Locus 3233

Sequence ID	3R_DroMel_CAF1
Location	8,632,325 – 8,632,429
Length	104
Max. P	0.950109

overview

Window 0

Location	8,632,325 – 8,632,429
Length	104
Sequences	6
Columns	117
Reading direction	forward
Mean pairwise identity	93.67
Mean single sequence MFE	-23.57
Consensus MFE	-21.17
Energy contribution	-21.50
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-1.19
Structure conservation index	0.90
SVM decision value	0.17
SVM RNA-class probability	0.616499
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8632325 104 + 27905053
UUAAACGAGCAUCCGAAAGGAUUUUGUGUACAAUUUCCGUUUUAUGACUCUCCAGAGUGGCAAUAAAUCUCACACAAAACUAUUUCCGUUGCAUUCGAGCUGCU-------------
.......((((.(((((.(((..(((....)))..)))........((((....)))).(((((.......................))))).)))).).))))------------- ( -19.30)
>DroVir_CAF1 75063 103 + 1
UUAAACGAGCAUCCGAAAGGAUUUUGUGUACAAUUUCCGUUUUAUGACUCUCCAGAGUGGUAAUAAAUCUCACACAAAACUAUUUCCGUUGCAUUGGAGCUGC--------------
.......(((.(((....)))((((((((...((((.....((((.((((....)))).)))).))))...)))))))).....((((......)))))))..-------------- ( -25.20)
>DroGri_CAF1 58571 103 + 1
UUAAACGAGCAUCCGAAAGGAUUUUGUGUACAAUUUCCGUUUUAUGACUCUCCAGAGUGGUAAUAAAUCUCACACAAAACUAUUUCCGUUGCAUUGGAGCUGC--------------
.......(((.(((....)))((((((((...((((.....((((.((((....)))).)))).))))...)))))))).....((((......)))))))..-------------- ( -25.20)
>DroWil_CAF1 83425 105 + 1
UUAAACGAGCAUCCGAAAGGAUUUUGUGUACAAUUUCCGUUUUAUGACUCUCUAGAGUGGUAAUAAAUCUCACACAAAACUAUUUCCGUUGCAUUCGAGCUGCUU------------
......((((((((....)))((((((((...((((.....((((.((((....)))).)))).))))...))))))))...........((......)))))))------------ ( -23.50)
>DroMoj_CAF1 101808 103 + 1
UUAAACGAGCAUCCGAAAGGAUUUUGUGUACAAUUUCCGUUUUAUGACUCUCUAGAGUGGUAAUAAAUCUCACACAAAACUAUUUCCGUUGCAUUGGAGCUGC--------------
.......(((.(((....)))((((((((...((((.....((((.((((....)))).)))).))))...)))))))).....((((......)))))))..-------------- ( -25.20)
>DroPer_CAF1 67299 117 + 1
UUAAACGAGCAUCCGAAAGGAUUUUGUGUACAAUUUCCGUUUUAUGACUCUCCAGAGUGGCAAUAAAUCUCACACAAAACUAUUUCCGUUGCAUUCGAGCUGCUGCUGCUGCCGCCG
........((((((....)))((((((((.........(((....)))......(((...........)))))))))))..........)))...((.((.((....)).))))... ( -23.00)
>consensus
UUAAACGAGCAUCCGAAAGGAUUUUGUGUACAAUUUCCGUUUUAUGACUCUCCAGAGUGGUAAUAAAUCUCACACAAAACUAUUUCCGUUGCAUUCGAGCUGC______________
...((((....(((....)))((((((((...((((.....((((.((((....)))).)))).))))...)))))))).......))))((......))................. (-21.17 = -21.50 +   0.33)

alignment

secondary structure

dotplot

Window 1

Location	8,632,325 – 8,632,429
Length	104
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	93.67
Mean single sequence MFE	-25.05
Consensus MFE	-24.42
Energy contribution	-24.20
Covariance contribution	-0.22
Combinations/Pair	1.03
Mean z-score	-1.17
Structure conservation index	0.97
SVM decision value	1.40
SVM RNA-class probability	0.950109
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8632325 104 - 27905053
-------------AGCAGCUCGAAUGCAACGGAAAUAGUUUUGUGUGAGAUUUAUUGCCACUCUGGAGAGUCAUAAAACGGAAAUUGUACACAAAAUCCUUUCGGAUGCUCGUUUAA
-------------((((((......))..(.((((..((((((((((.(((((.(((..((((....))))..))).....))))).))))))))))..)))).).))))....... ( -24.40)
>DroVir_CAF1 75063 103 - 1
--------------GCAGCUCCAAUGCAACGGAAAUAGUUUUGUGUGAGAUUUAUUACCACUCUGGAGAGUCAUAAAACGGAAAUUGUACACAAAAUCCUUUCGGAUGCUCGUUUAA
--------------(((((......))..(.((((..((((((((((.(((((.(((..((((....))))..))).....))))).))))))))))..)))).).)))........ ( -24.20)
>DroGri_CAF1 58571 103 - 1
--------------GCAGCUCCAAUGCAACGGAAAUAGUUUUGUGUGAGAUUUAUUACCACUCUGGAGAGUCAUAAAACGGAAAUUGUACACAAAAUCCUUUCGGAUGCUCGUUUAA
--------------(((((......))..(.((((..((((((((((.(((((.(((..((((....))))..))).....))))).))))))))))..)))).).)))........ ( -24.20)
>DroWil_CAF1 83425 105 - 1
------------AAGCAGCUCGAAUGCAACGGAAAUAGUUUUGUGUGAGAUUUAUUACCACUCUAGAGAGUCAUAAAACGGAAAUUGUACACAAAAUCCUUUCGGAUGCUCGUUUAA
------------.((((((......))..(.((((..((((((((((.(((((.(((..((((....))))..))).....))))).))))))))))..)))).).))))....... ( -25.00)
>DroMoj_CAF1 101808 103 - 1
--------------GCAGCUCCAAUGCAACGGAAAUAGUUUUGUGUGAGAUUUAUUACCACUCUAGAGAGUCAUAAAACGGAAAUUGUACACAAAAUCCUUUCGGAUGCUCGUUUAA
--------------(((((......))..(.((((..((((((((((.(((((.(((..((((....))))..))).....))))).))))))))))..)))).).)))........ ( -24.20)
>DroPer_CAF1 67299 117 - 1
CGGCGGCAGCAGCAGCAGCUCGAAUGCAACGGAAAUAGUUUUGUGUGAGAUUUAUUGCCACUCUGGAGAGUCAUAAAACGGAAAUUGUACACAAAAUCCUUUCGGAUGCUCGUUUAA
((((.((.......)).)).))...(((.(.((((..((((((((((.(((((.(((..((((....))))..))).....))))).))))))))))..)))).).)))........ ( -28.30)
>consensus
______________GCAGCUCCAAUGCAACGGAAAUAGUUUUGUGUGAGAUUUAUUACCACUCUGGAGAGUCAUAAAACGGAAAUUGUACACAAAAUCCUUUCGGAUGCUCGUUUAA
..............(((((......))..(.((((..((((((((((.(((((.(((..((((....))))..))).....))))).))))))))))..)))).).)))........ (-24.42 = -24.20 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:18 2006