Locus 7319

Sequence ID	X_DroMel_CAF1
Location	18,269,025 – 18,269,210
Length	185
Max. P	0.858797

overview

Window 3

Location	18,269,025 – 18,269,117
Length	92
Sequences	4
Columns	94
Reading direction	reverse
Mean pairwise identity	72.85
Mean single sequence MFE	-28.97
Consensus MFE	-21.58
Energy contribution	-21.82
Covariance contribution	0.25
Combinations/Pair	1.18
Mean z-score	-1.26
Structure conservation index	0.74
SVM decision value	0.29
SVM RNA-class probability	0.670632
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18269025 92 - 22224390
UCUGCUCGAGUCCACCACCACUUGCACCGCCGAGUGGUGCAUCAAUGA--ACGGAGACAAUUGCCCUGGUUGGCCGGCGGCUAAUUGGGACGAG
.........((((..(((((((((......))))))))).........--.......((((((((((((....)))).))).)))))))))... ( -34.30)
>DroSec_CAF1 37456 72 - 1
--------------------CGUGCACCACCGAGUGGUGCAUCAAUGA--ACGGAAACAAUUGCCCUGGCUGACCGGCGGCUAAUUGGGACGAG
--------------------.(((((((((...)))))))))......--.((....((((((((((((....)))).))).)))))...)).. ( -28.30)
>DroSim_CAF1 12009 72 - 1
--------------------CGUGCACCACCGAGUGGUGCAUCAAUGA--ACGGAAACAAUUGCCCUGGCUGACCGGCGACUAAUUGGGACGAG
--------------------((((((((((...))))))).(((((..--..(....)..(((((..((....)))))))...))))).))).. ( -22.60)
>DroYak_CAF1 33977 81 - 1
CUUG-------------CCACUUGCCACGCGGCGCGGGGCAUCCAUGGGUAUGGAAACAAGUGCACUGGCUGCCCGCUGGCUAAUUGGAACGAG
...(-------------(((...(((....)))(((((.((.(((((.(..((....))..).)).))).)))))))))))............. ( -30.70)
>consensus
____________________CGUGCACCACCGAGUGGUGCAUCAAUGA__ACGGAAACAAUUGCCCUGGCUGACCGGCGGCUAAUUGGGACGAG
......................((((((((...))))))))..........((....((((((((((((....)))).))).)))))...)).. (-21.58 = -21.82 +   0.25)

alignment

secondary structure

dotplot

Window 4

Location	18,269,117 – 18,269,210
Length	93
Sequences	3
Columns	93
Reading direction	forward
Mean pairwise identity	94.27
Mean single sequence MFE	-32.37
Consensus MFE	-32.76
Energy contribution	-32.43
Covariance contribution	-0.33
Combinations/Pair	1.11
Mean z-score	-1.64
Structure conservation index	1.01
SVM decision value	0.82
SVM RNA-class probability	0.858797
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18269117 93 + 22224390
GGAUGUCCAUUCCCAUGGAUGUCUAAUAAUACCCCAACAAUCGAAGUCCGUCGCCGUUGCGACUGCGACUGGCUGCUCGGAUAAAUGGAUCCG
((((((((((....)))))))))).........(((....((((((((.(((((.((....)).))))).))))..)))).....)))..... ( -28.40)
>DroSec_CAF1 37528 93 + 1
GGAUGUCCAUUCCUAUGGAUGUCUAAUAAUACGCCCACAAUCGAAGCCCGUCGUGGUCGCGGCUGCGACUGGCUGCUCGGAUAAAUGGAUCCG
((((((((((....))))))))))....................((((.((((..((....))..)))).))))...(((((......))))) ( -34.70)
>DroSim_CAF1 12081 93 + 1
GGAUGUCCAUUCCCAUGGAUGUCUAAUAAUACGCCCACAAUCGAAGCCCGUCGUGGUCGCGGCUGCGACUGGCUGCUCGGAUAAAUGGAUCCG
((((((((((....))))))))))....................((((.((((..((....))..)))).))))...(((((......))))) ( -34.00)
>consensus
GGAUGUCCAUUCCCAUGGAUGUCUAAUAAUACGCCCACAAUCGAAGCCCGUCGUGGUCGCGGCUGCGACUGGCUGCUCGGAUAAAUGGAUCCG
((((((((((....))))))))))....................((((.((((((((....)))))))).))))...(((((......))))) (-32.76 = -32.43 +  -0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:51 2006