Locus 3012

Sequence ID	dm3.chr2R
Location	1,343,197 – 1,343,307
Length	110
Max. P	0.913272

overview

Window 4

Location	1,343,197 – 1,343,307
Length	110
Sequences	3
Columns	110
Reading direction	reverse
Mean pairwise identity	57.19
Shannon entropy	0.59260
G+C content	0.30686
Mean single sequence MFE	-14.52
Consensus MFE	-7.43
Energy contribution	-6.77
Covariance contribution	-0.66
Combinations/Pair	1.22
Mean z-score	-1.37
Structure conservation index	0.51
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	1.23
SVM RNA-class probability	0.913272
Prediction	RNA
WARNING	Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr2R 1343197 110 - 21146708
AUUUCGCUGAAACCAGUUAAACAGAAUCGUUCGAAAUCGCUACAAAAAAAUCGUCUUUCUUUUAUCAAAAAUAGCUAAAAAAGAUUUUUUUUUUAGCUCAAAAACGACGU
.(((.((((....)))).))).....(((((.......((((.(((((((..((((((..((((.(.......).))))))))))))))))).)))).....)))))... ( -15.00, z-score =  -0.08, R)
>droEre2.scaffold_4929 22653860 91 - 26641161
--UUCGCUGAGCCCAAUC-AACGUAAUUGUUCAGAAUCGCUUU-------UUGUUGCUC-------AAAAAUAGCUAAUAAAA--AAGCUUAUUAGUUCAACAAUGGUAU
--....((((((......-.........))))))....(((..-------((((((...-------......(((((((((..--....))))))))))))))).))).. ( -15.96, z-score =  -1.11, R)
>droYak2.chr2L_random 108378 90 - 4064425
AGUUCGAACCAACAAAUGAAACAUAAUUAUUUGAAAUCGCUACA--CACAUCAUUUCUC------AAGAUACAGCUAAUAAAA--CAUCUUAUUAGCUCA----------
.((.(((.....(((((((.......)))))))...)))..)).--.............------.......(((((((((..--....)))))))))..---------- ( -12.60, z-score =  -2.93, R)
>consensus
A_UUCGCUGAAACCAAUCAAACAUAAUUGUUCGAAAUCGCUACA___A_AUCGUUUCUC_______AAAAAUAGCUAAUAAAA__AAUCUUAUUAGCUCAA_AA_G___U
........................................................................(((((((((........)))))))))............ ( -7.43 =  -6.77 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:02:00 2011