Locus 6675

Sequence ID dm3.chr3L
Location 8,743,485 – 8,743,580
Length 95
Max. P 0.921598
window9189

overview

Window 9

Location 8,743,485 – 8,743,580
Length 95
Sequences 8
Columns 101
Reading direction forward
Mean pairwise identity 80.59
Shannon entropy 0.38067
G+C content 0.39611
Mean single sequence MFE -17.76
Consensus MFE -11.24
Energy contribution -11.79
Covariance contribution 0.55
Combinations/Pair 1.10
Mean z-score -2.02
Structure conservation index 0.63
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.29
SVM RNA-class probability 0.921598
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 8743485 95 + 24543557
AGAUUGCAACACGCAG------UGAGGUUGGUUAAGAACAACAGCACAAGGCGGCGGCAAAAUACAAUAUUUAAAUUAAAUAUUAGCACACCAAAACGGAG
...((((..(.(((.(------((..((((........))))..)))...))))..)))).....((((((((...))))))))......((.....)).. ( -21.00, z-score =  -3.29, R)
>droSim1.chr3L 8187061 95 + 22553184
AGAUUGCAACACGCAG------UGAGGUUGGUUAAGAACAACAGCAAAAGGCGGCGGCAAAAUACAAUAUUUAAAUUAAAUAUUAGCACACCAAAACGGAG
...((((..(.(((..------((..((((........))))..))....))))..)))).....((((((((...))))))))......((.....)).. ( -18.90, z-score =  -2.47, R)
>droSec1.super_0 1021015 95 + 21120651
ACAUUGCAACACGCAG------UGAGGUUGGUUAAGAACAACAGCAAAAGGCGGCGGCAAAAUACAAUAUUUAAAUUAAAUAUUAGCACACCAAAGCGGAG
...((((..(.(((..------((..((((........))))..))....))))..)))).....((((((((...)))))))).((........)).... ( -19.30, z-score =  -2.07, R)
>droYak2.chr3L 21030839 92 - 24197627
AGAUUGCAACACGCAG------UGAGGUUGGUUCU---UAACAGCAAAAGGCGGCGGCAAAAUACAAUAUUUAAAUUAAAUAUUAGCACACCAAAACGGAG
...((((..(.(((..------(...((((.....---...))))..)..))))..)))).....((((((((...))))))))......((.....)).. ( -17.00, z-score =  -1.22, R)
>droEre2.scaffold_4784 20464414 95 - 25762168
AGAUUGCAACACGCAG------UGAGGUUGGUUAAGAACAACAGCAACAGGCGGCGGCAAAAUACAAUAUUUAAAUUAAAUAUUAGCACACCAAAACGGAG
...((((..(.(((..------((..((((........))))..))....))))..)))).....((((((((...))))))))......((.....)).. ( -18.90, z-score =  -2.40, R)
>droAna3.scaffold_13337 15396678 91 - 23293914
AGAUUGCAACACGCCGCAAGAUUGGGGCUGGUUAAGAACAGCGGCUAU-GCCAGCGGAGAAAUACAAUAUUUAAAUUAAAUAUUAGCACACC---------
....(((....(.((((.........((((........))))(((...-))).)))).)......((((((((...)))))))).)))....--------- ( -22.00, z-score =  -1.78, R)
>dp4.chrXR_group8 369710 79 - 9212921
AGAUUGCAACACACAG------UGAGGCUGGUUAAGAACAGCAGCA----------------UACAAUAUUUAAAUUAUAUAUUAGCACACAGAACGCGAG
...((((........(------((..((((........))))..))----------------)..(((((.........)))))............)))). ( -12.50, z-score =  -1.45, R)
>droPer1.super_50 363301 79 + 557249
AGAUUGCAACACACAG------UGAGGCUGGUUAAGAACAGCAGCA----------------UACAAUAUUUAAAUUAUAUAUUAGCACACAGAACGCGAG
...((((........(------((..((((........))))..))----------------)..(((((.........)))))............)))). ( -12.50, z-score =  -1.45, R)
>consensus
AGAUUGCAACACGCAG______UGAGGUUGGUUAAGAACAACAGCAAAAGGCGGCGGCAAAAUACAAUAUUUAAAUUAAAUAUUAGCACACCAAAACGGAG
....(((....(((........((..((((........))))..)).......))).........((((((((...)))))))).)))............. (-11.24 = -11.79 +   0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:12:20 2011