Locus 3972

Sequence ID	dm3.chr2R
Location	9,367,314 – 9,367,404
Length	90
Max. P	0.559189

overview

Window 6

Location	9,367,314 – 9,367,404
Length	90
Sequences	4
Columns	90
Reading direction	reverse
Mean pairwise identity	89.27
Shannon entropy	0.17075
G+C content	0.57006
Mean single sequence MFE	-25.15
Consensus MFE	-23.74
Energy contribution	-23.42
Covariance contribution	-0.31
Combinations/Pair	1.12
Mean z-score	-0.93
Structure conservation index	0.94
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.13
SVM RNA-class probability	0.559189
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 9367314 90 - 21146708
CAGUUUAGUAGUAAUGGGAGCACUUCAAAGGCGACGGCGCCUUUGACGCCACAUCCACCGCCCACUGACGGCAUCCUGCCAGCCAGUCAU
((((...(..((.(((.(.((...(((((((((....))))))))).))).)))..))..)..))))..(((.....))).......... ( -25.80, z-score =  -0.61, R)
>droSim1.chr2R 7816221 81 - 19596830
CAGUUUAGUAGUAAUGGGAGCACUUCAAAGGCGACGGCGCCUUUGACGCCACAUCCACCGCCCACUGACGGCAUCCUGCCA---------
((((...(..((.(((.(.((...(((((((((....))))))))).))).)))..))..)..))))..(((.....))).--------- ( -25.80, z-score =  -1.34, R)
>droSec1.super_1 6886601 81 - 14215200
CAGUUUAGUAGUAAUGGGAGCACUUCAAAGGCGAUGGCUCCUUUGACGCCACAUCCACCGCCCACUGACGGCAUCCUGCCA---------
((((...(..((.(((.(.((...(((((((.(....).))))))).))).)))..))..)..))))..(((.....))).--------- ( -20.00, z-score =   0.31, R)
>droYak2.chr2R 13549383 90 + 21139217
CAGUUUAGUAGUAAUGGGAGUACUUCAAAGGCGACGGCGCCUUUGACGCCACACCCACCGCCCACUGACGGCAUCCAGUCAUCCUGCCAU
..(((.(((.((..((((.((.(.(((((((((....))))))))).)..)).))))..))..))))))((((...........)))).. ( -29.00, z-score =  -2.08, R)
>consensus
CAGUUUAGUAGUAAUGGGAGCACUUCAAAGGCGACGGCGCCUUUGACGCCACAUCCACCGCCCACUGACGGCAUCCUGCCA_________
..(((.(((.((..((((.((...(((((((((....))))))))).))....))))..))..))))))(((.....))).......... (-23.74 = -23.42 +  -0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:20:12 2011