Locus 15056

Sequence ID dm3.chrX
Location 17,195,820 – 17,195,978
Length 158
Max. P 0.805872
window20748 window20749

overview

Window 8

Location 17,195,820 – 17,195,940
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.00
Shannon entropy 0.05414
G+C content 0.42000
Mean single sequence MFE -28.34
Consensus MFE -27.62
Energy contribution -27.86
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -1.38
Structure conservation index 0.97
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.75
SVM RNA-class probability 0.805872
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17195820 120 - 22422827
AAACAUCUAACAAAAGCGCUUCGCACGCACAGCAAACCGGUCGAUUCCGAAUUCAGACGUGCUAAAUAACGUUUGAAAACAAAAUUUGCUCGGUUGACGUUGUAAAUAACAACACGGAGG
...............(((.......)))........((((((((..((((.(((((((((........)))))))))..((.....)).)))))))))(((((.....))))).)))... ( -29.50, z-score =  -1.69, R)
>droEre2.scaffold_4690 7536439 120 - 18748788
AAACAUCUAACAAAAGCGCUUCGCACGCACAGCAAACCGGUCGAUUCCGAAUUCAGACGUGCCAAAUAACGUUUGAAAACAAAAUUUGCUCGGUUGAAGUUGUAAAUAACAACACGGAGG
..................(((((((.((..((((((.(((......)))..(((((((((........))))))))).......))))))..))))..(((((.....))))).))))). ( -28.80, z-score =  -1.52, R)
>droYak2.chrX 15810956 120 - 21770863
AAACAUAUAACAAAAGCGCUUCGCACGCACAGCAAACCGGUCGAUUCCGAAUUCAGACGUGCUUAAUAACGUUUGUAAGCAAAAUUUGCUCGGUUGAAGUUGUAAAUAACAACACGAAGG
..................(((((...........(((((((.((((..(....(((((((........)))))))....)..)))).)).)))))...(((((.....))))).))))). ( -26.90, z-score =  -0.81, R)
>droSec1.super_17 1042362 120 - 1527944
AAACAUCUAACAAAAGCGCUUCGCACGCACAGCAAACCGGUCGAUUCCGAACUCAGACGUGCUAUAUAACGUUUGAAAACAAAAUUUGCUCGGUUGAAGUUGUAAAUAACAACACGGAGG
..................(((((((.((..((((((.(((......)))...((((((((........))))))))........))))))..))))..(((((.....))))).))))). ( -27.70, z-score =  -1.26, R)
>droSim1.chrX 3327092 120 + 17042790
AAACAUCUAACAAAAGCGCUUCGCACGCACAGCAAACCGGUCGAUUCCGAAUUCAGACGUGCUAAAUAACGUUUGAAAACAAAAUUUGCUCGGUUGAAGUUGUAAAUAACAACACGGAGG
..................(((((((.((..((((((.(((......)))..(((((((((........))))))))).......))))))..))))..(((((.....))))).))))). ( -28.80, z-score =  -1.61, R)
>consensus
AAACAUCUAACAAAAGCGCUUCGCACGCACAGCAAACCGGUCGAUUCCGAAUUCAGACGUGCUAAAUAACGUUUGAAAACAAAAUUUGCUCGGUUGAAGUUGUAAAUAACAACACGGAGG
..................(((((((.((..((((((.(((......)))..(((((((((........))))))))).......))))))..))))..(((((.....))))).))))). (-27.62 = -27.86 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 17,195,860 – 17,195,978
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.97
Shannon entropy 0.05414
G+C content 0.40367
Mean single sequence MFE -24.70
Consensus MFE -23.80
Energy contribution -24.20
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.09
Structure conservation index 0.96
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.14
SVM RNA-class probability 0.563687
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17195860 118 - 22422827
CACAAUACAA--CCUGCAAUUUAGUUUUCUGUUUGUUGUUAAACAUCUAACAAAAGCGCUUCGCACGCACAGCAAACCGGUCGAUUCCGAAUUCAGACGUGCUAAAUAACGUUUGAAAAC
..........--...........((((.((((.((((((((......)))))...(((...)))))).)))).))))(((......)))..(((((((((........)))))))))... ( -25.30, z-score =  -1.34, R)
>droEre2.scaffold_4690 7536479 118 - 18748788
CACAAUACAA--CCUGCAAUUUAGUUUUCUGUUUGUUGUUAAACAUCUAACAAAAGCGCUUCGCACGCACAGCAAACCGGUCGAUUCCGAAUUCAGACGUGCCAAAUAACGUUUGAAAAC
..........--...........((((.((((.((((((((......)))))...(((...)))))).)))).))))(((......)))..(((((((((........)))))))))... ( -25.30, z-score =  -1.34, R)
>droYak2.chrX 15810996 118 - 21770863
CACAAUACAA--CCUGCAAUUUAGUUUUCUGUUUGUUGUUAAACAUAUAACAAAAGCGCUUCGCACGCACAGCAAACCGGUCGAUUCCGAAUUCAGACGUGCUUAAUAACGUUUGUAAGC
.....(((((--.(((.(((((.((((.(((((((((((.......)))))))..(((.......))))))).)))).((......))))))))))((((........)))))))))... ( -23.40, z-score =  -0.29, R)
>droSec1.super_17 1042402 120 - 1527944
CACAAUACAACCCCUGCAAUUUAGUUUUCUGUUUGUUGUUAAACAUCUAACAAAAGCGCUUCGCACGCACAGCAAACCGGUCGAUUCCGAACUCAGACGUGCUAUAUAACGUUUGAAAAC
.......................((((.((((.((((((((......)))))...(((...)))))).)))).))))(((......)))...((((((((........)))))))).... ( -24.20, z-score =  -1.14, R)
>droSim1.chrX 3327132 118 + 17042790
CACAAUACAA--CCUGCAAUUUAGUUUUCUGUUUGUUGUUAAACAUCUAACAAAAGCGCUUCGCACGCACAGCAAACCGGUCGAUUCCGAAUUCAGACGUGCUAAAUAACGUUUGAAAAC
..........--...........((((.((((.((((((((......)))))...(((...)))))).)))).))))(((......)))..(((((((((........)))))))))... ( -25.30, z-score =  -1.34, R)
>consensus
CACAAUACAA__CCUGCAAUUUAGUUUUCUGUUUGUUGUUAAACAUCUAACAAAAGCGCUUCGCACGCACAGCAAACCGGUCGAUUCCGAAUUCAGACGUGCUAAAUAACGUUUGAAAAC
.......................((((.((((.((((((((......)))))...(((...)))))).)))).))))(((......)))..(((((((((........)))))))))... (-23.80 = -24.20 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:52:11 2011