Locus 648

Sequence ID dm3.chr2L
Location 4,485,411 – 4,485,502
Length 91
Max. P 0.983410
window859 window860

overview

Window 9

Location 4,485,411 – 4,485,502
Length 91
Sequences 4
Columns 93
Reading direction forward
Mean pairwise identity 67.75
Shannon entropy 0.52767
G+C content 0.43651
Mean single sequence MFE -25.43
Consensus MFE -10.79
Energy contribution -13.97
Covariance contribution 3.19
Combinations/Pair 1.30
Mean z-score -2.60
Structure conservation index 0.42
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.13
SVM RNA-class probability 0.983410
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 4485411 91 + 23011544
UACCA--AAAGCUGGGGUGGGUUGAGCUAUUGGACAGCUGUCUAACAAAUCAACCCACUCUAAGGCUUCUUUUGGUCUUUCCACCAGCCAUAU
.....--...(((((((((((((((....((((((....))))))....))))))))))..((((((......))))))....)))))..... ( -36.20, z-score =  -4.44, R)
>droEre2.scaffold_4929 4575253 93 + 26641161
AUCCACCAAAGCUAUGGUGGAUUGAGUUAAUAGACAGCUGUCUAACAAAUCAACCCACUUUAAGGCUCCUUGUGAUCUUUCCACCAGUCAUAU
.(((((((......)))))))((((.....(((((....))))).....))))..........((((....(((.......))).)))).... ( -21.70, z-score =  -1.82, R)
>droYak2.chr2L 4521577 91 + 22324452
AUCCA--AAAGCUAUGUUGGGUUGAGUUAAUAGACAUCUGUCCAACAAAUCAACCCACUCUGGAGCUCCUUUUGAUCUUUCCACCAGCCAUAU
...((--((((((..(.((((((((.......(((....))).......))))))))..)...))))...))))................... ( -20.04, z-score =  -1.65, R)
>droSec1.super_5 2584260 72 + 5866729
--------------------UCCCAAAAGAUAGG-GUGGGUUGAUCUAAUCGACUCACUCUAGGGCUCCAUGUGAUCUUACUACCAGCCAUAU
--------------------..........((((-((((((((((...)))))))))))))).((((....(((....)))....)))).... ( -23.80, z-score =  -2.49, R)
>consensus
AUCCA__AAAGCUAUGGUGGGUUGAGUUAAUAGACAGCUGUCUAACAAAUCAACCCACUCUAAGGCUCCUUGUGAUCUUUCCACCAGCCAUAU
...............((((((((((....((((((....))))))....))))))))))....((((....(((.......))).)))).... (-10.79 = -13.97 +   3.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 4,485,411 – 4,485,502
Length 91
Sequences 4
Columns 93
Reading direction reverse
Mean pairwise identity 67.75
Shannon entropy 0.52767
G+C content 0.43651
Mean single sequence MFE -25.00
Consensus MFE -15.79
Energy contribution -18.60
Covariance contribution 2.81
Combinations/Pair 1.38
Mean z-score -1.30
Structure conservation index 0.63
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.33
SVM RNA-class probability 0.927761
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 4485411 91 - 23011544
AUAUGGCUGGUGGAAAGACCAAAAGAAGCCUUAGAGUGGGUUGAUUUGUUAGACAGCUGUCCAAUAGCUCAACCCACCCCAGCUUU--UGGUA
....(((((((((.....)))..............(((((((((.(((((.(((....))).))))).))))))))).))))))..--..... ( -31.90, z-score =  -2.71, R)
>droEre2.scaffold_4929 4575253 93 - 26641161
AUAUGACUGGUGGAAAGAUCACAAGGAGCCUUAAAGUGGGUUGAUUUGUUAGACAGCUGUCUAUUAACUCAAUCCACCAUAGCUUUGGUGGAU
..................((((...((((......(((((((((.(((.(((((....))))).))).)))))))))....))))..)))).. ( -26.40, z-score =  -1.54, R)
>droYak2.chr2L 4521577 91 - 22324452
AUAUGGCUGGUGGAAAGAUCAAAAGGAGCUCCAGAGUGGGUUGAUUUGUUGGACAGAUGUCUAUUAACUCAACCCAACAUAGCUUU--UGGAU
.................(((...(((((((......((((((((.(((.(((((....))))).))).))))))))....))))))--).))) ( -27.10, z-score =  -1.89, R)
>droSec1.super_5 2584260 72 - 5866729
AUAUGGCUGGUAGUAAGAUCACAUGGAGCCCUAGAGUGAGUCGAUUAGAUCAACCCAC-CCUAUCUUUUGGGA--------------------
....((.((((.....((((((.(((....)))..)))).))......)))).))..(-((........))).-------------------- ( -14.60, z-score =   0.95, R)
>consensus
AUAUGGCUGGUGGAAAGAUCAAAAGGAGCCCUAGAGUGGGUUGAUUUGUUAGACAGAUGUCUAUUAACUCAACCCACCAUAGCUUU__UGGAU
....((((.((((.....))))....)))).....(((((((((.(((((((((....))))))))).)))))))))................ (-15.79 = -18.60 +   2.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:16:38 2011