Locus 10774

Sequence ID dm3.chr3R
Location 16,349,106 – 16,349,201
Length 95
Max. P 0.918229
window14802 window14803

overview

Window 2

Location 16,349,106 – 16,349,201
Length 95
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 74.78
Shannon entropy 0.44443
G+C content 0.44025
Mean single sequence MFE -25.84
Consensus MFE -15.33
Energy contribution -15.03
Covariance contribution -0.30
Combinations/Pair 1.44
Mean z-score -1.82
Structure conservation index 0.59
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.26
SVM RNA-class probability 0.918229
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 16349106 95 + 27905053
UUACUUCCCACACUACAAA-GGACAUCUU-----AAAAAUUAUCCGCCCUCU-UGGGCGGACAUAAAUACAGCAGCUCAUCCUGCGAUGGGUUAGAGAAGAA-------
...((((((..........-)).((((..-----........(((((((...-.)))))))..........((((......)))))))).......))))..------- ( -27.00, z-score =  -2.96, R)
>droAna3.scaffold_12911 2655059 93 - 5364042
UUAUUUAUAAUCUGCCUAGUAGGCAUUCA-----AGUUAUUCUUGCUCCUUU--GAGGAGCCAUUAAGACAGCCACUCAGCUUGAAAUGGGUUAGAAGUA---------
.(((((.(((((((((.....))).((((-----((((......(((((...--..)))))......((.......))))))))))..)))))).)))))--------- ( -24.40, z-score =  -1.29, R)
>droEre2.scaffold_4770 12421334 107 - 17746568
UUACUUCGCACACCACAAA-GGACAUCUAUAGUAAAAAAUUAUCCGCUCAUU-UGGGCGGACAUAAAUACGGCUGCUCAGCUGGCGAUGGGUUAGAGAAGGAAAACCGA
...((((.(...((.....-))..((((((.((.........(((((((...-.)))))))........(((((....))))))).))))))..).))))......... ( -27.80, z-score =  -1.83, R)
>droYak2.chr3R 5131650 95 + 28832112
UUACUUCCCAUACAACAAA-GGACAUCUA-----AAAAAUUAUUCGCCCAUC-GGGGCGGACAUAAAUACAGCUGCUCAGCCUGCGAUGGGUUAGAGAAGGA-------
...((((((..........-))...((((-----...........(((((((-(((((.((((..........)).)).)))).))))))))))))))))..------- ( -23.60, z-score =  -1.23, R)
>droSec1.super_27 412735 96 - 799419
UUACUUCCCACACUACAAA-GGACACCUA-----AAAAAUUAUCCGCCCUUUUGGGGCAGACAUAAAUACAGGAGCUCAUCCUGCGAUGGGUUAGAGAAGGA-------
...((((.(..........-.....(((.-----........((.((((.....)))).)).........)))((((((((....)))))))).).))))..------- ( -23.07, z-score =  -0.95, R)
>droSim1.chr3R 22396907 95 - 27517382
UUACUUCCCACACUACAAA-GGACACCUA-----AAAAAUUAUCCGCCCUUU-GGGGCGGACAUAAAUACAGGAGCUCAUCCUGCGAUGGGUUAGAGAAGGA-------
...((((.(..........-.....(((.-----........(((((((...-.))))))).........)))((((((((....)))))))).).))))..------- ( -29.17, z-score =  -2.67, R)
>consensus
UUACUUCCCACACUACAAA_GGACAUCUA_____AAAAAUUAUCCGCCCUUU_GGGGCGGACAUAAAUACAGCAGCUCAGCCUGCGAUGGGUUAGAGAAGGA_______
...((((...................................(((((((.....))))))).............(((((........)))))....))))......... (-15.33 = -15.03 +  -0.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 16,349,106 – 16,349,201
Length 95
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 74.78
Shannon entropy 0.44443
G+C content 0.44025
Mean single sequence MFE -27.25
Consensus MFE -14.38
Energy contribution -15.66
Covariance contribution 1.29
Combinations/Pair 1.30
Mean z-score -1.73
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.64
SVM RNA-class probability 0.771740
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 16349106 95 - 27905053
-------UUCUUCUCUAACCCAUCGCAGGAUGAGCUGCUGUAUUUAUGUCCGCCCA-AGAGGGCGGAUAAUUUUU-----AAGAUGUCC-UUUGUAGUGUGGGAAGUAA
-------..((((((.....((((((((......))))........(((((((((.-...)))))))))......-----..))))..(-(....))...))))))... ( -30.40, z-score =  -2.38, R)
>droAna3.scaffold_12911 2655059 93 + 5364042
---------UACUUCUAACCCAUUUCAAGCUGAGUGGCUGUCUUAAUGGCUCCUC--AAAGGAGCAAGAAUAACU-----UGAAUGCCUACUAGGCAGAUUAUAAAUAA
---------...((((....((((...((((....)))).....))))(((((..--...))))).)))).....-----....((((.....))))............ ( -21.50, z-score =  -1.03, R)
>droEre2.scaffold_4770 12421334 107 + 17746568
UCGGUUUUCCUUCUCUAACCCAUCGCCAGCUGAGCAGCCGUAUUUAUGUCCGCCCA-AAUGAGCGGAUAAUUUUUUACUAUAGAUGUCC-UUUGUGGUGUGCGAAGUAA
..((((..........))))..((((..(((....)))........(((((((.(.-...).)))))))......(((((((((.....-))))))))).))))..... ( -24.50, z-score =  -0.85, R)
>droYak2.chr3R 5131650 95 - 28832112
-------UCCUUCUCUAACCCAUCGCAGGCUGAGCAGCUGUAUUUAUGUCCGCCCC-GAUGGGCGAAUAAUUUUU-----UAGAUGUCC-UUUGUUGUAUGGGAAGUAA
-------..((((((...(((((((..(((.(..((..........))..)))).)-))))))...(((((....-----.((.....)-)..)))))..))))))... ( -23.30, z-score =  -0.45, R)
>droSec1.super_27 412735 96 + 799419
-------UCCUUCUCUAACCCAUCGCAGGAUGAGCUCCUGUAUUUAUGUCUGCCCCAAAAGGGCGGAUAAUUUUU-----UAGGUGUCC-UUUGUAGUGUGGGAAGUAA
-------((((.(.(((...((((((((((.....)))))).....(((((((((.....)))))))))......-----..))))...-....))).).))))..... ( -30.80, z-score =  -2.47, R)
>droSim1.chr3R 22396907 95 + 27517382
-------UCCUUCUCUAACCCAUCGCAGGAUGAGCUCCUGUAUUUAUGUCCGCCCC-AAAGGGCGGAUAAUUUUU-----UAGGUGUCC-UUUGUAGUGUGGGAAGUAA
-------((((.(.(((...((((((((((.....)))))).....(((((((((.-...)))))))))......-----..))))...-....))).).))))..... ( -33.00, z-score =  -3.20, R)
>consensus
_______UCCUUCUCUAACCCAUCGCAGGAUGAGCUGCUGUAUUUAUGUCCGCCCC_AAAGGGCGGAUAAUUUUU_____UAGAUGUCC_UUUGUAGUGUGGGAAGUAA
.........((((((.....((((((((.........)))).....(((((((((.....))))))))).............))))..............))))))... (-14.38 = -15.66 +   1.29)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:30:10 2011