Locus 3120

Sequence ID dm3.chr2R
Location 2,677,074 – 2,677,159
Length 85
Max. P 0.982922
window4284 window4285

overview

Window 4

Location 2,677,074 – 2,677,159
Length 85
Sequences 3
Columns 108
Reading direction forward
Mean pairwise identity 76.85
Shannon entropy 0.32077
G+C content 0.45599
Mean single sequence MFE -33.80
Consensus MFE -21.66
Energy contribution -25.00
Covariance contribution 3.34
Combinations/Pair 1.17
Mean z-score -2.77
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.12
SVM RNA-class probability 0.982922
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 2677074 85 + 21146708
-----------------------UCUGCGAUUUGUAUUUGCCCAAAGAGCGAAUGCUUCCGCUUUGAGGUGUCUUGACGGAAAUGGCUCUUACAAAUCAAAUCAAAUG
-----------------------.....((((((.(((((....((((((.(....(((((..(..((....))..)))))).).)))))).)))))))))))..... ( -22.50, z-score =  -1.90, R)
>droSec1.super_1 349174 108 + 14215200
UCUGUGAUUUGUAUUUGCCCAUUGUGGCAGGCGGCUCUUGACCAAAGAGCGAAUGCUUCCGCUUUGAGGUGUCUUGGCGGAAAUGGCUCUUGCAAAUCAAAUCAAAUG
....(((((((.(((((((((((..((((..((.(((((.....)))))))..))))((((((..((....))..))))))))))).....))))))))))))).... ( -40.30, z-score =  -3.39, R)
>droSim1.chr2R 1491818 108 + 19596830
UCUGCGAUUUGUAUUUGCCCAUUGUGGCAGGCGGCUCUUGACCAAAGAGCGAAUGCUUCCGCUUUGAGGUGUCUUGGCGGAAAUGGCUCUUACAAAUCAAAUCAAAUG
.....((((((((...(((.......(((..((.(((((.....)))))))..)))(((((((..((....))..)))))))..)))...)))))))).......... ( -38.60, z-score =  -3.03, R)
>consensus
UCUG_GAUUUGUAUUUGCCCAUUGUGGCAGGCGGCUCUUGACCAAAGAGCGAAUGCUUCCGCUUUGAGGUGUCUUGGCGGAAAUGGCUCUUACAAAUCAAAUCAAAUG
.....((((((((...(((.......(((..(.((((((.....)))))))..)))(((((((..((....))..)))))))..)))...)))))))).......... (-21.66 = -25.00 +   3.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 2,677,074 – 2,677,159
Length 85
Sequences 3
Columns 108
Reading direction reverse
Mean pairwise identity 76.85
Shannon entropy 0.32077
G+C content 0.45599
Mean single sequence MFE -28.67
Consensus MFE -18.97
Energy contribution -20.20
Covariance contribution 1.23
Combinations/Pair 1.08
Mean z-score -2.19
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.24
SVM RNA-class probability 0.915501
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 2677074 85 - 21146708
CAUUUGAUUUGAUUUGUAAGAGCCAUUUCCGUCAAGACACCUCAAAGCGGAAGCAUUCGCUCUUUGGGCAAAUACAAAUCGCAGA-----------------------
.....((((((((((((((((((..(((((((...((....))...))))))).....))))))...)))))).)))))).....----------------------- ( -23.90, z-score =  -2.54, R)
>droSec1.super_1 349174 108 - 14215200
CAUUUGAUUUGAUUUGCAAGAGCCAUUUCCGCCAAGACACCUCAAAGCGGAAGCAUUCGCUCUUUGGUCAAGAGCCGCCUGCCACAAUGGGCAAAUACAAAUCACAGA
....(((((((((((((.((.((..(((((((...((....))...))))))).....((((((.....)))))).)))).((.....)))))))).))))))).... ( -31.60, z-score =  -2.33, R)
>droSim1.chr2R 1491818 108 - 19596830
CAUUUGAUUUGAUUUGUAAGAGCCAUUUCCGCCAAGACACCUCAAAGCGGAAGCAUUCGCUCUUUGGUCAAGAGCCGCCUGCCACAAUGGGCAAAUACAAAUCGCAGA
..........((((((((...(((..((((((...((....))...))))))(((..(((((((.....))))).))..))).......)))...))))))))..... ( -30.50, z-score =  -1.69, R)
>consensus
CAUUUGAUUUGAUUUGUAAGAGCCAUUUCCGCCAAGACACCUCAAAGCGGAAGCAUUCGCUCUUUGGUCAAGAGCCGCCUGCCACAAUGGGCAAAUACAAAUC_CAGA
.......(((((((...((((((..(((((((...((....))...))))))).....)))))).)))))))....((((........))))................ (-18.97 = -20.20 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:04:04 2011