Locus 12929

Sequence ID dm3.chrX
Location 3,351,842 – 3,351,908
Length 66
Max. P 0.589975
window17778

overview

Window 8

Location 3,351,842 – 3,351,908
Length 66
Sequences 6
Columns 85
Reading direction forward
Mean pairwise identity 69.53
Shannon entropy 0.52737
G+C content 0.50159
Mean single sequence MFE -21.22
Consensus MFE -12.75
Energy contribution -13.62
Covariance contribution 0.86
Combinations/Pair 1.17
Mean z-score -0.82
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.20
SVM RNA-class probability 0.589975
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 3351842 66 + 22422827
--------AUACCAUGA-----------UGGGUUUCUCAGUGCUCUAUUUGGCAAGUGGAGCCGCUGAAGUGGCCACCGGCUCAU
--------.........-----------..(((..((((((((((((((.....))))))).))))).))..))).......... ( -20.10, z-score =  -0.26, R)
>droYak2.chrX 16741472 85 - 21770863
AUCCGACAAUUUUAUUUGAGGCCAUGAUGGGUUUUUUCAGUGCUUUAUUUGGCAAGUGGAGCCGCUGAAGGGUCCACCGACUCAU
................((((((((....((((.........))))....))))..(((((.((......)).)))))...)))). ( -23.90, z-score =  -0.85, R)
>droEre2.scaffold_4690 761122 75 + 18748788
-AUCACAAACUUUACUUGA---------UGGGUUUCUCAGUGCUUUAUUUGGCAAGUGGAGCCGCUGAAGGGGCCACCGGCUCAU
-..................---------..(((..((((((((((((((.....))))))).))))).))..))).......... ( -21.00, z-score =  -0.37, R)
>droSec1.super_4 2868511 67 - 6179234
--------AUACCAAAUG----------CGGCUUUCUCAGUGCUUUAUUUGGCAAGUGGAGCCGCUGAAGGGGCCACCGGCUCAU
--------.........(----------(((((((.....((((......))))...)))))))).....(((((...))))).. ( -23.30, z-score =  -1.03, R)
>droSim1.chrX 2429044 67 + 17042790
--------AUCCCAAAUG----------CGGCUUUCUCAGUGCUUUAUUUGGCAAGUGGAGCCGCUGAAGGGGCCACCGGCUCAU
--------..(((....(----------(((((((.....((((......))))...))))))))....)))(((...))).... ( -24.40, z-score =  -1.06, R)
>droAna3.scaffold_13334 22516 64 + 1562580
-------UACCAUAAUU--------------UUCUCUCAGUGUCCUACCGUUCAUGUUGAAUCGGUAAAGAGGCCAGAGGCUCAU
-------..........--------------.(((((..((.((.((((((((.....))).)))))..)).)).)))))..... ( -14.60, z-score =  -1.33, R)
>consensus
________AUACCAAUUG__________CGGCUUUCUCAGUGCUUUAUUUGGCAAGUGGAGCCGCUGAAGGGGCCACCGGCUCAU
....................................(((((((((((((.....))))))).))))))..(((((...))))).. (-12.75 = -13.62 +   0.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:11:30 2011