Locus 8155

Sequence ID dm3.chr3L
Location 20,642,711 – 20,642,781
Length 70
Max. P 0.701928
window11219 window11220

overview

Window 9

Location 20,642,711 – 20,642,781
Length 70
Sequences 6
Columns 77
Reading direction forward
Mean pairwise identity 85.07
Shannon entropy 0.27669
G+C content 0.53347
Mean single sequence MFE -23.12
Consensus MFE -16.28
Energy contribution -18.17
Covariance contribution 1.89
Combinations/Pair 1.05
Mean z-score -1.83
Structure conservation index 0.70
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.45
SVM RNA-class probability 0.701928
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 20642711 70 + 24543557
UUGUGGAUAUAUUUUCGAUUGCAGGCUGCAGGCU-------GGAAAUCUCUGAGCCUGCUCCACGAGCACGUCCACC
..((((((.....((((...(((((((.((((.(-------....).).))))))))))....))))...)))))). ( -25.80, z-score =  -2.56, R)
>droSim1.chr3L 19995033 70 + 22553184
UUGUGGAUAUAUUUUCGAUUGCAGGCUGCAGGCU-------GGAAAUCUCUGAGCCUGCUCCACGAGCACGUCCACC
..((((((.....((((...(((((((.((((.(-------....).).))))))))))....))))...)))))). ( -25.80, z-score =  -2.56, R)
>droSec1.super_11 532020 70 + 2888827
UUGUGGAUAUAUUUUCGAUUGCAGGCUGCAGGCU-------GGAAAUCUCUGAGCCUGCUCCACGAGCACGUCCACC
..((((((.....((((...(((((((.((((.(-------....).).))))))))))....))))...)))))). ( -25.80, z-score =  -2.56, R)
>droYak2.chr3L 4289942 69 - 24197627
UUGUGAAUAU-UUUUCGAUUGCAGGCUGCAGGCU-------GGAUAUCUCUGAGCCUGCUCCACGAGCACGUCCACC
..(((.((..-..((((...(((((((.((((..-------.......)))))))))))....))))...)).))). ( -19.20, z-score =  -0.68, R)
>droEre2.scaffold_4784 20336032 70 + 25762168
UUGCGGAUAAAUUUUCGAUUGCAGGCUGCAGGCU-------GGAAAUCUCGGAGCCUGCUCCACGAGCACGUCCACC
....((((.....((((...(((((((.(..(.(-------....).)..).)))))))....))))...))))... ( -22.50, z-score =  -1.01, R)
>droAna3.scaffold_13337 10994604 69 + 23293914
--------UUCAUUUCGAUUGCAGGCCACAGGCCUGCCAUAGGAAAUUUCUUGGCCAGGUCCACGAUCACGUCCACC
--------............(((((((...)))))))....(((....((.(((......))).)).....)))... ( -19.60, z-score =  -1.60, R)
>consensus
UUGUGGAUAUAUUUUCGAUUGCAGGCUGCAGGCU_______GGAAAUCUCUGAGCCUGCUCCACGAGCACGUCCACC
..((((((.....((((...(((((((.((((................)))))))))))....))))...)))))). (-16.28 = -18.17 +   1.89)

alignment

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secondary structure

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dotplot

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Window 0

Location 20,642,711 – 20,642,781
Length 70
Sequences 6
Columns 77
Reading direction reverse
Mean pairwise identity 85.07
Shannon entropy 0.27669
G+C content 0.53347
Mean single sequence MFE -23.85
Consensus MFE -16.90
Energy contribution -18.57
Covariance contribution 1.67
Combinations/Pair 1.14
Mean z-score -1.69
Structure conservation index 0.71
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.26
SVM RNA-class probability 0.615189
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 20642711 70 - 24543557
GGUGGACGUGCUCGUGGAGCAGGCUCAGAGAUUUCC-------AGCCUGCAGCCUGCAAUCGAAAAUAUAUCCACAA
.(((((..((.(((....((((((((((.(......-------..)))).)))))))...)))...))..))))).. ( -25.70, z-score =  -2.41, R)
>droSim1.chr3L 19995033 70 - 22553184
GGUGGACGUGCUCGUGGAGCAGGCUCAGAGAUUUCC-------AGCCUGCAGCCUGCAAUCGAAAAUAUAUCCACAA
.(((((..((.(((....((((((((((.(......-------..)))).)))))))...)))...))..))))).. ( -25.70, z-score =  -2.41, R)
>droSec1.super_11 532020 70 - 2888827
GGUGGACGUGCUCGUGGAGCAGGCUCAGAGAUUUCC-------AGCCUGCAGCCUGCAAUCGAAAAUAUAUCCACAA
.(((((..((.(((....((((((((((.(......-------..)))).)))))))...)))...))..))))).. ( -25.70, z-score =  -2.41, R)
>droYak2.chr3L 4289942 69 + 24197627
GGUGGACGUGCUCGUGGAGCAGGCUCAGAGAUAUCC-------AGCCUGCAGCCUGCAAUCGAAAA-AUAUUCACAA
.(((((..(..(((....((((((((((.(......-------..)))).)))))))...)))...-)..))))).. ( -23.30, z-score =  -1.77, R)
>droEre2.scaffold_4784 20336032 70 - 25762168
GGUGGACGUGCUCGUGGAGCAGGCUCCGAGAUUUCC-------AGCCUGCAGCCUGCAAUCGAAAAUUUAUCCGCAA
.(((((.((..(((....(((((((.((.(......-------..).)).)))))))...)))..))...))))).. ( -21.10, z-score =  -0.20, R)
>droAna3.scaffold_13337 10994604 69 - 23293914
GGUGGACGUGAUCGUGGACCUGGCCAAGAAAUUUCCUAUGGCAGGCCUGUGGCCUGCAAUCGAAAUGAA--------
(((..(((....)))..)))..........(((((.....(((((((...)))))))....)))))...-------- ( -21.60, z-score =  -0.91, R)
>consensus
GGUGGACGUGCUCGUGGAGCAGGCUCAGAGAUUUCC_______AGCCUGCAGCCUGCAAUCGAAAAUAUAUCCACAA
.(((((.(((.(((....((((((((((..................))).)))))))...)))...))).))))).. (-16.90 = -18.57 +   1.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:40:27 2011