Locus 2416

Sequence ID 2R_DroMel_CAF1
Location 8,687,912 – 8,688,003
Length 91
Max. P 0.919946
window4000

overview

Window 0

Location 8,687,912 – 8,688,003
Length 91
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 74.54
Mean single sequence MFE -21.66
Consensus MFE -8.97
Energy contribution -9.29
Covariance contribution 0.32
Combinations/Pair 1.33
Mean z-score -2.08
Structure conservation index 0.41
SVM decision value 1.13
SVM RNA-class probability 0.919946
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8687912 91 - 20766785
AGAGACCAAAACAAAAGGC--------GCAAGAACGGAAGACCAGCCAAAAUGUUUCGAUUUGCAGUAAUGCCAAAAUAGAAAUA---------UCGCCGGCACAACU
................(((--------....)..(....).)).(((...(((((((.(((((((....)))..)))).))))))---------)....)))...... ( -17.50)
>DroSec_CAF1 506 91 - 1
AGAGACCAAAACAAAAGAC--------GCAAAAGCGGAAGAGCAGCCGAAAUGUUUCGAUUUGCAGUGAUGCAAAAAUAGAAAUG---------UCGCCGGCACAACU
..................(--------((....)))........((((..(((((((..((((((....))))))....))))))---------)...))))...... ( -22.00)
>DroSim_CAF1 505 91 - 1
AGAGACCACAACAAAAGAC--------GCAAAAGCGGAAGAGCAGCCGAAAUGUUUCGAUUUGCAGUGAUGCAAAAAUAGAAAUG---------UCGCCGGCACAACU
..................(--------((....)))........((((..(((((((..((((((....))))))....))))))---------)...))))...... ( -22.00)
>DroYak_CAF1 504 91 - 1
AGAGACCAAAACAAAAGAC--------GUGAAAACGGAAGAGCACCCGAACCGCUUCGAUUUGCACGGAUGCAAAAAUAGAAGUG---------UCGUCGGCACGACU
..................(--------(((....(....).....((((..((((((..((((((....))))))....))))))---------...))))))))... ( -23.70)
>DroAna_CAF1 495 106 - 1
AGA-ACCAAAACAAAAUUCUCGGUAGGGGGAACACGGAAGUGCAGCCAAUGAAUUAAAAUUGGCAAAGAUGCAAAAAUAAGAAGAGCACACGGAUCCCUGACAUCA-U
...-..................((..(((((.(.((...((((.((((((........))))))....((......)).......)))).))).))))).))....-. ( -23.10)
>consensus
AGAGACCAAAACAAAAGAC________GCAAAAACGGAAGAGCAGCCGAAAUGUUUCGAUUUGCAGUGAUGCAAAAAUAGAAAUG_________UCGCCGGCACAACU
..................................(((..............((((((..((((((....))))))....))))))............)))........ ( -8.97 =  -9.29 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:36 2006