Locus 6013

Sequence ID 3R_DroMel_CAF1
Location 15,837,275 – 15,837,395
Length 120
Max. P 0.588414
window9814

overview

Window 4

Location 15,837,275 – 15,837,395
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 94.17
Mean single sequence MFE -37.10
Consensus MFE -36.94
Energy contribution -36.50
Covariance contribution -0.44
Combinations/Pair 1.07
Mean z-score -1.33
Structure conservation index 1.00
SVM decision value 0.11
SVM RNA-class probability 0.588414
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15837275 120 + 27905053
GGCCGCAAAUGGGUGGCCAGAAUCCCAAUCAAAUGGGAGCAGGCGGUCCAAUGGUCGGCAAUCGCAACUUUGACGACGGAAACUAUGAGUUCAUGUAGGCUACUUAAGAGUAUCGUAUAA
((((((......)))))).((.(((((......)))))..(((..(((..(((((((.(((........))).))))(....)........)))...)))..))).......))...... ( -33.50)
>DroEre_CAF1 61980 120 + 1
GGCCGCAAAUGGGCGGCCAGAAUCCCAAUCAAAUGGGAGCAGGCGGCCCAAUGGUCGGCAACCGUAACUUUGACGACGGAAACUAUGAGUUCAUGUAGGCUACUUUAAAAUAUCGUAUUG
.(((((...(((((.(((....(((((......)))))...))).)))))...).))))..((((..........))))....(((((........((....))........)))))... ( -39.29)
>DroYak_CAF1 66545 120 + 1
GGCCGCAAAUGGGCGGCCAGAAUCCCAAUCAAAUGGGAGCAGGCGGCCCAAUGGUCGGCAACCGCAACUUUGACGACGGAAACUAUGAGUUCAUGUAGGCUACUUUAAAAUAUCUUAUCG
(((((((..(((((.(((....(((((......)))))...))).)))))...((((.(((........))).))))(....)..........))).))))................... ( -38.50)
>consensus
GGCCGCAAAUGGGCGGCCAGAAUCCCAAUCAAAUGGGAGCAGGCGGCCCAAUGGUCGGCAACCGCAACUUUGACGACGGAAACUAUGAGUUCAUGUAGGCUACUUUAAAAUAUCGUAUAG
(((((((..(((((.(((....(((((......)))))...))).)))))...((((.(((........))).))))(....)..........))).))))................... (-36.94 = -36.50 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:28 2006