Locus 11477

Sequence ID dm3.chr3R
Location 21,469,781 – 21,469,843
Length 62
Max. P 0.874150
window15772 window15773

overview

Window 2

Location 21,469,781 – 21,469,843
Length 62
Sequences 4
Columns 62
Reading direction forward
Mean pairwise identity 95.16
Shannon entropy 0.07851
G+C content 0.63703
Mean single sequence MFE -24.43
Consensus MFE -21.00
Energy contribution -21.75
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -2.20
Structure conservation index 0.86
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.01
SVM RNA-class probability 0.874150
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 21469781 62 + 27905053
GACCAUGGCCAAAACGAUGGCCAAGUCUGGCGACCCGACAGCCUCGGCUGCUGGAGCCUAGA
(((..((((((......)))))).))).(((...(((.((((....)))).))).))).... ( -26.80, z-score =  -3.06, R)
>droSim1.chr3R 21298051 62 + 27517382
GACCAUGGCCAAAACGAUGGCCAAGUCUGGCGACCCGAGAGCCUCGGCUGCUGGAGCCUAGA
(((..((((((......)))))).))).(((...(((..(((....)))..))).))).... ( -23.80, z-score =  -1.85, R)
>droSec1.super_13 256573 62 + 2104621
GACCAUGGCCAAAACGAUGGCCAAGUCUGGCGACCCGAGAGCCUCGGCUGCUGGAGCCUAGA
(((..((((((......)))))).))).(((...(((..(((....)))..))).))).... ( -23.80, z-score =  -1.85, R)
>droEre2.scaffold_4820 3897524 59 - 10470090
GACCAUGGCCAAACCGAUGGCCAAGUCUGGCGACCCGAGAGCCUCGGCCG---GAGCCUAGA
(((..((((((......)))))).))).(((..((((((...)))))..)---..))).... ( -23.30, z-score =  -2.04, R)
>consensus
GACCAUGGCCAAAACGAUGGCCAAGUCUGGCGACCCGAGAGCCUCGGCUGCUGGAGCCUAGA
(((..((((((......)))))).))).(((...(((..(((....)))..))).))).... (-21.00 = -21.75 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 21,469,781 – 21,469,843
Length 62
Sequences 4
Columns 62
Reading direction reverse
Mean pairwise identity 95.16
Shannon entropy 0.07851
G+C content 0.63703
Mean single sequence MFE -26.65
Consensus MFE -22.91
Energy contribution -22.98
Covariance contribution 0.06
Combinations/Pair 1.06
Mean z-score -1.98
Structure conservation index 0.86
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.65
SVM RNA-class probability 0.775569
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 21469781 62 - 27905053
UCUAGGCUCCAGCAGCCGAGGCUGUCGGGUCGCCAGACUUGGCCAUCGUUUUGGCCAUGGUC
....((((((.(((((....))))).)))..))).((((((((((......)))))).)))) ( -30.00, z-score =  -3.11, R)
>droSim1.chr3R 21298051 62 - 27517382
UCUAGGCUCCAGCAGCCGAGGCUCUCGGGUCGCCAGACUUGGCCAUCGUUUUGGCCAUGGUC
....(((((.((.(((....))))).)))))....((((((((((......)))))).)))) ( -25.50, z-score =  -1.70, R)
>droSec1.super_13 256573 62 - 2104621
UCUAGGCUCCAGCAGCCGAGGCUCUCGGGUCGCCAGACUUGGCCAUCGUUUUGGCCAUGGUC
....(((((.((.(((....))))).)))))....((((((((((......)))))).)))) ( -25.50, z-score =  -1.70, R)
>droEre2.scaffold_4820 3897524 59 + 10470090
UCUAGGCUC---CGGCCGAGGCUCUCGGGUCGCCAGACUUGGCCAUCGGUUUGGCCAUGGUC
.((((((.(---..((((((((...((((((....))))))))).)))))..)))).))).. ( -25.60, z-score =  -1.39, R)
>consensus
UCUAGGCUCCAGCAGCCGAGGCUCUCGGGUCGCCAGACUUGGCCAUCGUUUUGGCCAUGGUC
....(((.((...(((....)))....))..))).((((((((((......)))))).)))) (-22.91 = -22.98 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:43:41 2011