Locus 5475

Sequence ID dm3.chr2R
Location 20,605,291 – 20,605,379
Length 88
Max. P 0.970734
window7512

overview

Window 2

Location 20,605,291 – 20,605,379
Length 88
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 73.36
Shannon entropy 0.41882
G+C content 0.45042
Mean single sequence MFE -24.90
Consensus MFE -18.68
Energy contribution -20.00
Covariance contribution 1.32
Combinations/Pair 1.29
Mean z-score -1.80
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.84
SVM RNA-class probability 0.970734
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 20605291 88 + 21146708
------------------------AAACCGAAACUGAAUCUGACUGACAGCCAAAUGGCUUUGGUCUUUGGGCUCUUGUGGCACAAACAUGUUGCGAGGUAGAAUCAUUUUC
------------------------.....((((.(((.((((((..(.((((....)))))..))).....((.((((..(((......)))..))))))))).))).)))) ( -27.90, z-score =  -2.78, R)
>droSim1.chr2R 19061165 88 + 19596830
------------------------AAACCGAAACUGAAUCUGACUGACAGCCAAAUGGCUUUGGUCUUUGGGCUCUUGUGGCACAAACAUGUUGCAAGGUAGAAUCAUUUUC
------------------------.....((((.(((.((((((..(.((((....)))))..))).....((.((((..(((......)))..))))))))).))).)))) ( -28.20, z-score =  -2.94, R)
>droSec1.super_23 471882 88 + 989336
------------------------AAACCGAAACUGAAUCUGACUGACAGCCAAAUGGCUUUGGUCUUUGGGCUCUUGUGGCACAAACAUGUUGCAAGGUAGAAUCAUUUUC
------------------------.....((((.(((.((((((..(.((((....)))))..))).....((.((((..(((......)))..))))))))).))).)))) ( -28.20, z-score =  -2.94, R)
>droYak2.chr2R 20573280 112 + 21139217
AAAGUGAAUCCGAAACCGAAACUGAAUCUGAAUCUGAAUCUGACUGACAACCAAAUGGCUUUGGUCUCUGGGCUUAUGUGGCAAAAACAUGUUGCGUGGUACUAUCACUUUC
(((((((..((((.((((((...((.((.......)).))..........((....)).)))))).)).))(((.(((..(((......)))..))))))....))))))). ( -24.50, z-score =  -1.18, R)
>droAna3.scaffold_13266 7197001 78 + 19884421
----------------------------UGGACCUGAAACUGACUGACAGCCAGAUGGCUUUGGGCAUUGUGCC---GCAAAACAA-CAAGUUGCAUG--AGAACCGCCUCC
----------------------------.(((.(((...(((.....))).)))..(((...((...(..(((.---((.......-...)).)))..--)...)))))))) ( -15.70, z-score =   0.87, R)
>consensus
________________________AAACCGAAACUGAAUCUGACUGACAGCCAAAUGGCUUUGGUCUUUGGGCUCUUGUGGCACAAACAUGUUGCAAGGUAGAAUCAUUUUC
.............................((((.(((.((((((..(.((((....)))))..))).......((((((((((......)))))))))).))).))).)))) (-18.68 = -20.00 +   1.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:49:02 2011