Locus 451

Sequence ID dm3.chr2L
Location 3,142,079 – 3,142,179
Length 100
Max. P 0.742723
window613

overview

Window 3

Location 3,142,079 – 3,142,179
Length 100
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 79.67
Shannon entropy 0.33405
G+C content 0.37574
Mean single sequence MFE -21.77
Consensus MFE -11.45
Energy contribution -12.57
Covariance contribution 1.13
Combinations/Pair 1.10
Mean z-score -2.25
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.56
SVM RNA-class probability 0.742723
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 3142079 100 + 23011544
AGGGAAUAGUAUACAUAUAUAUAUAUGAGAAGAUUCUGGGGAAACGUAGAGGAGUGGAUAAGCUCUUCGUAUUGAAACAGAUGCUACAAACUGGAAAACU
.............(((((....)))))......(((..((....)((((((((((......)))))))(((((......))))))))...)..))).... ( -22.40, z-score =  -2.70, R)
>droSim1.chr2L 3083169 100 + 22036055
UGGGAAUAGUAUACAUAUACAUAUAUAUAGGGGUUCUGUGGAAACGUAGAGGAGUGGGUAAGCUCUUCGUUUGGAAACAGAUGCUACAAACUGGAAAAAC
........((((....))))...........((((.(((((.......(((((((......)))))))(((((....))))).)))))))))........ ( -23.50, z-score =  -2.56, R)
>droSec1.super_5 1293758 94 + 5866729
UGGGAAUAGUACACAUAAAUA------AAGGGGUUCUAUGGAAACGUAGAGGAGUGAAUAAGCUCUUCGUUUGGAAACAGAUGCUACAAACUGGAAAAAC
......((((...........------.......((((((....))))))(((((......))))).((((((....))))))......))))....... ( -21.80, z-score =  -3.16, R)
>droEre2.scaffold_4929 3185934 100 + 26641161
UGGGAAUAGUAUACAUAUGUACAUAUAUAUAUCUAUAAAGGGGUUCUGGAGCAGUGGAUAAGCUCUCCGUAUGGAAACAGAUGCUACAAACUGGAAAAAC
..(((((..((((.(((((((....))))))).)))).....)))))((((.(((......)))))))(((((....))..)))................ ( -19.40, z-score =  -0.59, R)
>consensus
UGGGAAUAGUAUACAUAUAUAUAUAUAAAGAGGUUCUAUGGAAACGUAGAGGAGUGGAUAAGCUCUUCGUAUGGAAACAGAUGCUACAAACUGGAAAAAC
......((((.............................(....)((((((((((......))))))((((((....))))))))))..))))....... (-11.45 = -12.57 +   1.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:13:10 2011