Locus 3767

Sequence ID	3L_DroMel_CAF1
Location	10,899,133 – 10,899,229
Length	96
Max. P	0.929775

overview

Window 7

Location	10,899,133 – 10,899,229
Length	96
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	79.09
Mean single sequence MFE	-32.18
Consensus MFE	-23.02
Energy contribution	-24.22
Covariance contribution	1.19
Combinations/Pair	1.04
Mean z-score	-2.01
Structure conservation index	0.72
SVM decision value	1.20
SVM RNA-class probability	0.929775
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10899133 96 + 23771897
AUCGCCGCUAAAUUGUUAUCUACGAGUGCAGCGUGUGCGCUGGCAUUUCGGUUUGCCAUUCGGCCAUUCGACCAUUCGACCAU------------------------UCGACCAUUUGGC
......(((((((.(((.....(((((((((((....))))).....((((...(((....)))...)))).)))))).....------------------------..))).))))))) ( -27.90)
>DroSec_CAF1 32426 88 + 1
AUCGCCGCUAAAUUGUUAUCUACGAGUGCAGCGUGUGCGCUGGCAUUUCGGUUCGCCAUUCGGCCAUUUGGCC--------AU------------------------UCGACCAUUUGGC
......(((((((.(((.....(((((((((((....)))).))).))))...........((((....))))--------..------------------------..))).))))))) ( -29.30)
>DroSim_CAF1 27989 88 + 1
AUCGCCGCUAAAUUGUUAUCUACGAGUGCAGCCUGUGCGCUGGCAUUUCGGUUCGCCAUUCGGCCAUUUGGCC--------AU------------------------UCGACCAUUUGGC
......(((((((.(((......((((((((((.((((....))))...)))).).)))))((((....))))--------..------------------------..))).))))))) ( -29.20)
>DroEre_CAF1 30305 96 + 1
AUCGCCGCUAAAUUGUUAUCUACGAGUGCAGCGUGUGCGCUGGCAUUUCGGUUGGCCAUACGGCCACUCGGCCAUUCGACCAUUUGGCC------------------------AUUUGGC
......(((((((..........(((((...((((((.((..((......))..))))))))..)))))(((((..........)))))------------------------))))))) ( -36.20)
>DroYak_CAF1 29601 120 + 1
AUCGCCGCUAAAUUGUUAUCUACGAGUGCAGCGUGUGCGCUGGCAUUUCGGUUUGCCAUUCGGCCAUUCGGCCAUUCGGCCAUUUGGCCAUUCAACCAUUUGGCCACUCGACCAUUUGGC
......(((((((.(((......((((((((((....)))))(((........))))))))((((....))))....(((((..(((........)))..)))))....))).))))))) ( -44.40)
>DroAna_CAF1 23424 80 + 1
AUCGCCGCUAAAUUGUUAUCUACGAGUGCAGCGUGUGCGCUGGCAUUUCGGUUUGCUAUUUGGCCAUUUGGUC----------------------------------------AUUUGGC
...((((.......((.....))((((((((((....)))).))))))))))..((((..(((((....))))----------------------------------------)..)))) ( -26.10)
>consensus
AUCGCCGCUAAAUUGUUAUCUACGAGUGCAGCGUGUGCGCUGGCAUUUCGGUUUGCCAUUCGGCCAUUCGGCC________AU________________________UCGACCAUUUGGC
......(((((((.(((.....(((((((((((....)))).))).))))...........((((....))))....................................))).))))))) (-23.02 = -24.22 +   1.19)

alignment

secondary structure

dotplot

Window 8

Location	10,899,133 – 10,899,229
Length	96
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	79.09
Mean single sequence MFE	-29.83
Consensus MFE	-22.09
Energy contribution	-22.28
Covariance contribution	0.20
Combinations/Pair	1.04
Mean z-score	-1.77
Structure conservation index	0.74
SVM decision value	1.02
SVM RNA-class probability	0.901867
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10899133 96 - 23771897
GCCAAAUGGUCGA------------------------AUGGUCGAAUGGUCGAAUGGCCGAAUGGCAAACCGAAAUGCCAGCGCACACGCUGCACUCGUAGAUAACAAUUUAGCGGCGAU
((((..((((((.------------------------.((..(....)..))..))))))..)))).........(((.((((....))))))).((((...(((....)))...)))). ( -26.60)
>DroSec_CAF1 32426 88 - 1
GCCAAAUGGUCGA------------------------AU--------GGCCAAAUGGCCGAAUGGCGAACCGAAAUGCCAGCGCACACGCUGCACUCGUAGAUAACAAUUUAGCGGCGAU
(((.....((((.------------------------.(--------((((....)))))..))))....(((..(((.((((....))))))).)))................)))... ( -26.80)
>DroSim_CAF1 27989 88 - 1
GCCAAAUGGUCGA------------------------AU--------GGCCAAAUGGCCGAAUGGCGAACCGAAAUGCCAGCGCACAGGCUGCACUCGUAGAUAACAAUUUAGCGGCGAU
(((.....((((.------------------------.(--------((((....)))))..))))....(((..(((.(((......)))))).)))................)))... ( -25.10)
>DroEre_CAF1 30305 96 - 1
GCCAAAU------------------------GGCCAAAUGGUCGAAUGGCCGAGUGGCCGUAUGGCCAACCGAAAUGCCAGCGCACACGCUGCACUCGUAGAUAACAAUUUAGCGGCGAU
((((.((------------------------(((((..(((((....)))))..))))))).)))).........(((.((((....))))))).((((...(((....)))...)))). ( -36.10)
>DroYak_CAF1 29601 120 - 1
GCCAAAUGGUCGAGUGGCCAAAUGGUUGAAUGGCCAAAUGGCCGAAUGGCCGAAUGGCCGAAUGGCAAACCGAAAUGCCAGCGCACACGCUGCACUCGUAGAUAACAAUUUAGCGGCGAU
((((..((((((..((((((..(((((....)))))..))))))..))))))..)))).(..(((((........)))))...)...((((((.....(((((....))))))))))).. ( -45.40)
>DroAna_CAF1 23424 80 - 1
GCCAAAU----------------------------------------GACCAAAUGGCCAAAUAGCAAACCGAAAUGCCAGCGCACACGCUGCACUCGUAGAUAACAAUUUAGCGGCGAU
(((...(----------------------------------------(.((....)).))....((....(((..(((.((((....))))))).)))(((((....))))))))))... ( -19.00)
>consensus
GCCAAAUGGUCGA________________________AU________GGCCAAAUGGCCGAAUGGCAAACCGAAAUGCCAGCGCACACGCUGCACUCGUAGAUAACAAUUUAGCGGCGAU
(((............................................((((....)))).....((....(((..(((.((((....))))))).)))(((((....))))))))))... (-22.09 = -22.28 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:12 2006