Locus 12874

Sequence ID dm3.chrX
Location 2,880,258 – 2,880,352
Length 94
Max. P 0.700443
window17701

overview

Window 1

Location 2,880,258 – 2,880,352
Length 94
Sequences 4
Columns 99
Reading direction forward
Mean pairwise identity 82.87
Shannon entropy 0.26490
G+C content 0.30720
Mean single sequence MFE -15.68
Consensus MFE -12.35
Energy contribution -12.16
Covariance contribution -0.19
Combinations/Pair 1.22
Mean z-score -1.53
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.45
SVM RNA-class probability 0.700443
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 2880258 94 + 22422827
CGAUGAGAGGAAAUAAUUAUUUCGCCAUCAAUAAUUUUCAAUUUAAGCUGACACA-----GAAAAAAAAAACAGGCUAGCUUGAAUUCUCAUCUUUACU
.(((((((((((((....)))))..................(((((((((.(...-----..............).)))))))))))))))))...... ( -18.83, z-score =  -2.41, R)
>droSim1.chrX 2022746 86 + 17042790
CGAUGAGAGGAAAUCAUUAUUUCGCCAUCAAUAAUUUUCAAUUUUAGCUGACA------------AAAAA-CAGGCUAGCUCGAAUUCUCAUCUUUACU
.((((((((((((..((((((........))))))))))..(((.(((((.(.------------.....-..)..))))).)))))))))))...... ( -16.50, z-score =  -1.85, R)
>droSec1.super_10 2621257 87 + 3036183
CGAUGAGAGGAAAUCAUUAUUUCGCCAUCAAUAAUUUUAAAUUUUAGCUGACA------------AAAAAACAGGCUAGCUUGAAUUCUCAUCUUUACU
.(((((((((((((....)))))............(((((...((((((....------------........)))))).)))))))))))))...... ( -15.90, z-score =  -1.58, R)
>droEre2.scaffold_4690 305940 99 + 18748788
CGAUAAGAGGAAAUAAUUAUUUCACCAUCAAUAAGUUUCAAUUGAAACUGACAGACCACCAAAAAAAAAAAAAAGUUUGCUUGAAUUUUCAUUUUUACG
.(((..(..(((((....)))))..))))....((((((....))))))...............(((((..(((((((....)))))))..)))))... ( -11.50, z-score =  -0.29, R)
>consensus
CGAUGAGAGGAAAUAAUUAUUUCGCCAUCAAUAAUUUUCAAUUUAAGCUGACA____________AAAAAACAGGCUAGCUUGAAUUCUCAUCUUUACU
.(((((((((((((....))))).............(((((...(((((........................)))))..)))))))))))))...... (-12.35 = -12.16 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:10:27 2011