Locus 6265

Sequence ID	X_DroMel_CAF1
Location	15,928,318 – 15,928,488
Length	170
Max. P	0.961946

overview

Window 0

Location	15,928,318 – 15,928,434
Length	116
Sequences	5
Columns	116
Reading direction	forward
Mean pairwise identity	91.55
Mean single sequence MFE	-30.32
Consensus MFE	-23.08
Energy contribution	-23.56
Covariance contribution	0.48
Combinations/Pair	1.19
Mean z-score	-1.69
Structure conservation index	0.76
SVM decision value	0.22
SVM RNA-class probability	0.638613
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15928318 116 + 22224390
AUCAUCUGUACGGCUGCGGCGAUCGUGAUCUUCAUUCCGAUACCGCUGCUUUCUGUCGUUCGUGUUGUACUCUUGCUUAUACUUUGGCCUGUAACGCUCUUUCGAACCAUCCGCCA
...........(((.((((((((((.((.......))))))..))))))........(((((.((..(((....(((........)))..)))..)).....))))).....))). ( -27.50)
>DroSec_CAF1 26844 116 + 1
AUCAUCUGUACGGCUGCGGCGAUCGUGAUCUUCAUUCCGUCGCCGCUGCUUUCUUUCGUUGGAGUUGUACUCUUGCUUAUACUUUGGCCUGUAACGUUCUUUCGAACCAUCCGCCA
...........(((.(((((((.((.((.......)))))))))))........((((..((((...(((....(((........)))..)))...))))..))))......))). ( -32.30)
>DroSim_CAF1 12034 116 + 1
AUCAUCUGUACGGCUGCGGCGAUCGUGAUCUUCAUUCCGUCGCCGCUGCUUUCUUUCGUUGGAGUUGUACUCUUGCUUAUACUUUGGCCUGUAACGCUCUUUCGAACCAUCCGCCA
...........(((.(((((((.((.((.......)))))))))))........((((..(((((..(((....(((........)))..)))..)))))..))))......))). ( -36.10)
>DroEre_CAF1 20286 116 + 1
AUCAUCUUUUCGGUUGCGUCGAUCGUGCUCUUCAUUCUGACGCCGCUGUUUCCUCUCGUUCGAGUUGUAUUCCUGCUUAUACUUUGGCCUGUAACGCUCUUUCGAACCAUCCGCCA
..........((((.((((((...(((.....)))..)))))).)))).........(((((((..(..((.(.(((........)))..).))..)...)))))))......... ( -23.00)
>DroYak_CAF1 11260 116 + 1
AUCAUCUUUUCGGCUGCGGUGAUCGUGUUCUUCAUUCGGUCGCCGCUGCUUCCUGUCGUUCGAGUUGUACUCCUGCUUAUACUUUGGCCUAUAACGCUCUUUCGAACCAUCCGCCA
...........(((.((((((((((...........))))))))))...........((((((((((((..((............))..))))))......)))))).....))). ( -32.70)
>consensus
AUCAUCUGUACGGCUGCGGCGAUCGUGAUCUUCAUUCCGUCGCCGCUGCUUUCUGUCGUUCGAGUUGUACUCUUGCUUAUACUUUGGCCUGUAACGCUCUUUCGAACCAUCCGCCA
...........(((.((((((((.(((.....)))...)))))))).........(((...((((..(((....(((........)))..)))..))))...))).......))). (-23.08 = -23.56 +   0.48)

alignment

secondary structure

dotplot

Window 1

Location	15,928,394 – 15,928,488
Length	94
Sequences	5
Columns	94
Reading direction	reverse
Mean pairwise identity	96.28
Mean single sequence MFE	-25.40
Consensus MFE	-25.26
Energy contribution	-24.78
Covariance contribution	-0.48
Combinations/Pair	1.13
Mean z-score	-1.39
Structure conservation index	0.99
SVM decision value	1.53
SVM RNA-class probability	0.961946
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15928394 94 - 22224390
CGAAAAGAAAUGAUGGUCCACAAACCGUAACUUCCCAUGGCCAGUCAUCGAAGCUGGCGGAUGGUUCGAAAGAGCGUUACAGGCCAAAGUAUAA
.............(((((........(((((.(((....((((((.......)))))))))..((((....))))))))).)))))........ ( -25.00)
>DroSec_CAF1 26920 94 - 1
CGAAAAGAAAUGAUGGUCCACAAACCGUGACUUCCCAUGGCCAGUCAUCGAAGCUGGCGGAUGGUUCGAAAGAACGUUACAGGCCAAAGUAUAA
.............(((((..((..(((((......))))((((((.......)))))))..))((((....))))......)))))........ ( -25.50)
>DroSim_CAF1 12110 94 - 1
CGAAAAGAAAUGAUGGUCCACAAACCGUGACUUCCCAUGGCCAGUCAUCGAAGCUGGCGGAUGGUUCGAAAGAGCGUUACAGGCCAAAGUAUAA
.............(((((..((..(((((......))))((((((.......)))))))..))((((....))))......)))))........ ( -25.50)
>DroEre_CAF1 20362 94 - 1
CGAAGAAUAAUGAUGGUCCACAAACCGUGACUUCCCAUGGCCAGUCAUCGAAGCUGGCGGAUGGUUCGAAAGAGCGUUACAGGCCAAAGUAUAA
.............(((((..((..(((((......))))((((((.......)))))))..))((((....))))......)))))........ ( -25.50)
>DroYak_CAF1 11336 94 - 1
CGAAUAAUAAUAAUGGUCCACAAACCGUGACUUCCCAUGGCCAGUCAUCGAAGCUGGCGGAUGGUUCGAAAGAGCGUUAUAGGCCAAAGUAUAA
.............(((((..((..(((((......))))((((((.......)))))))..))((((....))))......)))))........ ( -25.50)
>consensus
CGAAAAGAAAUGAUGGUCCACAAACCGUGACUUCCCAUGGCCAGUCAUCGAAGCUGGCGGAUGGUUCGAAAGAGCGUUACAGGCCAAAGUAUAA
.............(((((........(((((.(((....((((((.......)))))))))..((((....))))))))).)))))........ (-25.26 = -24.78 +  -0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:06 2006