Locus 5084

Sequence ID dm3.chr2R
Location 17,609,032 – 17,609,173
Length 141
Max. P 0.979498
window6977 window6978

overview

Window 7

Location 17,609,032 – 17,609,133
Length 101
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 68.14
Shannon entropy 0.59181
G+C content 0.41139
Mean single sequence MFE -22.58
Consensus MFE -11.77
Energy contribution -11.28
Covariance contribution -0.49
Combinations/Pair 1.65
Mean z-score -1.75
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.02
SVM RNA-class probability 0.979498
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 17609032 101 + 21146708
UAUUACAAAUUUCGAGCUUCUGUUUCUGUGUGUUUUAUGAAGCUGAUAAGCAGC------ACCCACCGCCCUGCUUA-UCAGCUUAGAGUUCUGCCCUCAUAUGCUAC
.............((((....))))..((((((......((((((((((((((.------.(.....)..)))))))-))))))).(((.......)))))))))... ( -25.60, z-score =  -2.47, R)
>droSim1.chr2R 16260572 107 + 19596830
UAUUACAACUUUCGAGCUUCUGUUUCUGUGUGUUUUAUGGAACUGAUAAGCGGUUCCAUAACCCACCGCCCUGCUUA-UCAGUUUAGAGUUCUGCCUUCAUAUGCUAC
.............(((((.(((...(((.(((..(((((((((((.....)))))))))))..))).((...))...-.)))..))))))))................ ( -26.60, z-score =  -2.70, R)
>droSec1.super_9 934941 101 + 3197100
UAUUACAAAUUUCGAACUUCUUUUUCUGUGUGUUUUAUGGAGCUAAUAAGCAGC------ACCCACCGCCCUGCUUA-UCAGUUUAGAGUUCUGCCUUCAUAUGCUAC
.............((((((.....((((((.....))))))(((.((((((((.------.(.....)..)))))))-).)))...))))))................ ( -18.40, z-score =  -0.78, R)
>droYak2.chr2R 9577923 96 - 21139217
UAUUACAAAUUUCGAGCUUCUUUUUU--U---UUUUAUGAAGCUGAUAAGUAGC------ACCCCCCGCCCUGCUUA-UCAGUUUAGGGCUCUGCCCUCAUGUGUCAG
...((((...................--.---.......((((((((((((((.------.(.....)..)))))))-)))))))(((((...)))))..)))).... ( -24.30, z-score =  -3.06, R)
>droEre2.scaffold_4845 11758271 97 + 22589142
UAUUACAAAUGUCGAGGUUUUUCUUUGGU---UUGUUUGGUGCUGAUAAGUAGC------ACCCCC-GCCCUGCUUA-UCAGUUUAGAGUUCUGCCCUCAUGUGUUAU
....(((.(((..(.(((....((((((.---.........((((((((((((.------.(....-)..)))))))-)))))))))))....)))).))).)))... ( -21.60, z-score =  -1.20, R)
>droMoj3.scaffold_6540 18928103 101 - 34148556
UUCAAGGACUUUUAAGCUUACGAACUGUUGUUAUGCAUGCAGUAAAGGAAUACUCUC--AGUAAAGUAUCCUAAUUAAUUCAUUUAAAGUCCCGCUGUGCUGC-----
.....(((((((...........(((((((.....)).)))))..((((.((((...--.....)))))))).............))))))).((......))----- ( -19.00, z-score =  -0.30, R)
>consensus
UAUUACAAAUUUCGAGCUUCUGUUUCUGUGUGUUUUAUGGAGCUGAUAAGCAGC______ACCCACCGCCCUGCUUA_UCAGUUUAGAGUUCUGCCCUCAUAUGCUAC
.............((((((....................((((((((((((((.................))))))).))))))).))))))................ (-11.77 = -11.28 +  -0.49)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 17,609,067 – 17,609,173
Length 106
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 79.98
Shannon entropy 0.34527
G+C content 0.43514
Mean single sequence MFE -26.40
Consensus MFE -22.29
Energy contribution -21.73
Covariance contribution -0.56
Combinations/Pair 1.33
Mean z-score -1.20
Structure conservation index 0.84
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.74
SVM RNA-class probability 0.803753
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 17609067 106 + 21146708
UAUGAAGCUGAUAAGCAGC------ACCCACCGCCCUGCUUAUCAGCUUAGAGUUCUGCCCUCAUAUGCUACCAUAAGGAAAUUCCGGGCUAAGAUAACGGAUUUGUAAUUG
....((((((((((((((.------.(.....)..)))))))))))))).((((((.((((...((((....)))).((.....))))))...(....)))))))....... ( -31.80, z-score =  -2.84, R)
>droSim1.chr2R 16260607 112 + 19596830
UAUGGAACUGAUAAGCGGUUCCAUAACCCACCGCCCUGCUUAUCAGUUUAGAGUUCUGCCUUCAUAUGCUACCAUUAGGAAAUUCCGGGUUAAGAUAACGAAUUUGUAAUUG
....((((((((((((((..(...........)..)))))))))))))).((((((.((........)).(((....((.....)).))).........))))))....... ( -26.00, z-score =  -1.23, R)
>droSec1.super_9 934976 106 + 3197100
UAUGGAGCUAAUAAGCAGC------ACCCACCGCCCUGCUUAUCAGUUUAGAGUUCUGCCUUCAUAUGCUACCAUUAGGAAAUUCCGGGUUAAGAUAAGGAAUUUGUAAUUG
....(((((.((((((((.------.(.....)..)))))))).))))).(((((((....((.((....(((....((.....)).))))).))...)))))))....... ( -21.80, z-score =   0.31, R)
>droYak2.chr2R 9577953 106 - 21139217
UAUGAAGCUGAUAAGUAGC------ACCCCCCGCCCUGCUUAUCAGUUUAGGGCUCUGCCCUCAUGUGUCAGCAUAAGGAAAUUCCGGGUGAAGAUUACGGAUUUGUAAUUA
((((((((((((((((((.------.(.....)..))))))))))))))(((((...)))))))))..(((.(....((.....)).).))).(((((((....))))))). ( -31.40, z-score =  -1.61, R)
>droEre2.scaffold_4845 11758303 92 + 22589142
UUUGGUGCUGAUAAGUAGC------ACCC-CCGCCCUGCUUAUCAGUUUAGAGUUCUGCCCUCAUGUGUUAUCAUAAGGAAAUUACGGAUUUGGAAUUG-------------
......((((((((((((.------.(..-..)..))))))))))))....((((((..(((.(((......))).)))(((((...))))))))))).------------- ( -21.00, z-score =  -0.64, R)
>consensus
UAUGGAGCUGAUAAGCAGC______ACCCACCGCCCUGCUUAUCAGUUUAGAGUUCUGCCCUCAUAUGCUACCAUAAGGAAAUUCCGGGUUAAGAUAACGAAUUUGUAAUUG
....((((((((((((((.................)))))))))))))).....(((((((...((((....)))).((.....))))))..)))................. (-22.29 = -21.73 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:41:33 2011