Locus 9652

Sequence ID dm3.chr3R
Location 8,037,320 – 8,037,483
Length 163
Max. P 0.952334
window13240 window13241

overview

Window 0

Location 8,037,320 – 8,037,417
Length 97
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 81.71
Shannon entropy 0.32481
G+C content 0.40447
Mean single sequence MFE -33.96
Consensus MFE -19.31
Energy contribution -20.06
Covariance contribution 0.75
Combinations/Pair 1.23
Mean z-score -2.68
Structure conservation index 0.57
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.58
SVM RNA-class probability 0.952334
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 8037320 97 + 27905053
CUAUAUAGCUUUCCAUUUCAUUCGAGUAUAAGUAUGUUUACGAUAGUGUUGU----------------------GCCUGG-AACUAAGUCCACGACGCUCGCAGUGUGGGCUUAGUUGUA
........((...(((..((((...(((..........)))...))))..))----------------------)...))-(((((((((((((..(....)..)))))))))))))... ( -24.00, z-score =  -0.62, R)
>droEre2.scaffold_4770 4162443 116 - 17746568
-CUUAUAGCUUUCCAUUUCAUUCGAUUAUAAGUAUGCUUACGAUAAUGUUGUUUUGGGUAGUUAAAAUCGAAGUGCCUGGGAACUAAGUCCA---UACUUGCUGUGUGAGCUUAGUUGUA
-..........((((.....(((((((.(((.(((.(..(((((...)))))...).))).))).))))))).....))))(((((((..((---(((.....)))))..)))))))... ( -33.00, z-score =  -3.13, R)
>droYak2.chr3R 12354099 115 + 28832112
--CUUUAGCUUUCCAUUUCAUUCAUCGAUAAGUAGGCUUACGAUAAUGUUGUUUUGGGUAGUUAAAAGCGAAGUGCCCGGGAACUAAGUCUA---UACUUGCUGUGUGGGCUUAGUUGUA
--.........(((((..((((.((((.((((....))))))))))))..))...(((((.((.......)).))))))))(((((((((((---(((.....))))))))))))))... ( -36.50, z-score =  -3.19, R)
>droSec1.super_0 7181509 117 - 21120651
CUAUAUAGCUUUCCAUUUCAUUCGAUUAUAAGUAUGUUUACGAUAGUGUUGUUUUGGGCAGUUAAGAUCGAAGUGCCUGGGAACUAAGUCCA---CGCUCGCGGUGUGGGCUUAGUUGUA
...........((((.....(((((((.(((...((((((.((((....)))).)))))).))).))))))).....))))(((((((((((---(((.....))))))))))))))... ( -37.20, z-score =  -2.94, R)
>droSim1.chr3R 14168354 117 - 27517382
CUAUAUAGCUUUCCAUUUCAUUCGAUUAUAACUAUGUUUACGAUAGUGUUGUUUUGGGCAGUUAAGAUCGAAGUGCCUGGGAACUAAGUCCA---CGCUCGCGGUGUGGGCUUAGUUGUA
...........((((.....(((((((.(((((..(((((.((((....)))).)))))))))).))))))).....))))(((((((((((---(((.....))))))))))))))... ( -39.10, z-score =  -3.49, R)
>consensus
CUAUAUAGCUUUCCAUUUCAUUCGAUUAUAAGUAUGUUUACGAUAGUGUUGUUUUGGGCAGUUAAAAUCGAAGUGCCUGGGAACUAAGUCCA___CGCUCGCGGUGUGGGCUUAGUUGUA
...........(((........((((.....(((....)))......))))....(((((.((.......)).))))))))(((((((((((...(((.....))))))))))))))... (-19.31 = -20.06 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 8,037,377 – 8,037,483
Length 106
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.88
Shannon entropy 0.24565
G+C content 0.46062
Mean single sequence MFE -33.80
Consensus MFE -22.46
Energy contribution -23.02
Covariance contribution 0.56
Combinations/Pair 1.16
Mean z-score -1.92
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.05
SVM RNA-class probability 0.517957
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 8037377 106 + 27905053
GAACUAAGUCCACGACGCUCGCAGUGUGGGCUUAGUUGUAAUGGCUUAAUGGGAUUUUGAUAAGGUUCCU---------CUGGUGGUUUAUGUACCCGACAUCACA-----GACAUUGCA
.(((((((((((((..(....)..)))))))))))))((((((.......(((((((.....)))))))(---------((((.(((......))))(....).))-----)))))))). ( -34.30, z-score =  -1.98, R)
>droEre2.scaffold_4770 4162522 112 - 17746568
GAACUAAGUCCAU---ACUUGCUGUGUGAGCUUAGUUGUAAUGGCCUAAUGGGGUUUUGAUAAGGUUCCUCUGGUUCCUCUGGUGGUUUGUGUACCCGACAUCACA-----GAAAUUGCA
.(((((((..(((---((.....)))))..)))))))(((((((((....((..(((.....)))..))...))))..((((.(((((((......))).))))))-----)).))))). ( -31.10, z-score =  -0.72, R)
>droYak2.chr3R 12354177 108 + 28832112
GAACUAAGUCUAU---ACUUGCUGUGUGGGCUUAGUUGUAAUGGCUUAAUGGGGUUUUGAUAAGGUUCCU---------CUGGUGGUUUAUGUACCCGACAUCACUCACCCGACAUUGCA
.((((((((((((---((.....))))))))))))))((((((.......((..(((.....)))..))(---------(.((((..(.((((.....)))).)..)))).)))))))). ( -36.40, z-score =  -2.67, R)
>droSec1.super_0 7181589 97 - 21120651
GAACUAAGUCCAC---GCUCGCGGUGUGGGCUUAGUUGUAAUGGCUUAAUGGGAUUUCGAUAAGGUGUA----------CUGGUGGUUUAUGUACCCGACAUCACA-----GACA-----
.((((((((((((---((.....))))))))))))))..........................(((((.----------(.((((.......)))).))))))...-----....----- ( -30.00, z-score =  -1.25, R)
>droSim1.chr3R 14168434 103 - 27517382
GAACUAAGUCCAC---GCUCGCGGUGUGGGCUUAGUUGUAAUGGCUUAAUGGGAUUUCGAUAAGGUUCCU---------CUGGUGGUUUAUGUACCCGACAUCACA-----GACAUUGCA
.((((((((((((---((.....))))))))))))))((((((.......(((((((.....)))))))(---------((((.(((......))))(....).))-----)))))))). ( -37.20, z-score =  -2.98, R)
>consensus
GAACUAAGUCCAC___GCUCGCGGUGUGGGCUUAGUUGUAAUGGCUUAAUGGGAUUUUGAUAAGGUUCCU_________CUGGUGGUUUAUGUACCCGACAUCACA_____GACAUUGCA
.((((((((((((...((.....))))))))))))))((((((.......(((((((.....)))))))...........(((((..............))))).........)))))). (-22.46 = -23.02 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:08:30 2011