Locus 13243

Sequence ID dm3.chrX
Location 5,280,522 – 5,280,625
Length 103
Max. P 0.935424
window18221 window18222

overview

Window 1

Location 5,280,522 – 5,280,623
Length 101
Sequences 3
Columns 101
Reading direction reverse
Mean pairwise identity 89.00
Shannon entropy 0.15207
G+C content 0.37491
Mean single sequence MFE -25.33
Consensus MFE -22.17
Energy contribution -21.07
Covariance contribution -1.10
Combinations/Pair 1.17
Mean z-score -2.13
Structure conservation index 0.87
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.40
SVM RNA-class probability 0.935424
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 5280522 101 - 22422827
AAAAAAAUGGAGUUGGUUUUCUCAGUGUAUGACCGGUGUUUGUGUGCUCAGUGUUUGUAAAUACCCUUUUAAUGCUGGGAAAAAUCUCGAGAUUUCACCUG
.......(((((((..((((((((((((......(((((((..(.((.....)).)..)))))))......)))))))))))).......))))))).... ( -24.70, z-score =  -1.97, R)
>droSec1.super_4 4708033 97 + 6179234
--AAAAAU-GAUUUGGUUUUCUCAGUGUAUGA-GGGUGUUUGUGUGCUCAGUGUUUGUAAACACCCUUUUAAUGCUGGGAAAAAUCUCGAGAUUUCACCUG
--......-.....(((.((((((((((..((-((((((((..(.((.....)).)..))))))))))...))))))))))(((((....))))).))).. ( -31.30, z-score =  -4.25, R)
>droEre2.scaffold_4690 2637867 98 - 18748788
--GGGAAU-GAUUUGGUUUUCUUAGUGUAUGACUGGUGUUUGUGUAUUCAGUGUUUGUAAACACCCAUUUAAUGUUGGGAAAAAUCUCAAGAUUUCACCUG
--(((((.-..((((((((((((((..(..((..(((((((..(.((.....)).)..)))))))..))..)..)))))))))...)))))..))).)).. ( -20.00, z-score =  -0.17, R)
>consensus
__AAAAAU_GAUUUGGUUUUCUCAGUGUAUGACCGGUGUUUGUGUGCUCAGUGUUUGUAAACACCCUUUUAAUGCUGGGAAAAAUCUCGAGAUUUCACCUG
..............(((.(((((((..(.(((..(((((((..(.((.....)).)..)))))))...))))..)))))))(((((....))))).))).. (-22.17 = -21.07 +  -1.10)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 5,280,524 – 5,280,625
Length 101
Sequences 3
Columns 101
Reading direction reverse
Mean pairwise identity 88.33
Shannon entropy 0.16117
G+C content 0.37491
Mean single sequence MFE -26.10
Consensus MFE -21.33
Energy contribution -19.90
Covariance contribution -1.43
Combinations/Pair 1.27
Mean z-score -2.18
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.13
SVM RNA-class probability 0.896459
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 5280524 101 - 22422827
AGAAAAAAAUGGAGUUGGUUUUCUCAGUGUAUGACCGGUGUUUGUGUGCUCAGUGUUUGUAAAUACCCUUUUAAUGCUGGGAAAAAUCUCGAGAUUUCACC
.((((....(.(((....((((((((((((......(((((((..(.((.....)).)..)))))))......))))))))))))..))).)..))))... ( -26.70, z-score =  -2.43, R)
>droSec1.super_4 4708035 97 + 6179234
--AGAAAAAU-GAUUUGGUUUUCUCAGUGUAUGA-GGGUGUUUGUGUGCUCAGUGUUUGUAAACACCCUUUUAAUGCUGGGAAAAAUCUCGAGAUUUCACC
--.((((..(-((.....((((((((((((..((-((((((((..(.((.....)).)..))))))))))...))))))))))))...)))...))))... ( -31.90, z-score =  -4.21, R)
>droEre2.scaffold_4690 2637869 98 - 18748788
--AGGGGAAU-GAUUUGGUUUUCUUAGUGUAUGACUGGUGUUUGUGUAUUCAGUGUUUGUAAACACCCAUUUAAUGUUGGGAAAAAUCUCAAGAUUUCACC
--.(((((((-..((((((((((((((..(..((..(((((((..(.((.....)).)..)))))))..))..)..)))))))))...)))))))))).)) ( -19.70, z-score =   0.11, R)
>consensus
__AGAAAAAU_GAUUUGGUUUUCUCAGUGUAUGACCGGUGUUUGUGUGCUCAGUGUUUGUAAACACCCUUUUAAUGCUGGGAAAAAUCUCGAGAUUUCACC
...((((..(.((.....(((((((((..(.(((..(((((((..(.((.....)).)..)))))))...))))..)))))))))...)).)..))))... (-21.33 = -19.90 +  -1.43)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:17:33 2011