Locus 2201

Sequence ID 3R_DroMel_CAF1
Location 6,286,160 – 6,286,259
Length 99
Max. P 0.524990
window3577

overview

Window 7

Location 6,286,160 – 6,286,259
Length 99
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 80.04
Mean single sequence MFE -23.34
Consensus MFE -12.44
Energy contribution -14.20
Covariance contribution 1.76
Combinations/Pair 1.05
Mean z-score -1.86
Structure conservation index 0.53
SVM decision value -0.02
SVM RNA-class probability 0.524990
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6286160 99 + 27905053
AAAAGUCCACUUAUCGCUGACAUAUGGAUGACAUGCAGGAAUUCCUAGAAAAUUGUCAGUAAUGGUGGUCAUUUCGGACUGGAAAGUAUUAUAAAAGA-A-----
....(.(((((.((..((((((((((.....)))).(((....))).......))))))..))))))).).......(((....)))...........-.----- ( -24.60)
>DroSec_CAF1 51234 97 + 1
AAAAGUCCACUUACCGCUGACAUAUGGAUGACAAGCAGGAAUUCCUAGAAAGUUGCCAGUAAUGGUGGUCAUUUCGAACUGGAAAGUAUUAUACAA---A-----
........((((.(((((..(((....)))...)))(((....))).((((((..(((....)))..).).)))).....)).)))).........---.----- ( -20.20)
>DroSim_CAF1 54375 97 + 1
AAAAGUCCACUUACCGCUGACAUAUGGAUGACAUGCAGGAAUUCCUAGAAAAUUGUCAGUAAUGGUGGUCAUUUCGAACUGGGAAGUAUUAUAAAA---A-----
....(.(((((....(((((((((((.....)))).(((....))).......)))))))...))))).)(((((.......))))).........---.----- ( -23.20)
>DroEre_CAF1 56734 95 + 1
-AAAAUCCACUUACCGCUGACAUUUGGAUGACAUGCGGAAAUUCCUAGAAAAUUAUCAGUAAUGGUGGUCGUUUAGG----GA---UAUUAUUAAAUCAC--UUG
-............((((((.(((....))).)).))))..(((((((((..(((((((....)))))))..))))))----))---).............--... ( -25.20)
>DroYak_CAF1 53520 98 + 1
CAAAGUCCACUUACCGCUGACAUAUGGAUGACAUGCGGAAAUUCCUGGAAAAUGAUCAGUAAUGAUGGUCAUUUAAG----GU---GGUUAUUAAAUUACUCUUG
......((((((.((((((.(((....))).)).))))...........(((((((((.......))))))))).))----))---))................. ( -23.50)
>consensus
AAAAGUCCACUUACCGCUGACAUAUGGAUGACAUGCAGGAAUUCCUAGAAAAUUGUCAGUAAUGGUGGUCAUUUCGGACUGGAAAGUAUUAUAAAA___A_____
....(.(((((....(((((((((((.....)))).(((....))).......)))))))...))))).)................................... (-12.44 = -14.20 +   1.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:44 2006