Locus 828

Sequence ID	X_DroMel_CAF1
Location	2,312,622 – 2,312,721
Length	99
Max. P	0.999494

overview

Window 0

Location	2,312,622 – 2,312,721
Length	99
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	94.75
Mean single sequence MFE	-35.24
Consensus MFE	-32.16
Energy contribution	-31.80
Covariance contribution	-0.36
Combinations/Pair	1.12
Mean z-score	-2.33
Structure conservation index	0.91
SVM decision value	3.65
SVM RNA-class probability	0.999494
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2312622 99 + 22224390
AAGCUGCACGCCCACCAACUAAAGUUUCGAGGAUCGAGAGAAAAUGGGGAUGCGAUCAUAUUUUGUAUUCUUCUCUCUAAUUGCGUGGGCGCCGCGUUC
.....((.((((((((((..........(.....)((((((.....(((((((((.......)))))))))))))))...))).)))))))..)).... ( -32.10)
>DroSec_CAF1 10611 99 + 1
AAGCUGCACGCCCACCAACUAAAGUUUCGAGGAUCGAGGGAGAAUGGGGAUGCGAUCAUAUUUUGUAUUCUUCUCUCUAAUUGCGUGGGCGCCGCGGUC
..(((((.((((((((((........(((.....)))((((((...(((((((((.......)))))))))))))))...))).)))))))..))))). ( -39.40)
>DroSim_CAF1 11386 99 + 1
AUGCUGCACGCCCACCAACUAAAGUUUCGAGGAUCGAGGGAACAUGGGGAUGCGAUCAUAUUUUGUAUUCUUCUCUCUAAUUGCGUGGGCGCCGCGGUC
..(((((.((((((((((..........(.....)((((((.....(((((((((.......)))))))))))))))...))).)))))))..))))). ( -35.30)
>DroEre_CAF1 11951 99 + 1
AAGCUGCACGCCCACUAACUAAAGUUUCGAGGACCUGGAGAAAAUGGGGAUGCGAUCAUAUUUUGUAUUCUUCUCUCUAAUUGCGUGGGCGCCGCGGUC
..(((((.(((((((........(((.....))).((((((....((((((((((.......)))))))))).)))))).....)))))))..))))). ( -34.30)
>DroYak_CAF1 11640 99 + 1
AAGCUGCACGCCCACUAACUAAAGUUUCGAGGACCGGGGCAAAAUGGGGAUGCGAUUAUAUUUUGUAUUCUUCUCUCUAAUUGCGUGGGCGCCGCGGUC
..(((((.(((((((........((..((.....))..)).....((((((((((.......))))))))))............)))))))..))))). ( -35.10)
>consensus
AAGCUGCACGCCCACCAACUAAAGUUUCGAGGAUCGAGGGAAAAUGGGGAUGCGAUCAUAUUUUGUAUUCUUCUCUCUAAUUGCGUGGGCGCCGCGGUC
..(((((.((((((((((.....(((.....))).((((((.....(((((((((.......)))))))))))))))...))).)))))))..))))). (-32.16 = -31.80 +  -0.36)

alignment

secondary structure

dotplot

Window 1

Location	2,312,622 – 2,312,721
Length	99
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	94.75
Mean single sequence MFE	-29.23
Consensus MFE	-24.75
Energy contribution	-25.31
Covariance contribution	0.56
Combinations/Pair	1.03
Mean z-score	-1.43
Structure conservation index	0.85
SVM decision value	0.42
SVM RNA-class probability	0.728339
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2312622 99 - 22224390
GAACGCGGCGCCCACGCAAUUAGAGAGAAGAAUACAAAAUAUGAUCGCAUCCCCAUUUUCUCUCGAUCCUCGAAACUUUAGUUGGUGGGCGUGCAGCUU
....(((.(((((((.(((((((((((((((........................)))))))(((.....)))...))))))))))))))))))..... ( -31.36)
>DroSec_CAF1 10611 99 - 1
GACCGCGGCGCCCACGCAAUUAGAGAGAAGAAUACAAAAUAUGAUCGCAUCCCCAUUCUCCCUCGAUCCUCGAAACUUUAGUUGGUGGGCGUGCAGCUU
....(((.(((((((.(((((((((...(((((.......(((....)))....)))))...(((.....)))..)))))))))))))))))))..... ( -30.50)
>DroSim_CAF1 11386 99 - 1
GACCGCGGCGCCCACGCAAUUAGAGAGAAGAAUACAAAAUAUGAUCGCAUCCCCAUGUUCCCUCGAUCCUCGAAACUUUAGUUGGUGGGCGUGCAGCAU
....((.((((((((.(((((((((............((((((..........))))))...(((.....)))..)))))))))))))))))...)).. ( -32.20)
>DroEre_CAF1 11951 99 - 1
GACCGCGGCGCCCACGCAAUUAGAGAGAAGAAUACAAAAUAUGAUCGCAUCCCCAUUUUCUCCAGGUCCUCGAAACUUUAGUUAGUGGGCGUGCAGCUU
....(((.(((((((..((((((((.((.((.........(((..........)))..........)).))....)))))))).))))))))))..... ( -25.41)
>DroYak_CAF1 11640 99 - 1
GACCGCGGCGCCCACGCAAUUAGAGAGAAGAAUACAAAAUAUAAUCGCAUCCCCAUUUUGCCCCGGUCCUCGAAACUUUAGUUAGUGGGCGUGCAGCUU
....(((.(((((((..((((((((.....................(((.........)))..((.....))...)))))))).))))))))))..... ( -26.70)
>consensus
GACCGCGGCGCCCACGCAAUUAGAGAGAAGAAUACAAAAUAUGAUCGCAUCCCCAUUUUCCCUCGAUCCUCGAAACUUUAGUUGGUGGGCGUGCAGCUU
....(((.(((((((.(((((((((....(((((.....)))(((((................))))).))....)))))))))))))))))))..... (-24.75 = -25.31 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:48 2006