Locus 11118

Sequence ID dm3.chr3R
Location 18,770,314 – 18,770,387
Length 73
Max. P 0.990690
window15276 window15277

overview

Window 6

Location 18,770,314 – 18,770,387
Length 73
Sequences 6
Columns 80
Reading direction forward
Mean pairwise identity 73.87
Shannon entropy 0.49582
G+C content 0.52060
Mean single sequence MFE -17.02
Consensus MFE -8.73
Energy contribution -8.70
Covariance contribution -0.03
Combinations/Pair 1.40
Mean z-score -1.79
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.12
SVM RNA-class probability 0.894345
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 18770314 73 + 27905053
GCGUUUGAAUCGAUUCAACAAUUCAGCCGCGUAGCAAGCUUUUCCACUUGCCUCCAGU-------UCCCAGCGGCCACAG
.....(((((.(......).)))))((((((..(((((........)))))..)..(.-------...).)))))..... ( -15.00, z-score =  -1.17, R)
>droEre2.scaffold_4820 1171797 79 - 10470090
-CCAUUGAAUCGAUUCAACAAUUCAGCCGCGCAGCAAGUUUUUCCACUUGCCUCCAGCUACCAGCUACCAGCGGCCACAG
-....(((((.(......).)))))(((((...((((((......))))))....(((.....)))....)))))..... ( -20.90, z-score =  -3.89, R)
>droYak2.chr3R 19628271 79 + 28832112
GCAUU-GAAUCGAUUCAACAAUUCAGCCGCGUAGCAAGCUUUUCCACUUGCCUCCAGCAAACAGCUACCAGCGGCCACAG
....(-((((.(......).)))))((((((..(((((........)))))..).(((.....)))....)))))..... ( -19.60, z-score =  -2.60, R)
>droSec1.super_0 19134670 73 + 21120651
GCGUUUGAAUCGAUUCAACAAUUCAGCCGCGUAGCAAGCUUUUCCACUUGCCUCCAGC-------UCCCAGCGGCCACAG
(((.((((((.(......).)))))).)))((.(((((........)))))..((.((-------.....))))..)).. ( -15.10, z-score =  -0.79, R)
>droSim1.chr3R 18581524 73 + 27517382
GCGUUUGAAUCGAUUCAACAAUUCAGCCGCGUAGCAAGCUUUUCCACUUGCCUCCAGC-------UCCCAGCGGCCACAG
(((.((((((.(......).)))))).)))((.(((((........)))))..((.((-------.....))))..)).. ( -15.10, z-score =  -0.79, R)
>droVir3.scaffold_12822 3968317 70 - 4096053
------AAGUUUCAUUCACAAUGAAGCC-UACAGCUAGCGAUAACAUUGGGCUGCAACCACU--UGUUCAGUAAUCGCG-
------..(((((((.....))))))).-........(((((...(((((((..........--.))))))).))))).- ( -16.40, z-score =  -1.50, R)
>consensus
GCGUUUGAAUCGAUUCAACAAUUCAGCCGCGUAGCAAGCUUUUCCACUUGCCUCCAGC_______UCCCAGCGGCCACAG
.........................(((((...(((((........)))))...................)))))..... ( -8.73 =  -8.70 +  -0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 18,770,314 – 18,770,387
Length 73
Sequences 6
Columns 80
Reading direction reverse
Mean pairwise identity 73.87
Shannon entropy 0.49582
G+C content 0.52060
Mean single sequence MFE -25.48
Consensus MFE -15.71
Energy contribution -16.55
Covariance contribution 0.84
Combinations/Pair 1.24
Mean z-score -2.12
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.43
SVM RNA-class probability 0.990690
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 18770314 73 - 27905053
CUGUGGCCGCUGGGA-------ACUGGAGGCAAGUGGAAAAGCUUGCUACGCGGCUGAAUUGUUGAAUCGAUUCAAACGC
..((((((((.(...-------.)..(.(((((((......))))))).))))))(((((((......)))))))..))) ( -26.00, z-score =  -2.74, R)
>droEre2.scaffold_4820 1171797 79 + 10470090
CUGUGGCCGCUGGUAGCUGGUAGCUGGAGGCAAGUGGAAAAACUUGCUGCGCGGCUGAAUUGUUGAAUCGAUUCAAUGG-
....((((((...((((.....))))(.(((((((......))))))).)))))))((((((......)))))).....- ( -29.30, z-score =  -2.79, R)
>droYak2.chr3R 19628271 79 - 28832112
CUGUGGCCGCUGGUAGCUGUUUGCUGGAGGCAAGUGGAAAAGCUUGCUACGCGGCUGAAUUGUUGAAUCGAUUC-AAUGC
....((((((...((((.....))))(.(((((((......))))))).)))))))((((((......))))))-..... ( -29.30, z-score =  -2.60, R)
>droSec1.super_0 19134670 73 - 21120651
CUGUGGCCGCUGGGA-------GCUGGAGGCAAGUGGAAAAGCUUGCUACGCGGCUGAAUUGUUGAAUCGAUUCAAACGC
..((((((((.(...-------.)..(.(((((((......))))))).))))))(((((((......)))))))..))) ( -25.00, z-score =  -1.74, R)
>droSim1.chr3R 18581524 73 - 27517382
CUGUGGCCGCUGGGA-------GCUGGAGGCAAGUGGAAAAGCUUGCUACGCGGCUGAAUUGUUGAAUCGAUUCAAACGC
..((((((((.(...-------.)..(.(((((((......))))))).))))))(((((((......)))))))..))) ( -25.00, z-score =  -1.74, R)
>droVir3.scaffold_12822 3968317 70 + 4096053
-CGCGAUUACUGAACA--AGUGGUUGCAGCCCAAUGUUAUCGCUAGCUGUA-GGCUUCAUUGUGAAUGAAACUU------
-.(((((((((.....--))))))))).(((....((((....))))....-)))(((((.....)))))....------ ( -18.30, z-score =  -1.13, R)
>consensus
CUGUGGCCGCUGGGA_______GCUGGAGGCAAGUGGAAAAGCUUGCUACGCGGCUGAAUUGUUGAAUCGAUUCAAACGC
....((((((.((..........))...(((((((......)))))))..))))))((((((......))))))...... (-15.71 = -16.55 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:36:44 2011