Locus 11608

Sequence ID dm3.chr3R
Location 22,397,211 – 22,397,268
Length 57
Max. P 0.998642
window15947 window15948

overview

Window 7

Location 22,397,211 – 22,397,268
Length 57
Sequences 5
Columns 59
Reading direction forward
Mean pairwise identity 96.19
Shannon entropy 0.06540
G+C content 0.38686
Mean single sequence MFE -14.02
Consensus MFE -13.76
Energy contribution -13.76
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -3.75
Structure conservation index 0.98
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.37
SVM RNA-class probability 0.998459
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22397211 57 + 27905053
UGGUCAUUUACAUAUAAAUGACAAAACAAAAAGAGAGCAGCGAAUUGGAGA--AGCUGC
..((((((((....))))))))..............(((((..........--.))))) ( -13.90, z-score =  -4.10, R)
>droSim1.chr3R 22225159 57 + 27517382
UGGUCAUUUACAUAUAAAUGACAAAACAAAAAGAGAGCAGCGAACUGGCGA--AGCUGC
..((((((((....))))))))..............(((((..........--.))))) ( -13.90, z-score =  -3.12, R)
>droSec1.super_13 1172357 57 + 2104621
UGGUCAUUUACAUAUAAAUGACAAAACAAAAAGAGAGCAGCGAACUGGCGA--AGCUGC
..((((((((....))))))))..............(((((..........--.))))) ( -13.90, z-score =  -3.12, R)
>droYak2.chr3R 4728476 59 - 28832112
UAGUCAUUUACAUAUAAAUGACAAAACAAAAAGAGAGCAGCGAACUGGAGAGAAGCUGC
..((((((((....))))))))..............(((((...((....))..))))) ( -14.50, z-score =  -4.62, R)
>droEre2.scaffold_4820 4811496 57 - 10470090
UGGUCAUUUACAUAUAAAUGACAAAACAAAAAGAGAGCAGCGAACUGGAGA--AGCUGC
..((((((((....))))))))..............(((((..........--.))))) ( -13.90, z-score =  -3.80, R)
>consensus
UGGUCAUUUACAUAUAAAUGACAAAACAAAAAGAGAGCAGCGAACUGGAGA__AGCUGC
..((((((((....))))))))..............(((((.............))))) (-13.76 = -13.76 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 22,397,211 – 22,397,268
Length 57
Sequences 5
Columns 59
Reading direction reverse
Mean pairwise identity 96.19
Shannon entropy 0.06540
G+C content 0.38686
Mean single sequence MFE -13.90
Consensus MFE -13.60
Energy contribution -13.60
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -3.92
Structure conservation index 0.98
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.43
SVM RNA-class probability 0.998642
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22397211 57 - 27905053
GCAGCU--UCUCCAAUUCGCUGCUCUCUUUUUGUUUUGUCAUUUAUAUGUAAAUGACCA
(((((.--..........)))))..............((((((((....)))))))).. ( -13.70, z-score =  -4.63, R)
>droSim1.chr3R 22225159 57 - 27517382
GCAGCU--UCGCCAGUUCGCUGCUCUCUUUUUGUUUUGUCAUUUAUAUGUAAAUGACCA
(((((.--.(....)...)))))..............((((((((....)))))))).. ( -13.90, z-score =  -3.25, R)
>droSec1.super_13 1172357 57 - 2104621
GCAGCU--UCGCCAGUUCGCUGCUCUCUUUUUGUUUUGUCAUUUAUAUGUAAAUGACCA
(((((.--.(....)...)))))..............((((((((....)))))))).. ( -13.90, z-score =  -3.25, R)
>droYak2.chr3R 4728476 59 + 28832112
GCAGCUUCUCUCCAGUUCGCUGCUCUCUUUUUGUUUUGUCAUUUAUAUGUAAAUGACUA
(((((..((....))...)))))..............((((((((....)))))))).. ( -14.30, z-score =  -4.49, R)
>droEre2.scaffold_4820 4811496 57 + 10470090
GCAGCU--UCUCCAGUUCGCUGCUCUCUUUUUGUUUUGUCAUUUAUAUGUAAAUGACCA
(((((.--..........)))))..............((((((((....)))))))).. ( -13.70, z-score =  -3.99, R)
>consensus
GCAGCU__UCUCCAGUUCGCUGCUCUCUUUUUGUUUUGUCAUUUAUAUGUAAAUGACCA
(((((.............)))))..............((((((((....)))))))).. (-13.60 = -13.60 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:46:07 2011