Locus 1007

Sequence ID 2R_DroMel_CAF1
Location 4,210,467 – 4,210,561
Length 94
Max. P 0.964895
window1780 window1781

overview

Window 0

Location 4,210,467 – 4,210,561
Length 94
Sequences 3
Columns 112
Reading direction forward
Mean pairwise identity 85.71
Mean single sequence MFE -22.60
Consensus MFE -16.60
Energy contribution -18.27
Covariance contribution 1.67
Combinations/Pair 1.00
Mean z-score -3.52
Structure conservation index 0.73
SVM decision value 1.57
SVM RNA-class probability 0.964895
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4210467 94 + 20766785
----------UGGUGAAAUUGAAAUAUAAUCUUAU--------CUGCUUCAGCAGCACUUGCAUAAUUGUAAGAGAUAAGUCUUAUAAUCAUAAUUUCACAUUAUUUCACUA
----------..(((((((((...(((((.(((((--------(((((.....))).((((((....)))))))))))))..)))))....)))))))))............ ( -24.50)
>DroSec_CAF1 22199 112 + 1
UUACUCUACAUGGCGAAAUUGAAAUAUAAUCUUAUCUAUAUCUCUGCUUCAGCAACACUUGCAUAAUUGUAAGAGAUAAGUCUUAUAAUCAUAAUUUCACAUUAUUUCACUG
.........(((..(((((((...(((((.(((((((.......(((....)))...((((((....)))))))))))))..)))))....))))))).))).......... ( -21.30)
>DroSim_CAF1 52752 112 + 1
UUACUCUACAUGGCGAAAUUGAAUUAUAAUCUUAUCUAUAUCUCUGCUUCAGCAGCAAAUGCAUAAUUGUAAGAGAUAAGUCUUAUAAUCAUAAUUUCACAUUAUUUCACUA
.........(((..(((((((.(((((((.(((((((......((((....))))....((((....))))..)))))))..)))))))..))))))).))).......... ( -22.00)
>consensus
UUACUCUACAUGGCGAAAUUGAAAUAUAAUCUUAUCUAUAUCUCUGCUUCAGCAGCACUUGCAUAAUUGUAAGAGAUAAGUCUUAUAAUCAUAAUUUCACAUUAUUUCACUA
..............(((((((...(((((.(((((((......((((....))))..((((((....)))))))))))))..)))))....))))))).............. (-16.60 = -18.27 +   1.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 4,210,467 – 4,210,561
Length 94
Sequences 3
Columns 112
Reading direction reverse
Mean pairwise identity 85.71
Mean single sequence MFE -21.40
Consensus MFE -18.54
Energy contribution -18.43
Covariance contribution -0.11
Combinations/Pair 1.07
Mean z-score -1.75
Structure conservation index 0.87
SVM decision value 0.46
SVM RNA-class probability 0.744241
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4210467 94 - 20766785
UAGUGAAAUAAUGUGAAAUUAUGAUUAUAAGACUUAUCUCUUACAAUUAUGCAAGUGCUGCUGAAGCAG--------AUAAGAUUAUAUUUCAAUUUCACCA----------
..((((((((((((((...(((((((.(((((......))))).)))))))......((((....))))--------......)))))))...)))))))..---------- ( -20.50)
>DroSec_CAF1 22199 112 - 1
CAGUGAAAUAAUGUGAAAUUAUGAUUAUAAGACUUAUCUCUUACAAUUAUGCAAGUGUUGCUGAAGCAGAGAUAUAGAUAAGAUUAUAUUUCAAUUUCGCCAUGUAGAGUAA
..(((((((..........(((((((.(((((......))))).))))))).......(((....)))(((((((((......))))))))).)))))))............ ( -20.20)
>DroSim_CAF1 52752 112 - 1
UAGUGAAAUAAUGUGAAAUUAUGAUUAUAAGACUUAUCUCUUACAAUUAUGCAUUUGCUGCUGAAGCAGAGAUAUAGAUAAGAUUAUAAUUCAAUUUCGCCAUGUAGAGUAA
............((((((((..((((((((..(((((((.........(((..((((((.....))))))..)))))))))).)))))))).))))))))............ ( -23.50)
>consensus
UAGUGAAAUAAUGUGAAAUUAUGAUUAUAAGACUUAUCUCUUACAAUUAUGCAAGUGCUGCUGAAGCAGAGAUAUAGAUAAGAUUAUAUUUCAAUUUCGCCAUGUAGAGUAA
..((((((((((((((...(((((((.(((((......))))).)))))))......((((....))))..............)))))))...)))))))............ (-18.54 = -18.43 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:55 2006