Locus 7207

Sequence ID dm3.chr3L
Location 12,987,639 – 12,987,737
Length 98
Max. P 0.920059
window9919 window9920

overview

Window 9

Location 12,987,639 – 12,987,737
Length 98
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 81.47
Shannon entropy 0.28583
G+C content 0.54249
Mean single sequence MFE -29.04
Consensus MFE -20.80
Energy contribution -21.84
Covariance contribution 1.04
Combinations/Pair 1.08
Mean z-score -1.93
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.86
SVM RNA-class probability 0.837614
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 12987639 98 + 24543557
CACUCCUUGAAACUAUCAACACAUCUGCCAGCGGC--AUUGUCAAUUGACAAUGGUCCUUUGGGGAGAAGGAGGGGACAGGGGGCAUGGGUGCAGGGCGC
..(.(((((...((((...(...((((((.....(--((((((....))))))).((((((.....))))))..)).)))).)..))))...))))).). ( -30.20, z-score =  -0.48, R)
>droSim1.chr3L 12370499 78 + 22553184
CACUCCUUGAAACUAUCAACACAUCUGCCAGCGGCGCAUUGUCAGUUGACAAUGGUCCUUUGGGGAGAUGGAGGGGGC----------------------
..((((((((.....))....(((((.((((.(((.(((((((....))))))))))))...)).)))))))))))..---------------------- ( -29.10, z-score =  -2.45, R)
>droSec1.super_0 5159303 85 + 21120651
CACUCCUUGAAACUAUCAACACAUCUGCCAGCGGCGCAUUGUCAGUUGACAAUGGUCCUUUGGGGAGACGAUGGGGACAGGGGGC---------------
..(((((((...(((((..........((((.(((.(((((((....)))))))).)).))))(....))))))...))))))).--------------- ( -33.00, z-score =  -3.02, R)
>droYak2.chr3L 13065445 75 + 24197627
CGCUCCUUGAAACUAUCAACACAUCUGCCAGCGGC--AUUGUCAGUUGACAAUGGUCCUUUGGGGAGCUGGGGAGGG-----------------------
(.((((((((.....))))........(((((..(--((((((....))))))).(((.....)))))))))))).)----------------------- ( -26.90, z-score =  -1.73, R)
>droEre2.scaffold_4784 12994102 76 + 25762168
CACUCCUUGAAACUAUCAACACAUCUGCCAGCGG--CAUUGUCAGUUGACAAUGGUCCUUUGGGGAGAUGAAGGGGGC----------------------
..((((((((.....))....(((((.((...((--(((((((....)))))))..))....)).)))))))))))..---------------------- ( -26.00, z-score =  -1.97, R)
>consensus
CACUCCUUGAAACUAUCAACACAUCUGCCAGCGGC_CAUUGUCAGUUGACAAUGGUCCUUUGGGGAGAUGGAGGGGGC______________________
..((((((((.....))....(((((.((...((..(((((((....)))))))..))....)).)))))))))))........................ (-20.80 = -21.84 +   1.04)

alignment

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secondary structure

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dotplot

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Window 0

Location 12,987,639 – 12,987,737
Length 98
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 81.47
Shannon entropy 0.28583
G+C content 0.54249
Mean single sequence MFE -23.90
Consensus MFE -18.14
Energy contribution -18.54
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.02
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.28
SVM RNA-class probability 0.920059
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 12987639 98 - 24543557
GCGCCCUGCACCCAUGCCCCCUGUCCCCUCCUUCUCCCCAAAGGACCAUUGUCAAUUGACAAU--GCCGCUGGCAGAUGUGUUGAUAGUUUCAAGGAGUG
.((((((((((...((((..........(((((.......))))).(((((((....))))))--).....))))...))))(((.....)))))).))) ( -26.20, z-score =  -1.78, R)
>droSim1.chr3L 12370499 78 - 22553184
----------------------GCCCCCUCCAUCUCCCCAAAGGACCAUUGUCAACUGACAAUGCGCCGCUGGCAGAUGUGUUGAUAGUUUCAAGGAGUG
----------------------.....((((((((..(((..((.((((((((....))))))).)))..))).))))...((((.....)))))))).. ( -24.10, z-score =  -2.36, R)
>droSec1.super_0 5159303 85 - 21120651
---------------GCCCCCUGUCCCCAUCGUCUCCCCAAAGGACCAUUGUCAACUGACAAUGCGCCGCUGGCAGAUGUGUUGAUAGUUUCAAGGAGUG
---------------((.(((((((..((.(((((..(((..((.((((((((....))))))).)))..))).)))))))..)))))......)).)). ( -24.90, z-score =  -2.08, R)
>droYak2.chr3L 13065445 75 - 24197627
-----------------------CCCUCCCCAGCUCCCCAAAGGACCAUUGUCAACUGACAAU--GCCGCUGGCAGAUGUGUUGAUAGUUUCAAGGAGCG
-----------------------..((((((((((((.....))).(((((((....))))))--)..)))))........((((.....)))))))).. ( -23.70, z-score =  -2.46, R)
>droEre2.scaffold_4784 12994102 76 - 25762168
----------------------GCCCCCUUCAUCUCCCCAAAGGACCAUUGUCAACUGACAAUG--CCGCUGGCAGAUGUGUUGAUAGUUUCAAGGAGUG
----------------------((.((...(((((..(((..((..(((((((....)))))))--))..))).)))))..((((.....)))))).)). ( -20.60, z-score =  -1.43, R)
>consensus
______________________GCCCCCUCCAUCUCCCCAAAGGACCAUUGUCAACUGACAAUG_GCCGCUGGCAGAUGUGUUGAUAGUUUCAAGGAGUG
.................................(((((((..((..(((((((....)))))))..))..)))........((((.....)))))))).. (-18.14 = -18.54 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:22:29 2011