Locus 954

Sequence ID	X_DroMel_CAF1
Location	2,695,578 – 2,695,671
Length	93
Max. P	0.993424

overview

Window 9

Location	2,695,578 – 2,695,671
Length	93
Sequences	5
Columns	93
Reading direction	forward
Mean pairwise identity	94.41
Mean single sequence MFE	-21.90
Consensus MFE	-17.20
Energy contribution	-17.36
Covariance contribution	0.16
Combinations/Pair	1.14
Mean z-score	-1.84
Structure conservation index	0.79
SVM decision value	0.48
SVM RNA-class probability	0.754575
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2695578 93 + 22224390
GGCCACUUAAAAAAUCAUAAUCAUAACCAAUUAUGAUUACGCCAGGCAACCGAGCCAUAAGCCAGAUGAGCCAAGCUGCCAGCUUUGGCCUUG
(((((.......(((((((((........)))))))))..((..((((.(...(((((.......))).))...).)))).))..)))))... ( -24.20)
>DroSec_CAF1 92113 93 + 1
GGCCACUUAAAAAAUCAUAAUCAUAACCAAUUAUGAUUACGCCAGGCAACCGAGCCAUAAGCCAGAUGAGCCAAGCUGCCAGCUUUGGCCUUG
(((((.......(((((((((........)))))))))..((..((((.(...(((((.......))).))...).)))).))..)))))... ( -24.20)
>DroSim_CAF1 80462 93 + 1
GGCCACUUAAAAAAUCAUAAUCAUAACCAAUUAUGAUUACGCCAGGCAACCGAGCCAUAAGCCAGAUGAGCCAAGCUGCCAGCUUUGGCCUUG
(((((.......(((((((((........)))))))))..((..((((.(...(((((.......))).))...).)))).))..)))))... ( -24.20)
>DroEre_CAF1 105959 92 + 1
GGCCACUUAAAAAAUCAUAAUCAUAACCAAUUAUGAUUACGCCAAGCAACCGAGUCAUAAGCCAGAUGAGCCGUACUACCAGCUUUGGACC-G
(((((.......(((((((((........)))))))))..((........((..((((.......))))..))........))..))).))-. ( -15.09)
>DroYak_CAF1 100650 92 + 1
GGGCACUUAAAAAAUCAUAAUC-UAACCAAUUAUGAUUACGCCAGGCAACCGAGUCAUAAGCCAGAUGAGCCAAACUGCCAGCUUUGGCUUUG
.(((........(((((((((.-......)))))))))......(((......)))....)))....((((((((........)))))))).. ( -21.80)
>consensus
GGCCACUUAAAAAAUCAUAAUCAUAACCAAUUAUGAUUACGCCAGGCAACCGAGCCAUAAGCCAGAUGAGCCAAGCUGCCAGCUUUGGCCUUG
(((.........(((((((((........)))))))))......(((......)))....)))......(((((((.....).)))))).... (-17.20 = -17.36 +   0.16)

alignment

secondary structure

dotplot

Window 0

Location	2,695,578 – 2,695,671
Length	93
Sequences	5
Columns	93
Reading direction	reverse
Mean pairwise identity	94.41
Mean single sequence MFE	-32.00
Consensus MFE	-25.74
Energy contribution	-25.94
Covariance contribution	0.20
Combinations/Pair	1.13
Mean z-score	-2.98
Structure conservation index	0.80
SVM decision value	2.40
SVM RNA-class probability	0.993424
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2695578 93 - 22224390
CAAGGCCAAAGCUGGCAGCUUGGCUCAUCUGGCUUAUGGCUCGGUUGCCUGGCGUAAUCAUAAUUGGUUAUGAUUAUGAUUUUUUAAGUGGCC
...(((((..((((((((((.(((.(((.......)))))).))))))).)))((((((((((....))))))))))...........))))) ( -35.80)
>DroSec_CAF1 92113 93 - 1
CAAGGCCAAAGCUGGCAGCUUGGCUCAUCUGGCUUAUGGCUCGGUUGCCUGGCGUAAUCAUAAUUGGUUAUGAUUAUGAUUUUUUAAGUGGCC
...(((((..((((((((((.(((.(((.......)))))).))))))).)))((((((((((....))))))))))...........))))) ( -35.80)
>DroSim_CAF1 80462 93 - 1
CAAGGCCAAAGCUGGCAGCUUGGCUCAUCUGGCUUAUGGCUCGGUUGCCUGGCGUAAUCAUAAUUGGUUAUGAUUAUGAUUUUUUAAGUGGCC
...(((((..((((((((((.(((.(((.......)))))).))))))).)))((((((((((....))))))))))...........))))) ( -35.80)
>DroEre_CAF1 105959 92 - 1
C-GGUCCAAAGCUGGUAGUACGGCUCAUCUGGCUUAUGACUCGGUUGCUUGGCGUAAUCAUAAUUGGUUAUGAUUAUGAUUUUUUAAGUGGCC
.-((((..((((..(.((.....))...)..))))..)))).(((..(((((...((((((((((......))))))))))..)))))..))) ( -29.50)
>DroYak_CAF1 100650 92 - 1
CAAAGCCAAAGCUGGCAGUUUGGCUCAUCUGGCUUAUGACUCGGUUGCCUGGCGUAAUCAUAAUUGGUUA-GAUUAUGAUUUUUUAAGUGCCC
....((((.(((((..((((.((((.....))))...)))))))))...))))..((((((((((.....-))))))))))............ ( -23.10)
>consensus
CAAGGCCAAAGCUGGCAGCUUGGCUCAUCUGGCUUAUGGCUCGGUUGCCUGGCGUAAUCAUAAUUGGUUAUGAUUAUGAUUUUUUAAGUGGCC
...(((((..((((((((((.((.((((.......)))))).))))))).)))((((((((((....))))))))))...........))))) (-25.74 = -25.94 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:01 2006