Locus 5234

Sequence ID 3R_DroMel_CAF1
Location 13,684,115 – 13,684,232
Length 117
Max. P 0.543149
window8540

overview

Window 0

Location 13,684,115 – 13,684,232
Length 117
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 82.01
Mean single sequence MFE -23.35
Consensus MFE -13.85
Energy contribution -15.21
Covariance contribution 1.36
Combinations/Pair 1.05
Mean z-score -1.84
Structure conservation index 0.59
SVM decision value 0.02
SVM RNA-class probability 0.543149
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13684115 117 + 27905053
UGCCAUCUGUAUACAUUCUCUUCAAUGGCAAAACCCAUAGAGUAGUAAAACUUUCGAUCCCCUUAGAGCUACUUUUGUAGCUACUUUUUUAUCGCAUGUCUAUUAUGCACUUCCCGC
((((((.((.............)))))))).........((((............(((......((((((((....)))))).)).....)))(((((.....)))))))))..... ( -22.62)
>DroSec_CAF1 11280 101 + 1
----------------UCUCUUCAAUGGCAAAACCCAUAGGGUAGUAAAACUUUCGAUCCCCUUAGAGCUACUUUUGUAGCUACUUUUUUAUCGCAUGUCGAUUAUGCACUUCCCGC
----------------........((((......)))).(((.(((.........(((......((((((((....)))))).)).....)))(((((.....)))))))).))).. ( -24.90)
>DroSim_CAF1 11394 117 + 1
AGCCAUCUGCAUACAUUCUCUUCACUGGCAAAACCCAUAGGGUAGUAAAACUUUCGAUCCCCUUAGAGCUACUUUUGUAGCUACUUUUUUAUCGCAUGUCGAUUAUGCACUUCCCGC
.((((....................))))..........(((.(((.........(((......((((((((....)))))).)).....)))(((((.....)))))))).))).. ( -26.35)
>DroEre_CAF1 5972 112 + 1
--CCAUCUGAGGAGAAU--CCUCACUUGCAAAACUCACUGGGAACUGAAACUUUCGAUCCCCUUAGAGCUACUUUUGUAGCUA-UUUUUUAUUGCAUGUCGAUUAAGCACUUCCCGC
--.((..(((((.....--)))))..))...........(((((.((......(((((........((((((....)))))).-.............))))).....)).))))).. ( -27.25)
>DroYak_CAF1 6179 116 + 1
AGCCAUCUUUACAGAUUCUCAUCAGUUGCAAAAGUUAUAGGGUACCAAAAAUUUCGAUCCCCUUAAAGCUUCUUUUAUAGCUU-UUUUUUAUUGCAUGUCGAUUAUGCACUUGCCGC
........................((.((((.......((((.................)))).((((((........)))))-).......((((((.....)))))).)))).)) ( -15.63)
>consensus
_GCCAUCUGUAUACAUUCUCUUCAAUGGCAAAACCCAUAGGGUAGUAAAACUUUCGAUCCCCUUAGAGCUACUUUUGUAGCUACUUUUUUAUCGCAUGUCGAUUAUGCACUUCCCGC
.......................................(((.(((.........(((........((((((....))))))........)))(((((.....)))))))).))).. (-13.85 = -15.21 +   1.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:45 2006