Locus 5205

Sequence ID 3R_DroMel_CAF1
Location 13,633,242 – 13,633,357
Length 115
Max. P 0.717898
window8493

overview

Window 3

Location 13,633,242 – 13,633,357
Length 115
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 78.58
Mean single sequence MFE -28.40
Consensus MFE -20.20
Energy contribution -19.92
Covariance contribution -0.28
Combinations/Pair 1.37
Mean z-score -1.57
Structure conservation index 0.71
SVM decision value 0.39
SVM RNA-class probability 0.717898
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13633242 115 - 27905053
AAUCGAC--UGUUGGCGCCACACACUCCACACUCCACACGCCACAAUGCCAGGGAUGCAAACUAUCUGACUUUUUCGGUGGUUCAGAGAAAUCCUUUGAAUCACCAGCCAGCCGU---AC
.....((--.((((((.............((.(((....((......))...)))))...................((((((((((((.....)))))))))))).)))))).))---.. ( -32.60)
>DroSec_CAF1 11678 99 - 1
AUUCGACUCUGUUGGCGCCACAAACUC------------GC--CAAUGCCAGGGAUGCAGACUAUUUGACUUUUUCUGUGGUUCAGAGAACUCCUUUGAACCACCA----GCCGU---AC
......(((((((((((.........)------------))--)))...))))).....................(((((((((((((.....)))))))))).))----)....---.. ( -27.90)
>DroSim_CAF1 11786 99 - 1
AUUCGACUCUGUUGGCGCCACAAACUC------------GC--CAAUGCCAGGGAUGCAGACUAUUUGACUUUUUCGGUGGUUCAGAGAACUCCUUUGAACCACCA----GCCGA---AC
.((((.(((((((((((.........)------------))--)))...)))))..((.........((.....))((((((((((((.....)))))))))))).----)))))---). ( -35.30)
>DroEre_CAF1 13412 102 - 1
AUACGACUCCGUUGGCGCCACACAUUC------------GC--CAAUGCCAGGGAUGCAGACUAUCGGACUAUUUUGGUGGUUCAAAGAACUCUUUUGAACUAGUA----GCCGUAAGAC
......(((((((((((.........)------------))--)))))...))).......((..(((.((((.....((((((((((.....)))))))))))))----))))..)).. ( -25.70)
>DroYak_CAF1 13578 102 - 1
CUACGACUCCUUUGGCGCCACACGUUC------------GC--CAAUGCCAGGGAUGCAGACUAUCGGACUAUUUUGGUGAUUCAAAUAACUUAUUUGAUCCAAUA----GCCAUAAGAC
....(..((((((((((.........)------------))--))).....))))..)........((.((((..(((....(((((((...))))))).))))))----)))....... ( -20.50)
>consensus
AUUCGACUCUGUUGGCGCCACACACUC____________GC__CAAUGCCAGGGAUGCAGACUAUCUGACUUUUUCGGUGGUUCAGAGAACUCCUUUGAACCACCA____GCCGU___AC
............((((..............................(((.......))).................((((((((((((.....)))))))))))).....))))...... (-20.20 = -19.92 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:00 2006