Locus 1979

Sequence ID 3L_DroMel_CAF1
Location 5,452,792 – 5,452,889
Length 97
Max. P 0.725374
window3101

overview

Window 1

Location 5,452,792 – 5,452,889
Length 97
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 95.62
Mean single sequence MFE -19.06
Consensus MFE -16.82
Energy contribution -16.66
Covariance contribution -0.16
Combinations/Pair 1.13
Mean z-score -1.33
Structure conservation index 0.88
SVM decision value 0.41
SVM RNA-class probability 0.725374
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5452792 97 + 23771897
CUGAAGAAGGGAUGGA---AAAAAGGUCAGCCAGACAGCAUAAAAACAUCCUUCAGACAAAUAGAUUUGUAUGCUUUUAAGUAAUUUGCAGCACAAAUUG
((((....((((((..---......(((.....)))..........)))))))))).......(((((((.(((....((....)).)))..))))))). ( -20.37)
>DroSec_CAF1 14301 96 + 1
CUGAAGAAGGGAUGG----AAAAAGGUCAGCCAGACAGCAUAAAAACAUCCUUCAGACAAAUAGAUUUGUAUGCUUUUAAGUAAUUUGCAGCACAAAUUG
((((....((((((.----......(((.....)))..........)))))))))).......(((((((.(((....((....)).)))..))))))). ( -19.93)
>DroSim_CAF1 14417 97 + 1
CUGAAGAAGGGAUGGC---AAAAAGGUCAGCCAGACAGCAUAAAAACAUCCUUCAGACAAAUAGAUUUGUAUGCUUUUAAGUAAUUUGCAGCACAAAUUG
((((....((((((..---......(((.....)))..........)))))))))).......(((((((.(((....((....)).)))..))))))). ( -20.37)
>DroEre_CAF1 13979 97 + 1
CUGAAGAAGGGAUGGA---AAAAAGCUCAGCCAGACAGCAUAAAAACAUCCUUUAGACAAAUAGAUUUGUAUGCUUUUAAGUAAUUUGCAGCACAAAUUG
.((...((((((((..---.....(((.........))).......))))))))...))....(((((((.(((....((....)).)))..))))))). ( -18.54)
>DroYak_CAF1 1166 100 + 1
CUGGAGAAGGGAUGGAUAAAAAAAGCUCAGCCAGACAGCAUAAAAACAUCUUUUAGACAAAUAGAUUUGUAUGCUUUUAAGUAAUUUGCAGUACAAAUUG
.((...((((((((((..........)).((......)).......))))))))...))....(((((((((((....((....)).))).)))))))). ( -16.10)
>consensus
CUGAAGAAGGGAUGGA___AAAAAGGUCAGCCAGACAGCAUAAAAACAUCCUUCAGACAAAUAGAUUUGUAUGCUUUUAAGUAAUUUGCAGCACAAAUUG
((((....((((((...........(((.....)))..........)))))))))).......(((((((.(((.............)))..))))))). (-16.82 = -16.66 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:40 2006