Locus 7403

Sequence ID	X_DroMel_CAF1
Location	18,456,271 – 18,456,406
Length	135
Max. P	0.986789

overview

Window 3

Location	18,456,271 – 18,456,377
Length	106
Sequences	3
Columns	106
Reading direction	forward
Mean pairwise identity	98.74
Mean single sequence MFE	-28.73
Consensus MFE	-28.13
Energy contribution	-28.13
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.84
Structure conservation index	0.98
SVM decision value	0.68
SVM RNA-class probability	0.820446
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18456271 106 + 22224390
CUCGAUUUGUUUCUCGGCCAACGGAAACGGGCCAAAAAUCGCACAAUCGACGGCACUAUGGCCAAAUUCAAAUCGAAAUCGAAGUCCAAAUGCGCCAGCAAAGCGU
..((.((((((....((((..((....))))))......((((.....((((((......))).........(((....))).)))....))))..)))))).)). ( -29.00)
>DroSec_CAF1 73 106 + 1
CUCGACUUGUUUCUCGGCCAACGGAAACGGGCCAAAAAUCGCACAAUCGACGGCACUACGGCCAAAUUCAAAUCGAAAUCGAAGUCCAAAUGCGCCAGCAAAGCGU
..((..(((((....((((..((....))))))......((((.....((((((......))).........(((....))).)))....))))..)))))..)). ( -28.60)
>DroSim_CAF1 416 106 + 1
CUCGACUUGUUUCUCGGCCAACGGAAACGGGCCAAAAAUCGCACAAUCGACGGCACUAUGGCCAAAUUCAAAUCGAAAUCGAAGUCCAAAUGCGCCAGCAAAGCGU
..((..(((((....((((..((....))))))......((((.....((((((......))).........(((....))).)))....))))..)))))..)). ( -28.60)
>consensus
CUCGACUUGUUUCUCGGCCAACGGAAACGGGCCAAAAAUCGCACAAUCGACGGCACUAUGGCCAAAUUCAAAUCGAAAUCGAAGUCCAAAUGCGCCAGCAAAGCGU
..((..(((((....((((..((....))))))......((((.....((((((......))).........(((....))).)))....))))..)))))..)). (-28.13 = -28.13 +   0.00)

alignment

secondary structure

dotplot

Window 4

Location	18,456,301 – 18,456,406
Length	105
Sequences	3
Columns	105
Reading direction	forward
Mean pairwise identity	99.37
Mean single sequence MFE	-33.70
Consensus MFE	-33.70
Energy contribution	-33.70
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-4.25
Structure conservation index	1.00
SVM decision value	2.05
SVM RNA-class probability	0.986789
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18456301 105 + 22224390
GCCAAAAAUCGCACAAUCGACGGCACUAUGGCCAAAUUCAAAUCGAAAUCGAAGUCCAAAUGCGCCAGCAAAGCGUAUCAAAUGCCAUGUUGACCGCAUUUGGAC
((........))....((((.(((......)))...(((.....))).)))).(((((((((((.(((((..((((.....))))..)))))..))))))))))) ( -33.70)
>DroSec_CAF1 103 105 + 1
GCCAAAAAUCGCACAAUCGACGGCACUACGGCCAAAUUCAAAUCGAAAUCGAAGUCCAAAUGCGCCAGCAAAGCGUAUCAAAUGCCAUGUUGACCGCAUUUGGAC
((........))....((((.(((......)))...(((.....))).)))).(((((((((((.(((((..((((.....))))..)))))..))))))))))) ( -33.70)
>DroSim_CAF1 446 105 + 1
GCCAAAAAUCGCACAAUCGACGGCACUAUGGCCAAAUUCAAAUCGAAAUCGAAGUCCAAAUGCGCCAGCAAAGCGUAUCAAAUGCCAUGUUGACCGCAUUUGGAC
((........))....((((.(((......)))...(((.....))).)))).(((((((((((.(((((..((((.....))))..)))))..))))))))))) ( -33.70)
>consensus
GCCAAAAAUCGCACAAUCGACGGCACUAUGGCCAAAUUCAAAUCGAAAUCGAAGUCCAAAUGCGCCAGCAAAGCGUAUCAAAUGCCAUGUUGACCGCAUUUGGAC
((........))....((((.(((......)))...(((.....))).)))).(((((((((((.(((((..((((.....))))..)))))..))))))))))) (-33.70 = -33.70 +  -0.00)

alignment

secondary structure

dotplot

Window 5

Location	18,456,301 – 18,456,406
Length	105
Sequences	3
Columns	105
Reading direction	reverse
Mean pairwise identity	99.37
Mean single sequence MFE	-32.97
Consensus MFE	-32.99
Energy contribution	-32.77
Covariance contribution	-0.22
Combinations/Pair	1.03
Mean z-score	-1.65
Structure conservation index	1.00
SVM decision value	0.51
SVM RNA-class probability	0.764859
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18456301 105 - 22224390
GUCCAAAUGCGGUCAACAUGGCAUUUGAUACGCUUUGCUGGCGCAUUUGGACUUCGAUUUCGAUUUGAAUUUGGCCAUAGUGCCGUCGAUUGUGCGAUUUUUGGC
(((((((((((.(((.((.(((.........))).)).))))))))))))))..(((.(((.....))).)))((((...(((((.....)).))).....)))) ( -33.00)
>DroSec_CAF1 103 105 - 1
GUCCAAAUGCGGUCAACAUGGCAUUUGAUACGCUUUGCUGGCGCAUUUGGACUUCGAUUUCGAUUUGAAUUUGGCCGUAGUGCCGUCGAUUGUGCGAUUUUUGGC
(((((((((((.(((.((.(((.........))).)).)))))))))))))).((((..(((..((((...((((......)))))))).....)))...)))). ( -32.90)
>DroSim_CAF1 446 105 - 1
GUCCAAAUGCGGUCAACAUGGCAUUUGAUACGCUUUGCUGGCGCAUUUGGACUUCGAUUUCGAUUUGAAUUUGGCCAUAGUGCCGUCGAUUGUGCGAUUUUUGGC
(((((((((((.(((.((.(((.........))).)).))))))))))))))..(((.(((.....))).)))((((...(((((.....)).))).....)))) ( -33.00)
>consensus
GUCCAAAUGCGGUCAACAUGGCAUUUGAUACGCUUUGCUGGCGCAUUUGGACUUCGAUUUCGAUUUGAAUUUGGCCAUAGUGCCGUCGAUUGUGCGAUUUUUGGC
(((((((((((.(((.((.(((.........))).)).))))))))))))))..(((.(((.....))).)))((((...(((((.....)).))).....)))) (-32.99 = -32.77 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:01 2006