Locus 3941

Sequence ID dm3.chr2R
Location 9,195,679 – 9,195,766
Length 87
Max. P 0.858850
window5398

overview

Window 8

Location 9,195,679 – 9,195,766
Length 87
Sequences 4
Columns 88
Reading direction reverse
Mean pairwise identity 85.47
Shannon entropy 0.23348
G+C content 0.40435
Mean single sequence MFE -18.43
Consensus MFE -13.56
Energy contribution -13.25
Covariance contribution -0.31
Combinations/Pair 1.17
Mean z-score -2.13
Structure conservation index 0.74
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.95
SVM RNA-class probability 0.858850
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 9195679 87 - 21146708
UGUGCAUUUUUUUUUUACUAUUUUACGUAUAUAAUUGUGGCAACACUGAUGUUGACACUCGCUUGUCGACGC-UUUCUCUUGACUGCC
(((((.....................))))).....(((....)))....(((((((......)))))))((-..((....))..)). ( -15.50, z-score =  -1.36, R)
>droSec1.super_1 6718714 84 - 14215200
----UUUUAUUUUUGUACUAUUUCACGUAUAUAAUUGUGGCAACACUGACGUUGACAGUCGCUUGUCGACGCUUUUCUCUUGACUGCC
----.........(((((........))))).....(((....)))...(((((((((....)))))))))................. ( -17.00, z-score =  -1.44, R)
>droYak2.chr2R 13375294 84 + 21139217
----AGUCAAUUUUUUACUGCUUUACAUAUAUAAUUGUGGCAGCACUGACGUUGACAGUCGCUUGUCGACGCUUUUCCCUUGACUGCC
----((((((....(((.(((((((((........))))).)))).)))(((((((((....)))))))))........))))))... ( -22.90, z-score =  -2.99, R)
>droEre2.scaffold_4845 5970140 84 + 22589142
----UGACCAUUUUUUACUACUUUACAUAUAUAAUUGUGGCAUCACUGACGUUGACAGUCGCCUGUCGACGCUUUUCUCUUGACUGCC
----....................(((........)))(((((((..(((((((((((....)))))))))....))...))).)))) ( -18.30, z-score =  -2.74, R)
>consensus
____UGUCAAUUUUUUACUACUUUACAUAUAUAAUUGUGGCAACACUGACGUUGACAGUCGCUUGUCGACGCUUUUCUCUUGACUGCC
........................(((........)))((((.......(((((((((....)))))))))....((....)).)))) (-13.56 = -13.25 +  -0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:19:41 2011