Locus 13188

Sequence ID dm3.chrX
Location 4,826,754 – 4,826,823
Length 69
Max. P 0.999488
window18141 window18142

overview

Window 1

Location 4,826,754 – 4,826,823
Length 69
Sequences 4
Columns 72
Reading direction forward
Mean pairwise identity 66.67
Shannon entropy 0.54807
G+C content 0.36096
Mean single sequence MFE -18.12
Consensus MFE -10.84
Energy contribution -12.28
Covariance contribution 1.44
Combinations/Pair 1.20
Mean z-score -2.96
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.94
SVM RNA-class probability 0.999488
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 4826754 69 + 22422827
CAUCGAUGCCAAACAUCGAUAUUUUCGAAAAAUCACAUAAAUUGGUGU---UUUUUGAUGAAUCUUUGUAUA
.(((((((.....)))))))....((((((((.(((........))))---))))))).............. ( -15.00, z-score =  -1.94, R)
>droSim1.chrX 3732553 72 + 17042790
CAUCGAUGUCAAACAUCGAUAUUUUCGAAGAAUCACAAACAUCGGUUUGUUUUUUCGAGGAAUCAUCGUAUA
.(((((((.....))))))).(((((((((((..((((((....)))))))))))))))))........... ( -22.50, z-score =  -4.10, R)
>droSec1.super_4 4259802 69 - 6179234
CAUCGAUGUCAAACAUCGAUAUUUUCGAAGAAUCACAAACAUCGGUGU---UUUUCGAGGAAUCAUCGUAUA
.(((((((.....))))))).(((((((((((.(((........))))---))))))))))........... ( -20.70, z-score =  -3.44, R)
>droPer1.super_4 2834029 63 + 7162766
CAUCGAUGUUU--CAUCGAUUUGCCUCAAAA--CAUCGACGUUUCUCCACCUCUAUGGCAAGGCAUA-----
.(((((((...--))))))).(((((.....--(((.((.((......)).)).)))...)))))..----- ( -14.30, z-score =  -2.38, R)
>consensus
CAUCGAUGUCAAACAUCGAUAUUUUCGAAAAAUCACAAACAUCGGUGU___UUUUCGAGGAAUCAUCGUAUA
.(((((((.....))))))).((((((((((..(((........)))....))))))))))........... (-10.84 = -12.28 +   1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 4,826,754 – 4,826,823
Length 69
Sequences 4
Columns 72
Reading direction reverse
Mean pairwise identity 66.67
Shannon entropy 0.54807
G+C content 0.36096
Mean single sequence MFE -16.90
Consensus MFE -7.82
Energy contribution -7.82
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.30
Structure conservation index 0.46
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.14
SVM RNA-class probability 0.983626
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 4826754 69 - 22422827
UAUACAAAGAUUCAUCAAAAA---ACACCAAUUUAUGUGAUUUUUCGAAAAUAUCGAUGUUUGGCAUCGAUG
..............((.((((---((((........))).))))).))...((((((((.....)))))))) ( -12.30, z-score =  -1.34, R)
>droSim1.chrX 3732553 72 - 17042790
UAUACGAUGAUUCCUCGAAAAAACAAACCGAUGUUUGUGAUUCUUCGAAAAUAUCGAUGUUUGACAUCGAUG
....(((((.(((...)))....(((((((((((((.(((....))).))))))))..))))).)))))... ( -17.40, z-score =  -2.30, R)
>droSec1.super_4 4259802 69 + 6179234
UAUACGAUGAUUCCUCGAAAA---ACACCGAUGUUUGUGAUUCUUCGAAAAUAUCGAUGUUUGACAUCGAUG
....(((((.(((...)))((---(((.((((((((.(((....))).)))))))).)))))..)))))... ( -18.00, z-score =  -2.38, R)
>droPer1.super_4 2834029 63 - 7162766
-----UAUGCCUUGCCAUAGAGGUGGAGAAACGUCGAUG--UUUUGAGGCAAAUCGAUG--AAACAUCGAUG
-----..((((((.((((....)))).((((((....))--)))))))))).(((((((--...))))))). ( -19.90, z-score =  -3.20, R)
>consensus
UAUACGAUGAUUCCUCAAAAA___ACACCAAUGUUUGUGAUUCUUCGAAAAUAUCGAUGUUUGACAUCGAUG
....................................................(((((((.....))))))). ( -7.82 =  -7.82 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:16:28 2011