Locus 1277

Sequence ID 2R_DroMel_CAF1
Location 5,016,032 – 5,016,140
Length 108
Max. P 0.821085
window2213

overview

Window 3

Location 5,016,032 – 5,016,140
Length 108
Sequences 4
Columns 113
Reading direction forward
Mean pairwise identity 84.36
Mean single sequence MFE -22.58
Consensus MFE -12.84
Energy contribution -13.59
Covariance contribution 0.75
Combinations/Pair 1.12
Mean z-score -2.89
Structure conservation index 0.57
SVM decision value 0.68
SVM RNA-class probability 0.821085
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5016032 108 + 20766785
UCGUGUGACAAACUCAAGGAACCAUUUCACACACACCCUUUAUACGUAUAUAUAUAUACAAAUGUGCAUUUGUGUAUAGUAUAUCAGUGUGAAAGACCAACGU-----ACAAA
..((((((..................))))))......(((((((..((((((((((((((((....)))))))))).))))))..)))))))..........-----..... ( -23.57)
>DroSec_CAF1 70316 98 + 1
UCGUGUGACAAACUCAAGAAACCAUUUCACACACACCCUUUAUACGUAUAUA----------UGUGCAUUUGUGUAUAGUAUAUCAGUGUGAAACACACACGU-----ACAAA
.((((((..........(((.....)))...(((((....(((((.((((((----------((......)))))))))))))...))))).....)))))).-----..... ( -23.20)
>DroSim_CAF1 73801 98 + 1
UCGUGUGACAAACUCAAGAAACCAUUUCACACACACCCUUUAUACGUAUAUA----------UGUGCAUUUGUGUAUAGUAUAUCAGUGUGAAACACACACGU-----ACAAA
.((((((..........(((.....)))...(((((....(((((.((((((----------((......)))))))))))))...))))).....)))))).-----..... ( -23.20)
>DroYak_CAF1 75741 98 + 1
UCGUGUGACAAACUCAAGAAACCAUUAAACGCACACCCUUUAUACGUAUAUA----------UGUGCA----GUUGU-GUGUAUCAGUGUGUAACACACUCGUACUAUACAAA
..(((((......................)))))...........((((...----------.)))).----.((((-((((((.((((((...)))))).)))).)))))). ( -20.35)
>consensus
UCGUGUGACAAACUCAAGAAACCAUUUCACACACACCCUUUAUACGUAUAUA__________UGUGCAUUUGUGUAUAGUAUAUCAGUGUGAAACACACACGU_____ACAAA
.((((((..........(....).((((((((.......(((((((((((............)))))......)))))).......))))))))..))))))........... (-12.84 = -13.59 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:46 2006