Locus 6946

Sequence ID 3R_DroMel_CAF1
Location 18,319,613 – 18,319,720
Length 107
Max. P 0.575922
window11266

overview

Window 6

Location 18,319,613 – 18,319,720
Length 107
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 90.65
Mean single sequence MFE -28.73
Consensus MFE -21.70
Energy contribution -21.78
Covariance contribution 0.08
Combinations/Pair 1.08
Mean z-score -1.60
Structure conservation index 0.76
SVM decision value 0.08
SVM RNA-class probability 0.575922
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18319613 107 - 27905053
CCUGCACAAAGACAAUUUGUCUUUGUUUCACAUGGCCCACAGCAGACGCCACAGUGUAGGAUUGAAAAAAUGGAGC------AGGCAGCUUUAAUUGCAUGGAGCAGAAAAAC
.((((((((((((.....)))))))).((.((((.....((((..((((....))))..).)))......((((((------.....))))))....))))))))))...... ( -29.10)
>DroSec_CAF1 5276 103 - 1
ACUGCACGAAGACCAUUUGUUUUGGUUUCACAUGGCCAAAAGCAGACGCCACAGUGUAGGAUUGAAAAAAUGGAGC----------AGCUUUAAUUGCAUGGAGCAGAAAAAC
.((((.......((((((.(((..(((..(((((((...........))))...)))..)))..))))))))).((----------((......)))).....))))...... ( -26.80)
>DroSim_CAF1 5354 107 - 1
CCUGCACGAAGACCAUUUGUCUUGGUUUCACAUGGCCAAAAGCAGACGCCACAGUGUAGGAUUGAAAAAAUGGAGC------AGGCAGCUUUAAUUGCAUGGAGCAGAAAAAC
(((((((((.(((((.......)))))))...((((...........))))..)))))))..........((((((------.....)))))).((((.....))))...... ( -27.70)
>DroEre_CAF1 5431 113 - 1
CCUGCACGAAGACAAUUUGUCUUGGUUUCACAUGGCCAAAAGCAGAAGCCAGUGUGUAGGAUUGAAAAAAUGGAGCAGGAGCAGGCAGCUUUAAUUGCAUGGAGCAGAAAAAC
(((((((((((((.....)))))((((((.....((.....)).))))))..)))))))).(((.....(((.((..(((((.....)))))..)).)))....)))...... ( -30.70)
>DroYak_CAF1 5546 113 - 1
CCUGCACGAAGACAAUUUGUCUUGGUUUCACAUGACCAAAAGCAGAAGCCAGUGUGUAGGAUUGAAAAAAUGGAGCAGGAGCAGGCAGCUUUAAUUGCAUGGAGCAGAAAAAC
(((((((((((((.....)))))((((((...............))))))..)))))))).(((.....(((.((..(((((.....)))))..)).)))....)))...... ( -29.36)
>consensus
CCUGCACGAAGACAAUUUGUCUUGGUUUCACAUGGCCAAAAGCAGACGCCACAGUGUAGGAUUGAAAAAAUGGAGC______AGGCAGCUUUAAUUGCAUGGAGCAGAAAAAC
(((((((.(((((.....)))))((((......))))................)))))))..........((((((...........)))))).((((.....))))...... (-21.70 = -21.78 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:33:53 2006