133
Max. P 0.975055
window10423 window10424

overview

Window 3

Location 15,646,636 – 15,646,743
Length 107
Sequences 4
Columns 110
Reading direction reverse
Mean pairwise identity 84.33
Shannon entropy 0.24853
G+C content 0.52092
Mean single sequence MFE -38.20
Consensus MFE -30.20
Energy contribution -30.77
Covariance contribution 0.56
Combinations/Pair 1.19
Mean z-score -2.47
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.92
SVM RNA-class probability 0.975055
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 15646636 107 - 24543557
UUGGUCUUGGAUU--CGGCUGGGGAGCAGUGGUUUCGGUUCCGUAGCCG-GUUUUUUGGACCGGAGUUUGGCGUCGUGUCGUUGACAGCUAAGUGGUGAUAAUCGCUUUG
(((((((..((.(--((((((.(((((.(......).))))).))))))-)..))..)))))))...(((((((((......)))).)))))(((((....))))).... ( -41.30, z-score =  -3.26, R)
>droSim1.chr3L 14986093 107 - 22553184
UUGGUCUUGGAUU--UGGCUGUGGAGCAGUGGUUUCAGUUCCGUAGCCG-GUUUUUUGGACCGGAGUUUGGCGUCGUGUCGUUGACAGCUAAGUGGUGAUAAUCGCUUUG
(((((((..((.(--((((((((((((..........))))))))))))-)..))..)))))))...(((((((((......)))).)))))(((((....))))).... ( -37.70, z-score =  -2.85, R)
>droSec1.super_0 7758978 108 - 21120651
UUGGUCUUGGAUU--CGGCUGUGGAGCAGUGGUUUCAGUUCCGUAGCCGUUUUUUUUGGACCGGAGUUUGGCGUCGUGUCGUUGACAGCUAAGUGGUGAUAAUCGCUUUG
(((((((.(((..--((((((((((((..........))))))))))))..)))...)))))))...(((((((((......)))).)))))(((((....))))).... ( -39.60, z-score =  -3.45, R)
>droAna3.scaffold_13337 11784874 108 + 23293914
GUGGUCCGGCACUGGUGGAGAGUGGGUCUCGGUUUCGAUGUCGAUGUC--GGUCUUUGGAACGGAGUUUGGCGUCGUGUCGCUGACAGCUAAGUGGUGAUAAUCGCUUUU
((.(((((((((.....((((.((.....)).))))((((((((..((--(.((....)).)))...))))))))))))))..))).)).(((((((....))))))).. ( -34.20, z-score =  -0.32, R)
>consensus
UUGGUCUUGGAUU__CGGCUGGGGAGCAGUGGUUUCAGUUCCGUAGCCG_GUUUUUUGGACCGGAGUUUGGCGUCGUGUCGUUGACAGCUAAGUGGUGAUAAUCGCUUUG
.((((((........((((((((((((..........))))))))))))........))))))....(((((((((......)))).)))))(((((....))))).... (-30.20 = -30.77 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 15,646,670 – 15,646,769
Length 99
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 77.97
Shannon entropy 0.37345
G+C content 0.53953
Mean single sequence MFE -35.66
Consensus MFE -23.74
Energy contribution -25.14
Covariance contribution 1.40
Combinations/Pair 1.32
Mean z-score -1.77
Structure conservation index 0.67
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.01
SVM RNA-class probability 0.872269
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 15646670 99 - 24543557
------GUCUGGGACUUGGAAACAUUUUCGACUUGGUCUUGGAUU--CGGCUGGGGAGCAGUGGUUUCGGUUCCGUAGCCG-GUUUUUUGGACCGGAGUUUGGCGUCG
------(((..(((..((....))..)))((((((((((..((.(--((((((.(((((.(......).))))).))))))-)..))..))))).))))).))).... ( -38.60, z-score =  -2.49, R)
>droSim1.chr3L 14986127 99 - 22553184
------GUCUGGGACUUGGAAACAUUUUCGACUUGGUCUUGGAUU--UGGCUGUGGAGCAGUGGUUUCAGUUCCGUAGCCG-GUUUUUUGGACCGGAGUUUGGCGUCG
------(((..(((..((....))..)))((((((((((..((.(--((((((((((((..........))))))))))))-)..))..))))).))))).))).... ( -35.00, z-score =  -2.10, R)
>droSec1.super_0 7759012 100 - 21120651
------GUCUGGGACUUGGAAACAUUUUCGACUUGGUCUUGGAUU--CGGCUGUGGAGCAGUGGUUUCAGUUCCGUAGCCGUUUUUUUUGGACCGGAGUUUGGCGUCG
------(((..(((..((....))..)))((((((((((.(((..--((((((((((((..........))))))))))))..)))...))))).))))).))).... ( -36.90, z-score =  -2.70, R)
>droEre2.scaffold_4784 17904427 104 - 25762168
GUCUUGGACUUGGACUUGGAAACAUUUCGGACUUGGUCUUGGAUU--UGGCUGUGGAGCAUUGGCUUCGGUU-CGCAGCCG-GUUUCUUGGCCCGGAGUUUGGCGUCG
......((((..((((((....)).......((.((((..(((.(--((((((((((.(.........).))-))))))))-).)))..)))).))))))..).))). ( -37.70, z-score =  -1.59, R)
>droAna3.scaffold_13337 11784908 95 + 23293914
------GUCUUGGACUUGG-----CUCUGGAAGUGGUCCGGCACUGGUGGAGAGUGGGUCUCGGUUUCGAUGUCGAUGUC--GGUCUUUGGAACGGAGUUUGGCGUCG
------..((.(((((((.-----(((((..((((......))))..)))))..))))))).))...(((((((((..((--(.((....)).)))...))))))))) ( -30.10, z-score =   0.05, R)
>consensus
______GUCUGGGACUUGGAAACAUUUUCGACUUGGUCUUGGAUU__UGGCUGUGGAGCAGUGGUUUCGGUUCCGUAGCCG_GUUUUUUGGACCGGAGUUUGGCGUCG
............(((.((....))..((..(((((((((.(((....((((((((((((..........))))))))))))....))).))))).))))..)).))). (-23.74 = -25.14 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:29:26 2011