Locus 11482

Sequence ID dm3.chr3R
Location 21,510,646 – 21,510,796
Length 150
Max. P 0.853869
window15782 window15783

overview

Window 2

Location 21,510,646 – 21,510,766
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.17
Shannon entropy 0.11745
G+C content 0.42667
Mean single sequence MFE -24.54
Consensus MFE -19.36
Energy contribution -19.36
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.93
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.13
SVM RNA-class probability 0.559327
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 21510646 120 + 27905053
UAGCCUGUACAUUGCACGCCACUCGCAUUCCUACCGCAGCGUAGAAAUUUAUAUUUUGGCUAAAAUUUAACAAAAUUUACACGCGGAACACACCACUCACCGGAAACGGGCGAAAAGAAA
..((.(((.....))).))...((((.......(((((((...(((((....))))).))).((((((....))))))....)))).............(((....)))))))....... ( -27.10, z-score =  -1.96, R)
>droSim1.chr3R 21340092 120 + 27517382
UAGCCUACACAUUGCACACCACUCGCAGUCCUACCACAGUGUAGAAAAUUAUAUUUUGGCUAAAAUUUAACAAAAUUUACACGCGGAACACACCACUCACCGGAAACGGGCGAAAAGAAA
(((((.....(((((.........))))).((((......)))).............)))))((((((....))))))...(((((......)).....(((....))))))........ ( -24.80, z-score =  -2.43, R)
>droSec1.super_13 297422 120 + 2104621
UAGCCUACAUAUUGCACACCACUCGCAGUCCUACCGCAGCGCAGAAAAUUAUAUUUUGGCUAAAAUUUAACAAAAUUUACACGCGGAACACACCACUCACCGGAAACGGGCGAAAAGAAA
......................((((.......(((((((.(((((.......)))))))).((((((....))))))....)))).............(((....)))))))....... ( -26.00, z-score =  -2.59, R)
>droYak2.chr3R 3869866 120 - 28832112
UAGCCUUUACAGUGCACACCACUCGCAGUCCUACCGAAUCGCAGAAAAUAAUAUUUUGGCUAAAAUUUAACUAAAAUUACACGCGGAACACACCACUCACCGGAAACGGGCGAAAAGAAA
(((((.....((((.....)))).((..((.....))...))...............)))))...................(((((......)).....(((....))))))........ ( -22.40, z-score =  -1.32, R)
>droEre2.scaffold_4820 3938843 120 - 10470090
UAGCCUUUACAGUGCACACCACUCGCAGUCCUACCGAAUCGCAGAAAAAUAUAUUUUGGCUAAAAUUUAACUAAAAUUACACGCGGAACACACCACUCACCGGAAACGGGCGAAAAGAAA
(((((.....((((.....)))).((..((.....))...))...............)))))...................(((((......)).....(((....))))))........ ( -22.40, z-score =  -1.32, R)
>consensus
UAGCCUAUACAUUGCACACCACUCGCAGUCCUACCGCAGCGCAGAAAAUUAUAUUUUGGCUAAAAUUUAACAAAAUUUACACGCGGAACACACCACUCACCGGAAACGGGCGAAAAGAAA
(((((.......(((.........)))................((((......)))))))))...................(((((......)).....(((....))))))........ (-19.36 = -19.36 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 21,510,676 – 21,510,796
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.83
Shannon entropy 0.08858
G+C content 0.40833
Mean single sequence MFE -23.34
Consensus MFE -20.28
Energy contribution -19.72
Covariance contribution -0.56
Combinations/Pair 1.12
Mean z-score -2.05
Structure conservation index 0.87
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.92
SVM RNA-class probability 0.853869
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3R 21510676 120 + 27905053
CUACCGCAGCGUAGAAAUUUAUAUUUUGGCUAAAAUUUAACAAAAUUUACACGCGGAACACACCACUCACCGGAAACGGGCGAAAAGAAAAGAAGGGGAGAUUUUAGAGAUGGCAAAACG
...(((((((...(((((....))))).))).((((((....))))))....))))......((((((.(((....)))............((((......)))).))).)))....... ( -23.90, z-score =  -1.98, R)
>droSim1.chr3R 21340122 120 + 27517382
CUACCACAGUGUAGAAAAUUAUAUUUUGGCUAAAAUUUAACAAAAUUUACACGCGGAACACACCACUCACCGGAAACGGGCGAAAAGAAAAGAAGGGGAGAUUUUAGAGAUGGCAAAACG
...(((.(((((((....))))))).)))(((((((((..(....(((.(.(((((......)).....(((....))))))....).)))....)..)))))))))............. ( -24.20, z-score =  -2.61, R)
>droSec1.super_13 297452 120 + 2104621
CUACCGCAGCGCAGAAAAUUAUAUUUUGGCUAAAAUUUAACAAAAUUUACACGCGGAACACACCACUCACCGGAAACGGGCGAAAAGAAAAGAAGGGGAGAUUUUAGAGAUGGCAAAACG
...(((((((.(((((.......)))))))).((((((....))))))....))))......((((((.(((....)))............((((......)))).))).)))....... ( -25.60, z-score =  -2.74, R)
>droYak2.chr3R 3869896 120 - 28832112
CUACCGAAUCGCAGAAAAUAAUAUUUUGGCUAAAAUUUAACUAAAAUUACACGCGGAACACACCACUCACCGGAAACGGGCGAAAAGAAAAGAAGGGGAGAUUUUAGAGAUGGCAAGACG
...(((..((((.((((......)))).))((((((((..((.........(((((......)).....(((....))))))............))..))))))))))..)))....... ( -21.70, z-score =  -1.58, R)
>droEre2.scaffold_4820 3938873 120 - 10470090
CUACCGAAUCGCAGAAAAAUAUAUUUUGGCUAAAAUUUAACUAAAAUUACACGCGGAACACACCACUCACCGGAAACGGGCGAAAAGAAAAGAAGGGGAGAUUUUGGAGAUGGCACAACG
...(((..((.(((((......(((((((.((.....)).)))))))....(((((......)).....(((....))))))...................)))))))..)))....... ( -21.30, z-score =  -1.31, R)
>consensus
CUACCGCAGCGCAGAAAAUUAUAUUUUGGCUAAAAUUUAACAAAAUUUACACGCGGAACACACCACUCACCGGAAACGGGCGAAAAGAAAAGAAGGGGAGAUUUUAGAGAUGGCAAAACG
...(((.....(((((.......))))).(((((((((..(..........(((((......)).....(((....)))))).............)..)))))))))...)))....... (-20.28 = -19.72 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:43:49 2011