Locus 539

Sequence ID 3R_DroMel_CAF1
Location 1,995,247 – 1,995,362
Length 115
Max. P 0.605002
window856

overview

Window 6

Location 1,995,247 – 1,995,362
Length 115
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 78.02
Mean single sequence MFE -34.07
Consensus MFE -19.48
Energy contribution -19.27
Covariance contribution -0.22
Combinations/Pair 1.23
Mean z-score -1.64
Structure conservation index 0.57
SVM decision value 0.14
SVM RNA-class probability 0.605002
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1995247 115 - 27905053
----ACAAUCCAAUAGGACAGUGGGUACUUCUCACCGUGCUCCUUCUUCAAGGAAGUAGGCUUAUUGCCAAGCAAGCCCUUGACAUUAUCGAGAGUUUUCUGCACCAGCCAACUGUCAU
----............((((((((((((........))))))(((((....)))))..((((...(((..((.((((.(((((.....))))).)))).)))))..)))).)))))).. ( -33.10)
>DroPse_CAF1 124461 119 - 1
CGGCUUAAUCCAGGAAUAUUGCGGAUACUUUUCGCUAUGCGCCUUUUUGAAGGUCGAUGGUUUUUUGCUGAAGUAACCCUUGACGUUGUCGAGGGUCUUUCGAACCAGCCAAUUGUCAU
.(((((((...(((..(((.(((((.....))))).)))..)))..)))).((((((.((.....(((....)))(((((((((...))))))))))).))).))).)))......... ( -35.90)
>DroSim_CAF1 149605 115 - 1
----ACAAUCCAAUAGGACAGUGGGUACUUCUCACCGUGCGCCUUCUUAAAGGAAGUAGGCUUAUUGCCAAGUAAGCCCUUGACAUUUUCGAGAGUUUUCUGCACCAGCCAACUGUCAU
----............((((((.(((.......)))((((..(((((....)))))..((((((((....))))))))(((((.....)))))........))))......)))))).. ( -32.10)
>DroEre_CAF1 147423 115 - 1
----ACAAUCCAAUAGGACAGUGGGAACUUCUCAGCAUGCGCCUUCUUAAAGGAAGUGGGCUUCUUGCCAAACAAGCCCUUGACAUUUUCGAGAGUUUUGCGCACCAGCCAAUUGUCGU
----............(((((((((.....))).((.(((((...(((...((((((((((.....)))...(((....))).)))))))..)))....)))))...))..)))))).. ( -29.90)
>DroYak_CAF1 151561 115 - 1
----GCCAUCCAAUAGGGCAGUGGGAAUUUCUCACCGUGCGCCUUCUUAAAGGAAGUAGGCUUCUUUCCAAGUAAGCCCUUGACAUUAUCGAGAGUUUUGCGCACCAGCCAACUGUCAU
----............(((.(((((.....))))).(((((((((((....)))))..(((((((.....)).)))))(((((.....)))))......))))))..)))......... ( -34.10)
>DroPer_CAF1 125641 119 - 1
CGGCUUAAUCCAGGAAUAUUGCGGAUACUUUUCGCUGUGCGCCUUUUUGAAGGUCGAUGGUUUUUUGCUGAAGUAACCCUUGACGUUGUCGAGGGUCUUUCGCACCAGCCAAUUGUCAU
((((((.....(((..(((.(((((.....))))).)))..)))......)))))).(((((...(((.((((..(((((((((...))))))))))))).)))..)))))........ ( -39.30)
>consensus
____ACAAUCCAAUAGGACAGUGGGUACUUCUCACCGUGCGCCUUCUUAAAGGAAGUAGGCUUAUUGCCAAACAAGCCCUUGACAUUAUCGAGAGUUUUCCGCACCAGCCAACUGUCAU
................(((((((((.....))))).(((((((((....)))).....(((((.((....)).)))))(((((.....))))).......)))))........)))).. (-19.48 = -19.27 +  -0.22) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:30 2006