Locus 3629

Sequence ID	X_DroMel_CAF1
Location	9,703,840 – 9,703,946
Length	106
Max. P	0.999796

overview

Window 0

Location	9,703,840 – 9,703,946
Length	106
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	89.63
Mean single sequence MFE	-24.00
Consensus MFE	-21.03
Energy contribution	-20.79
Covariance contribution	-0.24
Combinations/Pair	1.11
Mean z-score	-2.20
Structure conservation index	0.88
SVM decision value	2.56
SVM RNA-class probability	0.995307
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9703840 106 + 22224390
ACAAAUACAAUUUCCUCACGGAAACGACCACCUUGCACCCCGUCGCUAUAUGUAC--------------AUAUAUAUGGAAUCCAGAUUCCGCCACGAUUUAUGCACAUGUUCGGUGCUC
..................((....))........(((((.(((.((.((((((..--------------..))))))(((((....))))))).)))......((....))..))))).. ( -22.40)
>DroSec_CAF1 45329 106 + 1
ACAAAUACAAUUUCCUUACGGAAACGACCACCUUGCACCCCGUCGCUAUAUGUAC--------------AUAUAUAUGGAAUCCAGAUUCCGCCACGAUUUAUGCACAUGCUCGGUGCUC
..................((....))........(((((.(((.((.((((((..--------------..))))))(((((....))))))).)))......((....))..))))).. ( -24.70)
>DroSim_CAF1 19739 106 + 1
ACAAAUACAAUUUCCUUACGGAAACGACCACCUUGCACCCCGUCGCUAUAUGUAC--------------AUAUAUAUGGAAUCCAGAUUCCGCCACGAUUUAUGCACAUGCUCGGUGCUC
..................((....))........(((((.(((.((.((((((..--------------..))))))(((((....))))))).)))......((....))..))))).. ( -24.70)
>DroEre_CAF1 22663 110 + 1
ACAAAUACAAUUUCCUCUCGGAACCGACCACCUUGCACCACGCCGCUAUAUAUACA----------UACAUAUAUGUGGCAUCCAGAUUCCGCCACGAUUUAUGCACAUGUUGGGUGCUC
...........((((....))))..((.(((((.(((....(((((.((((((...----------...)))))))))))...........((..........))...))).))))).)) ( -23.90)
>DroYak_CAF1 21803 120 + 1
ACAAAUACAAUUUCCUCACGGAACCGACCACCUUGCACCCCGUCGCCAUAUAUACACAUUCAUAUAUAUAUAUAUAUGGAAUCCAGAUUCCGCCACGAUUUAUGCACAUGUUCGGUGCUC
............(((....)))(((((.((...((((...(((.((.(((((((........)))))))........(((((....))))))).))).....))))..)).))))).... ( -24.30)
>consensus
ACAAAUACAAUUUCCUCACGGAAACGACCACCUUGCACCCCGUCGCUAUAUGUAC______________AUAUAUAUGGAAUCCAGAUUCCGCCACGAUUUAUGCACAUGUUCGGUGCUC
...........((((....))))...........(((((.(((.((.(((((((................)))))))(((((....))))))).)))......((....))..))))).. (-21.03 = -20.79 +  -0.24)

alignment

secondary structure

dotplot

Window 1

Location	9,703,840 – 9,703,946
Length	106
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	89.63
Mean single sequence MFE	-38.66
Consensus MFE	-32.99
Energy contribution	-34.84
Covariance contribution	1.85
Combinations/Pair	1.05
Mean z-score	-3.56
Structure conservation index	0.85
SVM decision value	4.10
SVM RNA-class probability	0.999796
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9703840 106 - 22224390
GAGCACCGAACAUGUGCAUAAAUCGUGGCGGAAUCUGGAUUCCAUAUAUAU--------------GUACAUAUAGCGACGGGGUGCAAGGUGGUCGUUUCCGUGAGGAAAUUGUAUUUGU
((.((((.......(((((...((((.(((((((....)))))...(((((--------------....))))))).)))).))))).)))).))((((((....))))))......... ( -38.50)
>DroSec_CAF1 45329 106 - 1
GAGCACCGAGCAUGUGCAUAAAUCGUGGCGGAAUCUGGAUUCCAUAUAUAU--------------GUACAUAUAGCGACGGGGUGCAAGGUGGUCGUUUCCGUAAGGAAAUUGUAUUUGU
((.((((.......(((((...((((.(((((((....)))))...(((((--------------....))))))).)))).))))).)))).))((((((....))))))......... ( -37.50)
>DroSim_CAF1 19739 106 - 1
GAGCACCGAGCAUGUGCAUAAAUCGUGGCGGAAUCUGGAUUCCAUAUAUAU--------------GUACAUAUAGCGACGGGGUGCAAGGUGGUCGUUUCCGUAAGGAAAUUGUAUUUGU
((.((((.......(((((...((((.(((((((....)))))...(((((--------------....))))))).)))).))))).)))).))((((((....))))))......... ( -37.50)
>DroEre_CAF1 22663 110 - 1
GAGCACCCAACAUGUGCAUAAAUCGUGGCGGAAUCUGGAUGCCACAUAUAUGUA----------UGUAUAUAUAGCGGCGUGGUGCAAGGUGGUCGGUUCCGAGAGGAAAUUGUAUUUGU
((.((((((.(((((((.......((((((.........)))))).(((((((.----------...))))))))).))))).))...)))).))..((((....))))........... ( -33.50)
>DroYak_CAF1 21803 120 - 1
GAGCACCGAACAUGUGCAUAAAUCGUGGCGGAAUCUGGAUUCCAUAUAUAUAUAUAUAUGAAUGUGUAUAUAUGGCGACGGGGUGCAAGGUGGUCGGUUCCGUGAGGAAAUUGUAUUUGU
..(((((((.(((.(((((...((((.(((((((....))))).(((((((((((((....))))))))))))))).)))).)))))..))).))))((((....))))..)))...... ( -46.30)
>consensus
GAGCACCGAACAUGUGCAUAAAUCGUGGCGGAAUCUGGAUUCCAUAUAUAU______________GUACAUAUAGCGACGGGGUGCAAGGUGGUCGUUUCCGUGAGGAAAUUGUAUUUGU
((.((((.......(((((...((((.(((((((....)))))((((.(((((((......))))))).)))).)).)))).))))).)))).))((((((....))))))......... (-32.99 = -34.84 +   1.85)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:10 2006