Locus 4576

Sequence ID 3R_DroMel_CAF1
Location 12,073,714 – 12,073,834
Length 120
Max. P 0.962354
window7494

overview

Window 4

Location 12,073,714 – 12,073,834
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.08
Mean single sequence MFE -35.06
Consensus MFE -31.18
Energy contribution -31.66
Covariance contribution 0.48
Combinations/Pair 1.06
Mean z-score -1.69
Structure conservation index 0.89
SVM decision value 1.54
SVM RNA-class probability 0.962354
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12073714 120 + 27905053
AACAGCAGCAAUUGAGUACGGCAAAAAAGGGGAAGGCAGUGGAGUGGUUUGAAACAUUCCAUCUCUCUUUCUCUCUUCCGCACUCCCUUUCUCUUUUGCUCAGCCCACGUAGUGGUGUAC
....(.(((((..(((....((..((.(((((((((.(((((((((........))))))).)).))))))))).))..)).........)))..)))))).((((((...)))).)).. ( -35.52)
>DroSec_CAF1 10335 120 + 1
AACAGCAGCAACUGAGUACGGCAAAAAAGGGGAAGGCAGUGGAGUGGUUUGAAACAUUCCAUCUCUCUUUCUCCCUUCCGCACUCCCUUUCUCUUUUGCUCAGCCCAUGUAGUGGUGUAC
....(.(((((..(((...((.....((((((((((..((((((((........))))))))....))))).)))))........))...)))..)))))).((((((...)))).)).. ( -34.22)
>DroSim_CAF1 10765 120 + 1
AACAGCAGCAACUGAGUACGGCAAAAAAGGGGAAGGCAGUGGAGUGGUUUGAAACAUUCCAUCUCUCUUUCUCUCUUCCGCACUCCCUUUCUCUUUUGCUCAGCCCACGUAGUGGUGUAC
....(.(((((..(((....((..((.(((((((((.(((((((((........))))))).)).))))))))).))..)).........)))..)))))).((((((...)))).)).. ( -34.72)
>DroEre_CAF1 12309 117 + 1
AA---CAGCAAUGGAAUACGGCAAAAAAGGGGAAGGCAGUGGAGUGGUUUGAAACAUUCCAUCUCUCUUUCUCUCUUCCGCACUCCCUUUCUCUUUUGCUCAGCCCACGUAGUGGUGUAC
..---.(((((.((((....((..((.(((((((((.(((((((((........))))))).)).))))))))).))..)).......))))...)))))..((((((...)))).)).. ( -33.00)
>DroYak_CAF1 12564 120 + 1
AACAACACCAACUGAAUACGGCAAAAAAGAGGAAGGCAGUGGAGUGGUUUGAAACAUUCCAUCUCUCUUUCUCUCUUCCGCACUCCCUUUCUCUUUUGCUCAGCCCACGUAGUGGUGUAC
....((((((.(((.....(((..((((((((((((.((((((((((..((...))..))).)))...............)))).)))))))))))).....)))....))))))))).. ( -37.86)
>consensus
AACAGCAGCAACUGAGUACGGCAAAAAAGGGGAAGGCAGUGGAGUGGUUUGAAACAUUCCAUCUCUCUUUCUCUCUUCCGCACUCCCUUUCUCUUUUGCUCAGCCCACGUAGUGGUGUAC
......(((((..(((....((..((.(((((((((.(((((((((........))))))).)).))))))))).))..)).........)))..)))))..((((((...)))).)).. (-31.18 = -31.66 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:08 2006