Locus 8027

Sequence ID dm3.chr3L
Location 19,555,380 – 19,555,504
Length 124
Max. P 0.826358
window11047 window11048

overview

Window 7

Location 19,555,380 – 19,555,475
Length 95
Sequences 5
Columns 95
Reading direction reverse
Mean pairwise identity 96.42
Shannon entropy 0.06342
G+C content 0.55698
Mean single sequence MFE -36.80
Consensus MFE -32.38
Energy contribution -33.22
Covariance contribution 0.84
Combinations/Pair 1.03
Mean z-score -1.86
Structure conservation index 0.88
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.57
SVM RNA-class probability 0.746148
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 19555380 95 - 24543557
GAGAGGCACACAGGUAAGACAGGUAAGGGUAGGAGACAAGUACAAAGCCUGCUUGCCCAGGUGCCACUGUAUGUGUGAGUGUACCUCUCUUCGCG
((((((.((((.((((((.(((((....((((....)...)))...)))))))))))((.((((....)))).))...)))).))))))...... ( -37.40, z-score =  -2.51, R)
>droSim1.chr3L 18887591 95 - 22553184
GAGAGGCACACAGGUAAGACAGGUAAGGGUAGGAGACAAGUACAAAGCCUGCUUGCCCAGGUGCCACUGUGUGCGUGAGUGGGCCUCUCUUCGCG
(((((((.(((.((((((.(((((....((((....)...)))...)))))))))))((.(..(......)..).)).))).)))))))...... ( -40.60, z-score =  -2.55, R)
>droSec1.super_29 258575 95 - 700605
GAGAGGCACACAGGUAAGACAGGUAAGGGUAGGAGACAAGUACAAAGCCUGCUUGCCCAGGUGCCACUGUGUGUGUGAGUUGGCCUCUCUUCGCG
((((((((((((((((((.(((((....((((....)...)))...)))))))))))(((......)))..)))))......)))))))...... ( -36.30, z-score =  -1.55, R)
>droYak2.chr3L 3205377 95 + 24197627
GAGAGGCACACAGGUAAGACAGGUAAGGGUAGGAGACAAGUACAAAGCCUACUUGUCCAGGUGCCACUGUGUGUGUGAGUGGGCCUCUCUUCGCG
(((((((.(((.....(.((((.....((((.(.((((((((.......)))))))))...)))).)))).)......))).)))))))...... ( -34.60, z-score =  -1.35, R)
>droEre2.scaffold_4784 19352922 94 - 25762168
GAGAGGCACACAGGUAAGACAGGUAAGGGUAGGAGACAAGUACAAAGCCUACUUGCCC-GGUGCCACUGUGUGUGUGAGUGGGCCUCUCUUCGCG
(((((((.(((.((((((..((((....((((....)...)))...)))).)))))).-.)))(((((.........))))))))))))...... ( -35.10, z-score =  -1.32, R)
>consensus
GAGAGGCACACAGGUAAGACAGGUAAGGGUAGGAGACAAGUACAAAGCCUGCUUGCCCAGGUGCCACUGUGUGUGUGAGUGGGCCUCUCUUCGCG
(((((((.(((.((((((.(((((....((((....)...)))...)))))))))))...)))(((((.........))))))))))))...... (-32.38 = -33.22 +   0.84)

alignment

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secondary structure

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dotplot

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Window 8

Location 19,555,406 – 19,555,504
Length 98
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 98.16
Shannon entropy 0.03201
G+C content 0.55624
Mean single sequence MFE -32.40
Consensus MFE -30.18
Energy contribution -30.62
Covariance contribution 0.44
Combinations/Pair 1.03
Mean z-score -1.78
Structure conservation index 0.93
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.82
SVM RNA-class probability 0.826358
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 19555406 98 - 24543557
GGGGAGCGACCCAUGAUUUCCCGCCAAAUGAGAGGCACACAGGUAAGACAGGUAAGGGUAGGAGACAAGUACAAAGCCUGCUUGCCCAGGUGCCACUG
((((((((.....)).))))))........((.(((((...((((((.(((((....((((....)...)))...)))))))))))...))))).)). ( -35.10, z-score =  -2.10, R)
>droSim1.chr3L 18887617 98 - 22553184
GGCGAGCGACCCAUGAUUUCCCGCCAAAUGAGAGGCACACAGGUAAGACAGGUAAGGGUAGGAGACAAGUACAAAGCCUGCUUGCCCAGGUGCCACUG
((((.(.((.........))))))).....((.(((((...((((((.(((((....((((....)...)))...)))))))))))...))))).)). ( -35.10, z-score =  -2.53, R)
>droSec1.super_29 258601 98 - 700605
GGCGAGCGACCCAUGAUUUCCCGCCAAAUGAGAGGCACACAGGUAAGACAGGUAAGGGUAGGAGACAAGUACAAAGCCUGCUUGCCCAGGUGCCACUG
((((.(.((.........))))))).....((.(((((...((((((.(((((....((((....)...)))...)))))))))))...))))).)). ( -35.10, z-score =  -2.53, R)
>droYak2.chr3L 3205403 98 + 24197627
GGCGAGCGACCCAUGAUUUCCCGCCAAAUGAGAGGCACACAGGUAAGACAGGUAAGGGUAGGAGACAAGUACAAAGCCUACUUGUCCAGGUGCCACUG
((((.(.((.........))))))).....((.(((((...((((((..((((....((((....)...)))...)))).)))).))..))))).)). ( -26.30, z-score =  -0.26, R)
>droEre2.scaffold_4784 19352948 97 - 25762168
GGCGAGCGACCCAUGAUUUCCCGCCAAAUGAGAGGCACACAGGUAAGACAGGUAAGGGUAGGAGACAAGUACAAAGCCUACUUGCCC-GGUGCCACUG
((((.(.((.........))))))).....((.(((((.(.((((((..((((....((((....)...)))...)))).)))))).-)))))).)). ( -30.40, z-score =  -1.50, R)
>consensus
GGCGAGCGACCCAUGAUUUCCCGCCAAAUGAGAGGCACACAGGUAAGACAGGUAAGGGUAGGAGACAAGUACAAAGCCUGCUUGCCCAGGUGCCACUG
((((.(.((.........))))))).....((.(((((...((((((.(((((....((((....)...)))...)))))))))))...))))).)). (-30.18 = -30.62 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:38:02 2011