Locus 6654

Sequence ID 2L_DroMel_CAF1
Location 18,671,259 – 18,671,363
Length 104
Max. P 0.760432
window10616

overview

Window 6

Location 18,671,259 – 18,671,363
Length 104
Sequences 4
Columns 116
Reading direction reverse
Mean pairwise identity 70.91
Mean single sequence MFE -18.93
Consensus MFE -7.20
Energy contribution -8.52
Covariance contribution 1.31
Combinations/Pair 1.14
Mean z-score -2.57
Structure conservation index 0.38
SVM decision value 0.50
SVM RNA-class probability 0.760432
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18671259 104 - 22407834
AAAGAAGUCUAAAGGGAAGUCUGAAAA------------GAAGUCUGAACUGAAGUCUGAAAUCAAGUCCGAUACAAAGCCUGAAAUGAAGACGGAAAGGAAAUCUGACAUGAAAG
..(((..((.....(((..(((....)------------))..))).....))..)))....(((.(((.(((......(((....((....))...)))..))).))).)))... ( -18.80)
>DroSec_CAF1 24062 116 - 1
AAAGAAGUCUAAAAGGAAGUCUGAAAAGAAGUCUGAAAAGAAGUCUGAAAUGAAGUCUGAAGUCAAGUCUGAUAUAAAGCCUGAUAUGAAGACGGAAAGAAAGUCUGACGUAAAAG
..(((..(((....(((..(((....)))..)))....)))..)))........(((.((..((..((((.((((........))))..)))).....))...)).)))....... ( -22.30)
>DroSim_CAF1 25386 104 - 1
AAAGAAGUCUAAACGGAAGUCUGAAAA------------GAAGUCUGAAAUGAAGUCUGAAGUCAAGUCUGAUAUAAAGCCUGAUAUGAAGACGGAAAGAAAGUCUGACGUAAAAG
..(((..((....((((..(((....)------------))..))))....))..)))...(((..((((.((((........))))..))))(((.......))))))....... ( -20.70)
>DroYak_CAF1 24314 81 - 1
-----------------------AAAG------------GAAGUCUGAAAGGAAAUCUGAAAGAAAGUCUGAUAGGAAGUCAGAAAGCACCUCAGGAAGGAAGUCUAAUAUAAAAG
-----------------------...(------------((..(((....)))..(((((.......((((((.....)))))).......))))).......))).......... ( -13.94)
>consensus
AAAGAAGUCUAAA_GGAAGUCUGAAAA____________GAAGUCUGAAAUGAAGUCUGAAAUCAAGUCUGAUAUAAAGCCUGAAAUGAAGACGGAAAGAAAGUCUGACAUAAAAG
..(((..(((....)))..)))....................(((.((.......((((...(((.(((.(.........).))).)))...)))).......)).)))....... ( -7.20 =  -8.52 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:35 2006