Locus 15586

Sequence ID dm3.chrX
Location 19,778,751 – 19,778,858
Length 107
Max. P 0.952035
window21494 window21495 window21496

overview

Window 4

Location 19,778,751 – 19,778,857
Length 106
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 88.67
Shannon entropy 0.19094
G+C content 0.50674
Mean single sequence MFE -25.56
Consensus MFE -21.52
Energy contribution -21.56
Covariance contribution 0.04
Combinations/Pair 1.05
Mean z-score -2.26
Structure conservation index 0.84
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.58
SVM RNA-class probability 0.952035
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19778751 106 + 22422827
GUCCGGCUCUUCGGAGUGCCAAAAAAAAAAAAAAAAAAUCUCGCGCUCCGCAAAAGUCGAAAGGUAUCCCACUUAGCCACUCUCAAUUACCGGGCUCUUACGGCUG
((((((((.((((((((((.......................)))))))).)).))))....((((.....................))))))))........... ( -25.30, z-score =  -1.87, R)
>droSim1.chrX 15249328 96 + 17042790
GUCCGGCUCUUCGGAGUGCCAAAAAAAA----------UCUCGCGCUCCGCAAAAGUCGAAAGGUAUCCCACUUAGCCACUCUCAAUUACCAGGCUCUUUCGGCUG
(((.((((.((((((((((.........----------....)))))))).)).))))(((((((.....))..((((..............)))))))))))).. ( -25.66, z-score =  -2.23, R)
>droSec1.super_8 2042061 87 + 3762037
GUCCGGCUCUUCGGAGUGCCAAAAAAAA----------UCUCGCGCUCCGCAAAAGUCGAAAAAAA---------GCCACUCUCAAUUACCAGGCUCUUUCGGCUG
(((.((((.((((((((((.........----------....)))))))).)).))))((((...(---------(((..............)))).))))))).. ( -24.76, z-score =  -3.00, R)
>droYak2.chrX 10175266 98 - 21770863
GUCCGGCUCUUUGGAGUGCCAAAAAAAAAA--------UCUCGCGCUCCGCAAAAGUCGAAAGGUAUCCCACUUAGCCACUCUCAAUUACCGGGCUCUUUCGGCUG
............(((((((...........--------....))))))).....((((((((((...(((.....................))).)))))))))). ( -24.96, z-score =  -1.40, R)
>droEre2.scaffold_4690 9981941 95 + 18748788
GUCCGGCU-UUCGGAGUGCCAAAAAAAA----------UCUCGCGCUCCGCAAAAGUCGAAAGGUAUCCCACUUAUCCACUCUCAAUUACCGGGCUCUUUCGGCUG
(((.((((-((((((((((.........----------....))))))))..))))))((((((...(((.....................))).))))))))).. ( -27.12, z-score =  -2.80, R)
>consensus
GUCCGGCUCUUCGGAGUGCCAAAAAAAA__________UCUCGCGCUCCGCAAAAGUCGAAAGGUAUCCCACUUAGCCACUCUCAAUUACCGGGCUCUUUCGGCUG
((((((((.((((((((((.......................)))))))).)).)))))................(((..............)))......))).. (-21.52 = -21.56 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 19,778,751 – 19,778,857
Length 106
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 88.67
Shannon entropy 0.19094
G+C content 0.50674
Mean single sequence MFE -31.00
Consensus MFE -25.84
Energy contribution -26.20
Covariance contribution 0.36
Combinations/Pair 1.04
Mean z-score -1.54
Structure conservation index 0.83
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.28
SVM RNA-class probability 0.626874
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19778751 106 - 22422827
CAGCCGUAAGAGCCCGGUAAUUGAGAGUGGCUAAGUGGGAUACCUUUCGACUUUUGCGGAGCGCGAGAUUUUUUUUUUUUUUUUUUGGCACUCCGAAGAGCCGGAC
..(((....).))((((...(((((((.(.((.....))...))))))))(((((.(((((.((.(((...............))).)).)))))))))))))).. ( -30.06, z-score =  -0.66, R)
>droSim1.chrX 15249328 96 - 17042790
CAGCCGAAAGAGCCUGGUAAUUGAGAGUGGCUAAGUGGGAUACCUUUCGACUUUUGCGGAGCGCGAGA----------UUUUUUUUGGCACUCCGAAGAGCCGGAC
..(((....).))((((...(((((((.(.((.....))...))))))))(((((.(((((.((.(((----------.....))).)).)))))))))))))).. ( -30.20, z-score =  -1.09, R)
>droSec1.super_8 2042061 87 - 3762037
CAGCCGAAAGAGCCUGGUAAUUGAGAGUGGC---------UUUUUUUCGACUUUUGCGGAGCGCGAGA----------UUUUUUUUGGCACUCCGAAGAGCCGGAC
.....(((((((((..............)))---------))))))(((.(((((.(((((.((.(((----------.....))).)).)))))))))).))).. ( -28.74, z-score =  -1.47, R)
>droYak2.chrX 10175266 98 + 21770863
CAGCCGAAAGAGCCCGGUAAUUGAGAGUGGCUAAGUGGGAUACCUUUCGACUUUUGCGGAGCGCGAGA--------UUUUUUUUUUGGCACUCCAAAGAGCCGGAC
..(((....).))(((((...........((.((((.(((.....))).))))..))((((.((.(((--------.......))).)).)))).....))))).. ( -31.60, z-score =  -1.51, R)
>droEre2.scaffold_4690 9981941 95 - 18748788
CAGCCGAAAGAGCCCGGUAAUUGAGAGUGGAUAAGUGGGAUACCUUUCGACUUUUGCGGAGCGCGAGA----------UUUUUUUUGGCACUCCGAA-AGCCGGAC
..(((....).))(((((....((((((.((.....((....))..)).)))))).(((((.((.(((----------.....))).)).)))))..-.))))).. ( -34.40, z-score =  -2.96, R)
>consensus
CAGCCGAAAGAGCCCGGUAAUUGAGAGUGGCUAAGUGGGAUACCUUUCGACUUUUGCGGAGCGCGAGA__________UUUUUUUUGGCACUCCGAAGAGCCGGAC
..(((....).))(((((....((((((.(......((....))...).)))))).(((((.((.(((...............))).)).)))))....))))).. (-25.84 = -26.20 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 19,778,752 – 19,778,858
Length 106
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 88.07
Shannon entropy 0.20010
G+C content 0.50674
Mean single sequence MFE -26.29
Consensus MFE -22.24
Energy contribution -22.24
Covariance contribution 0.00
Combinations/Pair 1.10
Mean z-score -2.07
Structure conservation index 0.85
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.41
SVM RNA-class probability 0.936564
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19778752 106 + 22422827
UCCGGCUCUUCGGAGUGCCAAAAAAAAAAAAAAAAAAUCUCGCGCUCCGCAAAAGUCGAAAGGUAUCCCACUUAGCCACUCUCAAUUACCGGGCUCUUACGGCUGC
..(((((.((((((((((.......................)))))))).)).)))))....(((.((.....((((..............)))).....)).))) ( -24.54, z-score =  -1.19, R)
>droSim1.chrX 15249329 96 + 17042790
UCCGGCUCUUCGGAGUGCCAAAAAAAA----------UCUCGCGCUCCGCAAAAGUCGAAAGGUAUCCCACUUAGCCACUCUCAAUUACCAGGCUCUUUCGGCUGG
.(((((....((((((((.........----------....)))))))).......((((((((.....))..((((..............))))))))))))))) ( -27.26, z-score =  -2.31, R)
>droSec1.super_8 2042062 87 + 3762037
UCCGGCUCUUCGGAGUGCCAAAAAAAA----------UCUCGCGCUCCGCAAAAGUCGAAAAAAA---------GCCACUCUCAAUUACCAGGCUCUUUCGGCUGG
.(((((....((((((((.........----------....)))))))).......(((((...(---------(((..............)))).)))))))))) ( -26.36, z-score =  -3.12, R)
>droYak2.chrX 10175267 98 - 21770863
UCCGGCUCUUUGGAGUGCCAAAAAAAAAA--------UCUCGCGCUCCGCAAAAGUCGAAAGGUAUCCCACUUAGCCACUCUCAAUUACCGGGCUCUUUCGGCUGC
...........(((((((...........--------....))))))).....((((((((((...(((.....................))).)))))))))).. ( -24.96, z-score =  -0.97, R)
>droEre2.scaffold_4690 9981942 95 + 18748788
UCCGGCU-UUCGGAGUGCCAAAAAAAA----------UCUCGCGCUCCGCAAAAGUCGAAAGGUAUCCCACUUAUCCACUCUCAAUUACCGGGCUCUUUCGGCUGG
.((((((-((((((((((.........----------....)))))))).)))...(((((((...(((.....................))).)))))))))))) ( -28.32, z-score =  -2.76, R)
>consensus
UCCGGCUCUUCGGAGUGCCAAAAAAAA__________UCUCGCGCUCCGCAAAAGUCGAAAGGUAUCCCACUUAGCCACUCUCAAUUACCGGGCUCUUUCGGCUGG
..(((((.((((((((((.......................)))))))).)).)))))..............................((((.(......).)))) (-22.24 = -22.24 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:02:18 2011