Locus 2888

Sequence ID dm3.chr2RHet
Location 1,649,658 – 1,649,740
Length 82
Max. P 0.958619
window3980 window3981

overview

Window 0

Location 1,649,658 – 1,649,740
Length 82
Sequences 4
Columns 90
Reading direction forward
Mean pairwise identity 80.52
Shannon entropy 0.33028
G+C content 0.47420
Mean single sequence MFE -26.65
Consensus MFE -22.89
Energy contribution -22.58
Covariance contribution -0.31
Combinations/Pair 1.13
Mean z-score -1.75
Structure conservation index 0.86
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.66
SVM RNA-class probability 0.958619
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2RHet 1649658 82 + 3288761
UGCACCCCAGAUCAAGAUGCGGAUCGUUAGUACGACGAUUCCGGU------GACGCAGCCAAUCA--GUAUCGGCUGUGUGGGAGGUUGU
.((..((((..(((...((.((((((((.....)))))))))).)------))(((((((.....--.....)))))))))))..))... ( -29.50, z-score =  -1.68, R)
>droYak2.chr2h_random 471774 79 - 3774259
---------AAUCAAGAUGCGGAUAGUUAUUAGAACGACUCCGGUGAUUAUGACACAGCCCAUCAAUAUAUCGGCUGUGUGGGAGGUU--
---------(((((.....((((..(((.....)))...)))).))))).(.((((((((.((......)).)))))))).)......-- ( -20.40, z-score =  -0.90, R)
>droSec1.super_60 50372 90 + 163194
UGUAAACUUAAUCAAGAUGCGGAUCGUUAUUACGACGAUUCCGGUUAUUAGGACGCAGCCCAUCAGUAUAUCGGCUGUGUGGGAGGUUGU
........(((((....((((.((((((.....))))))(((........))))))).(((((((((......)))).))))).))))). ( -25.70, z-score =  -1.15, R)
>droSim1.chr2h_random 451525 89 - 3178526
UGUAAACUUAAUCAAGAUGCGGAUCGUUAUUACGACGAUUCCGGUGAUUAGGACGCAGCCCAUUAUUAUAUCGGCUGUGUGGGAGGUUG-
......((((((((...((.((((((((.....)))))))))).))))))))((((((((.((......)).)))))))).........- ( -31.00, z-score =  -3.26, R)
>consensus
UGUAAACUUAAUCAAGAUGCGGAUCGUUAUUACGACGAUUCCGGUGAUUAGGACGCAGCCCAUCA_UAUAUCGGCUGUGUGGGAGGUUG_
.........((((......(((((((((.....))))).)))).........((((((((.((......)).))))))))....)))).. (-22.89 = -22.58 +  -0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 1,649,658 – 1,649,740
Length 82
Sequences 4
Columns 90
Reading direction reverse
Mean pairwise identity 80.52
Shannon entropy 0.33028
G+C content 0.47420
Mean single sequence MFE -21.35
Consensus MFE -15.96
Energy contribution -16.02
Covariance contribution 0.06
Combinations/Pair 1.06
Mean z-score -1.75
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.08
SVM RNA-class probability 0.887545
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2RHet 1649658 82 - 3288761
ACAACCUCCCACACAGCCGAUAC--UGAUUGGCUGCGUC------ACCGGAAUCGUCGUACUAACGAUCCGCAUCUUGAUCUGGGGUGCA
..........((.((((((((..--..)))))))).)).------...(((.((((.......)))))))(((((((.....))))))). ( -26.60, z-score =  -1.95, R)
>droYak2.chr2h_random 471774 79 + 3774259
--AACCUCCCACACAGCCGAUAUAUUGAUGGGCUGUGUCAUAAUCACCGGAGUCGUUCUAAUAACUAUCCGCAUCUUGAUU---------
--........((((((((.((......)).))))))))...(((((.((((...(((.....)))..)))).....)))))--------- ( -19.80, z-score =  -2.12, R)
>droSec1.super_60 50372 90 - 163194
ACAACCUCCCACACAGCCGAUAUACUGAUGGGCUGCGUCCUAAUAACCGGAAUCGUCGUAAUAACGAUCCGCAUCUUGAUUAAGUUUACA
.(((......((.(((((.((......)).))))).)).........((((.((((.......))))))))....)))............ ( -18.20, z-score =  -0.76, R)
>droSim1.chr2h_random 451525 89 + 3178526
-CAACCUCCCACACAGCCGAUAUAAUAAUGGGCUGCGUCCUAAUCACCGGAAUCGUCGUAAUAACGAUCCGCAUCUUGAUUAAGUUUACA
-.........((.(((((.((......)).))))).))..((((((.((((.((((.......)))))))).....))))))........ ( -20.80, z-score =  -2.19, R)
>consensus
_CAACCUCCCACACAGCCGAUAUA_UGAUGGGCUGCGUCCUAAUCACCGGAAUCGUCGUAAUAACGAUCCGCAUCUUGAUUAAGUUUACA
..........((.(((((.((......)).))))).)).........(((.(((((.......))))))))................... (-15.96 = -16.02 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:59:53 2011