Locus 3931

Sequence ID dm3.chr2R
Location 9,157,281 – 9,157,371
Length 90
Max. P 0.965532
window5385

overview

Window 5

Location 9,157,281 – 9,157,371
Length 90
Sequences 4
Columns 90
Reading direction reverse
Mean pairwise identity 74.30
Shannon entropy 0.38845
G+C content 0.35302
Mean single sequence MFE -17.62
Consensus MFE -10.04
Energy contribution -11.10
Covariance contribution 1.06
Combinations/Pair 1.09
Mean z-score -2.45
Structure conservation index 0.57
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.75
SVM RNA-class probability 0.965532
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 9157281 90 - 21146708
AAACAAGAAACUAGAAAUAGAGAGAAAAAACAGGGUGUCGGCUAUUGCUAUACCCUGGAAAACAUAAUUGGUAUAAAAUCACUGGCACAU
...(((....(((....)))..........((((((((.(((....)))))))))))..........))).................... ( -19.60, z-score =  -2.77, R)
>droYak2.chr2R 13336507 76 + 21139217
-------AAAAUGGAGAUACAC--AAAAAGGGAAAUGUCGCCUUUUGCUAUACCCUGGAAAGCAUUGUUGGUAUACUAGCUGAGC-----
-------.....((..(((...--.((((((((....)).))))))..)))..))......((...(((((....)))))...))----- ( -12.30, z-score =   0.77, R)
>droSec1.super_1 6679857 74 - 14215200
-------AAACUAGAAAUAUACA-AAAAAACAGGGUGUCGGCUAUUGCUAUACCCUGGAAAACAUUAUUGGUAUAAAAUCAU--------
-------..........(((((.-......((((((((.(((....))))))))))).....((....))))))).......-------- ( -19.30, z-score =  -4.23, R)
>droSim1.chr2R 7615666 74 - 19596830
-------AAACUAGAGAUAUACA-AAAAAACAGGGUGUCGGCUAUUGCUAUACCCUGGAAAACAUAAUUGGUAUAAAGUCAU--------
-------..........(((((.-......((((((((.(((....))))))))))).....((....))))))).......-------- ( -19.30, z-score =  -3.56, R)
>consensus
_______AAACUAGAAAUAUACA_AAAAAACAGGGUGUCGGCUAUUGCUAUACCCUGGAAAACAUAAUUGGUAUAAAAUCAU________
..............................((((((((.(((....)))))))))))................................. (-10.04 = -11.10 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:19:30 2011