Locus 6538

Sequence ID dm3.chr3L
Location 7,524,030 – 7,524,129
Length 99
Max. P 0.962267
window9001 window9002

overview

Window 1

Location 7,524,030 – 7,524,129
Length 99
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 84.45
Shannon entropy 0.26500
G+C content 0.42762
Mean single sequence MFE -21.10
Consensus MFE -12.89
Energy contribution -12.65
Covariance contribution -0.24
Combinations/Pair 1.05
Mean z-score -2.41
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.82
SVM RNA-class probability 0.825636
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 7524030 99 + 24543557
GUGGAUCGUUACUACGAUC-AUCGGUCAAUGAAUUUCACUGCCCAUUUACGAGUAUGAGUAUUCCCCCCUCAUACCAAUAUUAACUCGAUUUCUCGCAUA
(((((((((....))))))-(((((.((.((.....)).)).))......(.(((((((.........))))))))...........)))....)))... ( -21.80, z-score =  -2.41, R)
>droSim1.chr3L 7038300 93 + 22553184
GUGGAUCGCUACUACGAUCCAUCGGUCAAUGAAUUUCACUGCCCAUUUACGAGUAUGAGUAUUCCCCCUC-------AUAUUCACUCGAUUUCUCGCAUA
((((((((......)))))))).((.((.((.....)).)).))......(((((((((........)))-------))))))................. ( -25.10, z-score =  -3.61, R)
>droSec1.super_2 7453519 92 + 7591821
GUGGAUCGCUACUACGAUC-AUCGGUCAAUGAAUUUCACUGCCCAUUUACGAGUAUGAGUAUUCCCCCUC-------AUAUUCACUCGAUUUCUCGCAUA
((((((((......)))))-(((((.((.((.....)).)).))......(((((((((........)))-------))))))....)))....)))... ( -23.60, z-score =  -3.03, R)
>droYak2.chr3L 8127689 85 + 24197627
GUGGAUCGCUACUACGAUC----GGUCAAUGAAUUUCAGUGACCACUUACGAGUAUUG---CCCCCCAUA--------UAUUCACUUGAUUUCUCGCAUA
((((((((......)))))----(((((.((.....)).)))))......((((((..---........)--------)))))...........)))... ( -19.70, z-score =  -1.95, R)
>droEre2.scaffold_4784 21947173 92 - 25762168
GUGGAUCGCUACUACGAUC----GGUCAAUGAAUUUCACUGCCCAUUUACGAGUAUUCAUUCCCCCCAUAC----AUAUAUUCACUUGAUUUCUCGCAUA
((((((((......)))))----((..((((((((((.............))).)))))))..))......----...................)))... ( -15.32, z-score =  -1.07, R)
>consensus
GUGGAUCGCUACUACGAUC_AUCGGUCAAUGAAUUUCACUGCCCAUUUACGAGUAUGAGUAUUCCCCCUA_______AUAUUCACUCGAUUUCUCGCAUA
((((((((......)))))....((.((.((.....)).)).)).....(((((.............................)))))......)))... (-12.89 = -12.65 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 7,524,030 – 7,524,129
Length 99
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 84.45
Shannon entropy 0.26500
G+C content 0.42762
Mean single sequence MFE -26.50
Consensus MFE -18.96
Energy contribution -18.88
Covariance contribution -0.08
Combinations/Pair 1.17
Mean z-score -2.51
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.70
SVM RNA-class probability 0.962267
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 7524030 99 - 24543557
UAUGCGAGAAAUCGAGUUAAUAUUGGUAUGAGGGGGGAAUACUCAUACUCGUAAAUGGGCAGUGAAAUUCAUUGACCGAU-GAUCGUAGUAACGAUCCAC
....(((....)))......(((.((((((((.........)))))))).))).((.(((((((.....))))).)).))-((((((....))))))... ( -28.90, z-score =  -2.79, R)
>droSim1.chr3L 7038300 93 - 22553184
UAUGCGAGAAAUCGAGUGAAUAU-------GAGGGGGAAUACUCAUACUCGUAAAUGGGCAGUGAAAUUCAUUGACCGAUGGAUCGUAGUAGCGAUCCAC
..((((((...((....)).(((-------(((........))))))))))))..(((.(((((.....))))).))).((((((((....)))))))). ( -31.60, z-score =  -3.96, R)
>droSec1.super_2 7453519 92 - 7591821
UAUGCGAGAAAUCGAGUGAAUAU-------GAGGGGGAAUACUCAUACUCGUAAAUGGGCAGUGAAAUUCAUUGACCGAU-GAUCGUAGUAGCGAUCCAC
..((((((...((....)).(((-------(((........)))))))))))).((.(((((((.....))))).)).))-((((((....))))))... ( -27.30, z-score =  -2.66, R)
>droYak2.chr3L 8127689 85 - 24197627
UAUGCGAGAAAUCAAGUGAAUA--------UAUGGGGGG---CAAUACUCGUAAGUGGUCACUGAAAUUCAUUGACC----GAUCGUAGUAGCGAUCCAC
.....((....))..(((....--------((((((...---.....))))))...(((((.((.....)).)))))----((((((....))))))))) ( -23.30, z-score =  -1.92, R)
>droEre2.scaffold_4784 21947173 92 + 25762168
UAUGCGAGAAAUCAAGUGAAUAUAU----GUAUGGGGGGAAUGAAUACUCGUAAAUGGGCAGUGAAAUUCAUUGACC----GAUCGUAGUAGCGAUCCAC
.....((....))..(((....(((----.((((((...........)))))).)))(((((((.....))))).))----((((((....))))))))) ( -21.40, z-score =  -1.20, R)
>consensus
UAUGCGAGAAAUCGAGUGAAUAU_______GAGGGGGAAUACUCAUACUCGUAAAUGGGCAGUGAAAUUCAUUGACCGAU_GAUCGUAGUAGCGAUCCAC
..((((((...((....)).............(((......)))...))))))...((.(((((.....))))).))....((((((....))))))... (-18.96 = -18.88 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:09:42 2011