Locus 3441

Sequence ID 3R_DroMel_CAF1
Location 9,330,016 – 9,330,119
Length 103
Max. P 0.629681
window5521

overview

Window 1

Location 9,330,016 – 9,330,119
Length 103
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 80.80
Mean single sequence MFE -23.86
Consensus MFE -13.36
Energy contribution -13.80
Covariance contribution 0.44
Combinations/Pair 1.19
Mean z-score -1.95
Structure conservation index 0.56
SVM decision value 0.20
SVM RNA-class probability 0.629681
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9330016 103 + 27905053
CCCCACUCCAUCGAAGCUCUCUUUAUGGCACAUCAAAUGUAAUUGCAUUCGACUGUGCAUACACGUAUUUGUAUGUUUUGGGUGUGUGUUUGAAGAAAUUC----UC
...(((.((..((((((..........(((((((.(((((....))))).)).)))))(((((......))))))))))))).))).....(((....)))----.. ( -24.90)
>DroSec_CAF1 100741 103 + 1
CCCCCGUCCAUCGAAGCUCUCUUUAUGGCACAUCAAAUGUAAUUACAUUCGACUGUGCAUACACGUAUUUGUGUGUUUUCGGUGUGUGUUUGAAGAAAUUC----UC
....((..((((((((...........(((((((.(((((....))))).)).)))))(((((((....)))))))))))))))..))...(((....)))----.. ( -28.70)
>DroSim_CAF1 103031 101 + 1
CCCCCGUCCAUCGAAGCUCUCUUUAUGGCACAUCAAAUGUAAUUGCAUUCGACUGUGCAUACACGUAUUUGUGUGUUUCGGG--UGUGUUUGAAGAAAUUC----UC
..((((..(((.((((....)))))))(((((((.(((((....))))).)).)))))(((((((....)))))))..))))--.......(((....)))----.. ( -26.10)
>DroEre_CAF1 102209 87 + 1
CCC-GUUCCAUCGAGGCUCUCUGUAUGGCACAUCAAAUGUAAUUGCAUUCGACUGUGCAUACACAU---------------GUACAUAUUCCAAGAAAUUC----UC
...-........(((..(((..((((((((((((.(((((....))))).)).))))).(((....---------------))))))))....)))..)))----.. ( -18.60)
>DroYak_CAF1 102464 92 + 1
CCC-CGCCCAUCGAGGCUCUCUUUAUGGCACAUCAAAUGUAAUUGCAUUCGACUGUGCAUACAUAUA--------------GUACAUAUUCGAAGAAAUUCGUAUUC
...-.(((......)))......(((((((((((.(((((....))))).)).))))).(((.....--------------)))))))..((((....))))..... ( -21.00)
>consensus
CCCCCGUCCAUCGAAGCUCUCUUUAUGGCACAUCAAAUGUAAUUGCAUUCGACUGUGCAUACACGUAUUUGU_UGUUU__GGUAUGUGUUUGAAGAAAUUC____UC
............(((..(((.......(((((((.(((((....))))).)).)))))((((((((...............))))))))....)))..)))...... (-13.36 = -13.80 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:04 2006