Locus 5677

Sequence ID dm3.chr3L
Location 467,684 – 467,779
Length 95
Max. P 0.767990
window7799 window7800

overview

Window 9

Location 467,684 – 467,779
Length 95
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 88.16
Shannon entropy 0.21006
G+C content 0.40125
Mean single sequence MFE -20.66
Consensus MFE -16.92
Energy contribution -17.64
Covariance contribution 0.72
Combinations/Pair 1.08
Mean z-score -1.71
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.63
SVM RNA-class probability 0.767990
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 467684 95 + 24543557
AAAAGCGAAACCGAACCAAUCGAAAUUGUUCGAUUAAUUGCACAUAAUUGGAUGCCGAUUGAGAUGACACGAUCUCU-GGCUAAUUAGCGCUAAAC
...((((....(((((.(((....)))))))).((((((((.((.((((((...))))))(((((......))))))-))).)))))))))).... ( -20.50, z-score =  -1.76, R)
>droSim1.chr2R 8686212 95 + 19596830
AAAAGCGAAACCGAACCAAUCGAAAUCGUUCGAUUAAUUGCACAUAAUUAGAUGCCGACUGAGAUGACACGAUCUCU-GGCUAAUUAGCGCUAAAC
...((((..........(((((((....))))))).........((((((...((((...(((((......))))))-))))))))).)))).... ( -20.50, z-score =  -2.00, R)
>droSec1.super_2 489669 95 + 7591821
AAAAGCGAAACCGAACCAAUCGAAAUCGUUCGAUUAAUUGCACAUAAUUAUAUGCCGAUUGAGAUGACACGAUCUCU-GGCUAAUUAGCGCUAAAC
...((((..........(((((((....))))))).........((((((...((((...(((((......))))))-))))))))).)))).... ( -20.50, z-score =  -2.03, R)
>droYak2.chr3L 444644 85 + 24197627
----------AAAAGCGAAUCGAAAUCGUUCGAUUAAUUGCAUAUAAUUUGAGGCCGAUUGAGAUGACACGAUCUCC-GGCUAAUUAGCGCUAAAC
----------...(((((((((((....))))))).........(((((...(((((...(((((......))))))-))))))))).)))).... ( -22.40, z-score =  -2.11, R)
>droEre2.scaffold_4784 465590 96 + 25762168
AAAAGCGAAACCGAACCAAUCGAAAUCGUUCGAUUAAUUGCAUAUAAUUAGAGGCCGUUUGAGAUGCCACGAUCUUCAGGCUAAUUAGCGCUAAAC
...((((..........(((((((....))))))).........(((((...((((....(((((......)))))..))))))))).)))).... ( -19.40, z-score =  -0.66, R)
>consensus
AAAAGCGAAACCGAACCAAUCGAAAUCGUUCGAUUAAUUGCACAUAAUUAGAUGCCGAUUGAGAUGACACGAUCUCU_GGCUAAUUAGCGCUAAAC
...((((..........(((((((....))))))).........((((((...(((....(((((......)))))..))))))))).)))).... (-16.92 = -17.64 +   0.72)

alignment

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secondary structure

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dotplot

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Window 0

Location 467,684 – 467,779
Length 95
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 88.16
Shannon entropy 0.21006
G+C content 0.40125
Mean single sequence MFE -22.00
Consensus MFE -19.14
Energy contribution -20.54
Covariance contribution 1.40
Combinations/Pair 1.00
Mean z-score -1.17
Structure conservation index 0.87
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.08
SVM RNA-class probability 0.534334
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 467684 95 - 24543557
GUUUAGCGCUAAUUAGCC-AGAGAUCGUGUCAUCUCAAUCGGCAUCCAAUUAUGUGCAAUUAAUCGAACAAUUUCGAUUGGUUCGGUUUCGCUUUU
....((((((....))).-.(((((((..............((((........))))(((((((((((....)))))))))))))))))))))... ( -23.20, z-score =  -1.88, R)
>droSim1.chr2R 8686212 95 - 19596830
GUUUAGCGCUAAUUAGCC-AGAGAUCGUGUCAUCUCAGUCGGCAUCUAAUUAUGUGCAAUUAAUCGAACGAUUUCGAUUGGUUCGGUUUCGCUUUU
.....(((((((((((((-.(((((......)))))....)))...)))))).))))(((((((((((....)))))))))))............. ( -23.80, z-score =  -1.37, R)
>droSec1.super_2 489669 95 - 7591821
GUUUAGCGCUAAUUAGCC-AGAGAUCGUGUCAUCUCAAUCGGCAUAUAAUUAUGUGCAAUUAAUCGAACGAUUUCGAUUGGUUCGGUUUCGCUUUU
....((((((....))).-.(((((((..............((((((....))))))(((((((((((....)))))))))))))))))))))... ( -25.80, z-score =  -2.27, R)
>droYak2.chr3L 444644 85 - 24197627
GUUUAGCGCUAAUUAGCC-GGAGAUCGUGUCAUCUCAAUCGGCCUCAAAUUAUAUGCAAUUAAUCGAACGAUUUCGAUUCGCUUUU----------
....((((.......(((-((((((......)))))...))))..................(((((((....)))))))))))...---------- ( -17.70, z-score =  -0.51, R)
>droEre2.scaffold_4784 465590 96 - 25762168
GUUUAGCGCUAAUUAGCCUGAAGAUCGUGGCAUCUCAAACGGCCUCUAAUUAUAUGCAAUUAAUCGAACGAUUUCGAUUGGUUCGGUUUCGCUUUU
.(((((.(((....))))))))(((((.(((..........))).............(((((((((((....))))))))))))))))........ ( -19.50, z-score =   0.20, R)
>consensus
GUUUAGCGCUAAUUAGCC_AGAGAUCGUGUCAUCUCAAUCGGCAUCUAAUUAUGUGCAAUUAAUCGAACGAUUUCGAUUGGUUCGGUUUCGCUUUU
.....(((((((((((((..(((((......)))))....)))...)))))).))))(((((((((((....)))))))))))............. (-19.14 = -20.54 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:53:01 2011