Locus 10245

Sequence ID 3R_DroMel_CAF1
Location 27,452,540 – 27,452,634
Length 94
Max. P 0.965524
window16328

overview

Window 8

Location 27,452,540 – 27,452,634
Length 94
Sequences 5
Columns 101
Reading direction reverse
Mean pairwise identity 74.12
Mean single sequence MFE -18.13
Consensus MFE -10.26
Energy contribution -10.46
Covariance contribution 0.20
Combinations/Pair 1.12
Mean z-score -2.09
Structure conservation index 0.57
SVM decision value 1.58
SVM RNA-class probability 0.965524
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27452540 94 - 27905053
GGCGCACCACCGCACCCCCCCCCCUCACC------CACUCUCCGGAUCCCCUGCAACCACU-GAAGUCCUGGCUAAAUUGCCAUUCAGUGUUGUACACCGU
((.((......)).)).............------.......(((......((((((.(((-(((....((((......))))))))))))))))..))). ( -23.10)
>DroSec_CAF1 8468 82 - 1
GGCGCACCAC------------CCCCACC------CUCCCCUCUGAUCCCCUGCAACCACU-GAAGUCCUGGCUAAAUUGCCAUUCAGUGUUGUACACCGU
((....))..------------.......------................((((((.(((-(((....((((......))))))))))))))))...... ( -18.10)
>DroSim_CAF1 8256 81 - 1
NNNNNNCCAC------------CCCCACC------C-CCCUGCGGAUCCCCUGCAACCACU-GAAGUCCUGGCUAAAUUGCCAUUCAGUGUUGUACACCGU
..........------------.......------.-....((((......((((((.(((-(((....((((......))))))))))))))))..)))) ( -20.40)
>DroYak_CAF1 8512 87 - 1
GGCAGACCACC------------CCCUCCUCC--CCUCCCUGCUGAUGCCCUGCAACCAUUUGAAGUCCUGGCUAAAUUGCCAUUCAGUGUUGUACACCGU
(((((......------------.........--.....))))).......((((((...(((((....((((......))))))))).))))))...... ( -17.05)
>DroPer_CAF1 9489 84 - 1
UCCCUACCAC------------ACAUUCC---AUCC--CCCCCUUAAGCCCUGCAACCAUUUGUAGUUCAGGCUAAAUUGGCAUUCAAUGUUGUACACAAC
........((------------(((((..---....--.((..((.((((((((((....))))))....)))).))..)).....)))).)))....... ( -12.00)
>consensus
GGCGCACCAC____________CCCCACC______C_CCCUCCUGAUCCCCUGCAACCACU_GAAGUCCUGGCUAAAUUGCCAUUCAGUGUUGUACACCGU
...................................................((((((.(((.(((....((((......))))))))))))))))...... (-10.26 = -10.46 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:52:31 2006