Locus 4694

Sequence ID	2R_DroMel_CAF1
Location	15,365,570 – 15,365,668
Length	98
Max. P	0.999966

overview

Window 6

Location	15,365,570 – 15,365,668
Length	98
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	92.76
Mean single sequence MFE	-30.91
Consensus MFE	-25.80
Energy contribution	-27.04
Covariance contribution	1.24
Combinations/Pair	1.08
Mean z-score	-1.73
Structure conservation index	0.83
SVM decision value	1.15
SVM RNA-class probability	0.923152
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15365570 98 + 20766785
AAGUGGAGCAGGGCAAUUACCCCGAGGAAAAUUCAUCUUCAUUGGACUAUGAAUGAGAUGUUGUGCGGGGAAACAGAGCAGAGUAACUGCCCCUGCGG
.......((((((......(((((.........(((((.((((........))))))))).....))))).......((((.....)))))))))).. ( -32.64)
>DroSec_CAF1 171329 98 + 1
AAGUGGAGCAGGGCAAUUACCCCGAGGAGAAUUCAUCUUCAUUGGACUCUGAAUGAGAUGUUGUGCGGGGAAACAGAGCAAAGUAACUGCCCCUGCGG
.......((((((((.((((.(((((((((.....))))).)))).(((.....)))......(((..(....)...)))..)))).)).)))))).. ( -32.40)
>DroSim_CAF1 149401 98 + 1
AAGUGGAGCAGGGCAAUUACCCCGAGGAGAAUUCAUCUUCAUUGGACUCUGAAUGAGAUGUUGUGCGGGGAAACAGAGCAGAGUAACUGCGCCUGCGG
.......((((((((.((((.(((((((((.....))))).)))).(((.....)))....(.(((..(....)...))).))))).))).))))).. ( -32.80)
>DroEre_CAF1 158653 98 + 1
AAGUGGAGCAGGGCAAUUACCCCGAGAAGAAUUCGUCUUCAUUGGACUUUGGAUGAGAUGUUGUGCGGGGAAAUAGAGCAGAAAAAGAGCGCCUGCGG
.......(((((.(.....((((((.((.(.(((((((............))))))).).)).).))))).......((.........)))))))).. ( -27.10)
>DroYak_CAF1 163103 98 + 1
AAGUGGAGCAGGGCAAUUACCCCGAGGAGAAUUCGUCUUCAUUGGACUUUGUAUAAGAUGUUGUGCGGGAAAACGGAGCAGAGUAACUGCCCCUGCGG
.......((((((......(((((((((((.....))))).))))..(((((((((....))))))))).....)).((((.....)))))))))).. ( -29.60)
>consensus
AAGUGGAGCAGGGCAAUUACCCCGAGGAGAAUUCAUCUUCAUUGGACUCUGAAUGAGAUGUUGUGCGGGGAAACAGAGCAGAGUAACUGCCCCUGCGG
.......((((((......(((((.........(((((.((((........))))))))).....))))).......((((.....)))))))))).. (-25.80 = -27.04 +   1.24)

alignment

secondary structure

dotplot

Window 7

Location	15,365,570 – 15,365,668
Length	98
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	92.76
Mean single sequence MFE	-28.74
Consensus MFE	-26.40
Energy contribution	-27.32
Covariance contribution	0.92
Combinations/Pair	1.11
Mean z-score	-3.08
Structure conservation index	0.92
SVM decision value	4.98
SVM RNA-class probability	0.999966
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15365570 98 - 20766785
CCGCAGGGGCAGUUACUCUGCUCUGUUUCCCCGCACAACAUCUCAUUCAUAGUCCAAUGAAGAUGAAUUUUCCUCGGGGUAAUUGCCCUGCUCCACUU
..((((((.(((((((((((...(((......)))...(((((((((........)))).))))).........)))))))))))))))))....... ( -32.70)
>DroSec_CAF1 171329 98 - 1
CCGCAGGGGCAGUUACUUUGCUCUGUUUCCCCGCACAACAUCUCAUUCAGAGUCCAAUGAAGAUGAAUUCUCCUCGGGGUAAUUGCCCUGCUCCACUU
..((((((.(((((((((((...(((......)))...(((((((((........)))).))))).........)))))))))))))))))....... ( -30.10)
>DroSim_CAF1 149401 98 - 1
CCGCAGGCGCAGUUACUCUGCUCUGUUUCCCCGCACAACAUCUCAUUCAGAGUCCAAUGAAGAUGAAUUCUCCUCGGGGUAAUUGCCCUGCUCCACUU
..(((((.((((((((((((...(((......)))...(((((((((........)))).))))).........)))))))))))))))))....... ( -32.70)
>DroEre_CAF1 158653 98 - 1
CCGCAGGCGCUCUUUUUCUGCUCUAUUUCCCCGCACAACAUCUCAUCCAAAGUCCAAUGAAGACGAAUUCUUCUCGGGGUAAUUGCCCUGCUCCACUU
..(((((.((..............(((.(((((........((.......))......(((((.....))))).))))).))).)))))))....... ( -19.86)
>DroYak_CAF1 163103 98 - 1
CCGCAGGGGCAGUUACUCUGCUCCGUUUUCCCGCACAACAUCUUAUACAAAGUCCAAUGAAGACGAAUUCUCCUCGGGGUAAUUGCCCUGCUCCACUU
..((((((.(((((((((((...(((((((..(.((...............)).)...))))))).........)))))))))))))))))....... ( -28.36)
>consensus
CCGCAGGGGCAGUUACUCUGCUCUGUUUCCCCGCACAACAUCUCAUUCAAAGUCCAAUGAAGAUGAAUUCUCCUCGGGGUAAUUGCCCUGCUCCACUU
..(((((.(((((((((((((...........))....(((((((((........)))).)))))..........))))))))))))))))....... (-26.40 = -27.32 +   0.92)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:02 2006