Locus 9312

Sequence ID dm3.chr3R
Location 5,811,959 – 5,812,062
Length 103
Max. P 0.745812
window12769 window12770

overview

Window 9

Location 5,811,959 – 5,812,054
Length 95
Sequences 5
Columns 95
Reading direction reverse
Mean pairwise identity 71.89
Shannon entropy 0.50539
G+C content 0.36565
Mean single sequence MFE -16.16
Consensus MFE -11.10
Energy contribution -11.22
Covariance contribution 0.12
Combinations/Pair 1.17
Mean z-score -0.61
Structure conservation index 0.69
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.14
SVM RNA-class probability 0.561960
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 5811959 95 - 27905053
ACAUUAGGUUCGAGGCCCUGCUAGAAGUGUUCCAGAGUUCUGAACCUUGAUUCUAUCCACUUAAAAAACUAUAUUAUUUCUUUUUACAUUUCUUU
.((..(((((((..((.(((............))).))..))))))))).............................................. ( -12.80, z-score =   0.33, R)
>droEre2.scaffold_4770 1955872 78 + 17746568
AGUUUAGGUUUGAGACCCUGCUAAAACUGCACCAGAGUUCUGAACCCAGAUUCUGUCCACCAAAAAUAUUUUAUUUUU-----------------
......(((..((.....(((.......))).((((((.(((....))))))))))).))).................----------------- ( -12.60, z-score =  -0.80, R)
>droYak2.chr3R 9860039 95 - 28832112
ACAAUAGGUUCGAGGCUCUGAUAGAAGCAUAUCAGAGUUCUCAACCUAGAUUUCAUUCACUUUAGGAACCACAUAAGAGCGUUCUAAAUUUGUUG
((((((((((.((((((((((((......)))))))).))))))))))................((((((........).)))))....)))).. ( -26.60, z-score =  -3.39, R)
>droSec1.super_0 5014526 94 + 21120651
ACAUUAGGUUCGAGGCCCUGCUAG-AGUGUUCCAGAGUUCUGAACCUUGAUUCUAUCCGCUUUAAGACUUAUAUAAAAUCUUUCUAAAUUUCUUU
....((((((.(((((...(.(((-(((((((.((....))))))....)))))).).)))))..))))))........................ ( -13.70, z-score =   0.81, R)
>droSim1.chr3R 11963283 95 + 27517382
ACAUUAGGUUCGAGGCCCUGCUAGAAGUGUUCCAGAGUUCUGAACCUUGACUCUAUCCGCUUUAAAACCUAUAUAAAAUCUUGCUAAAUUUCUUU
....((((((.(((((...(.((((((.((((.((....))))))))....)))).).)))))..))))))........................ ( -15.10, z-score =  -0.01, R)
>consensus
ACAUUAGGUUCGAGGCCCUGCUAGAAGUGUUCCAGAGUUCUGAACCUUGAUUCUAUCCACUUUAAAAACUAUAUAAAAUCUUUCUAAAUUUCUUU
.....(((((((..((.(((............))).))..)))))))................................................ (-11.10 = -11.22 +   0.12)

alignment

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secondary structure

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dotplot

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Window 0

Location 5,811,967 – 5,812,062
Length 95
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 70.17
Shannon entropy 0.53343
G+C content 0.40814
Mean single sequence MFE -17.10
Consensus MFE -11.10
Energy contribution -11.22
Covariance contribution 0.12
Combinations/Pair 1.17
Mean z-score -0.81
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.57
SVM RNA-class probability 0.745812
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 5811967 95 - 27905053
---GACCACCCACAUUAGGUUCGAGGCCCUGCUAGAAGUGUUCCAGAGUUCUGAACCUUGAUUCUAUCCACUUAAAAAACUAUAUUAUUUCUUUUUAC
---.........((..(((((((..((.(((............))).))..)))))))))...................................... ( -12.80, z-score =   0.41, R)
>droEre2.scaffold_4770 1955877 84 + 17746568
GAGGAUUCAUCAGUUUAGGUUUGAGACCCUGCUAAAACUGCACCAGAGUUCUGAACCCAGAUUCUGUCCACCAAAAAUAUUUUA--------------
..(((.....((((((.(((..(....)..))).))))))...((((((.(((....))))))))))))...............-------------- ( -17.80, z-score =  -1.24, R)
>droYak2.chr3R 9860047 90 - 28832112
--------ACCACAAUAGGUUCGAGGCUCUGAUAGAAGCAUAUCAGAGUUCUCAACCUAGAUUUCAUUCACUUUAGGAACCACAUAAGAGCGUUCUAA
--------.......((((((.((((((((((((......)))))))).))))))))))................((((((........).))))).. ( -26.10, z-score =  -4.01, R)
>droSec1.super_0 5014534 94 + 21120651
---GACCACCCACAUUAGGUUCGAGGCCCUGCUAG-AGUGUUCCAGAGUUCUGAACCUUGAUUCUAUCCGCUUUAAGACUUAUAUAAAAUCUUUCUAA
---............((((((.(((((...(.(((-(((((((.((....))))))....)))))).).)))))..))))))................ ( -13.70, z-score =   0.78, R)
>droSim1.chr3R 11963291 95 + 27517382
---GACCACCCACAUUAGGUUCGAGGCCCUGCUAGAAGUGUUCCAGAGUUCUGAACCUUGACUCUAUCCGCUUUAAAACCUAUAUAAAAUCUUGCUAA
---............((((((.(((((...(.((((((.((((.((....))))))))....)))).).)))))..))))))................ ( -15.10, z-score =   0.01, R)
>consensus
___GACCACCCACAUUAGGUUCGAGGCCCUGCUAGAAGUGUUCCAGAGUUCUGAACCUUGAUUCUAUCCACUUUAAAAACUAUAUAAAAUCUUUCUAA
................(((((((..((.(((............))).))..)))))))........................................ (-11.10 = -11.22 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:02:00 2011