Locus 2800

Sequence ID 3R_DroMel_CAF1
Location 7,478,088 – 7,478,205
Length 117
Max. P 0.950629
window4530

overview

Window 0

Location 7,478,088 – 7,478,205
Length 117
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 67.79
Mean single sequence MFE -33.02
Consensus MFE -15.46
Energy contribution -16.15
Covariance contribution 0.69
Combinations/Pair 1.35
Mean z-score -2.20
Structure conservation index 0.47
SVM decision value 1.40
SVM RNA-class probability 0.950629
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7478088 117 + 27905053
CAAAGAGCUACAAAAGCCCAUUAU---GCUUAUGCCCGAUGCCGAGCUCUCUGGCUUGCAUCUGGCCAAUCUCACCCAUUUCUCGCCCCACUAUCUGCUGGCCACUCACAGUUCAGCAGG
....(((......((((.......---))))..(((.(((((.(((((....)))))))))).)))....))).....................((((((..(.......)..)))))). ( -31.40)
>DroSim_CAF1 3925 117 + 1
CAAACAGCUACAAAAGCCCAUCAU---GCUUAUGCCCGAUGCCGAGCUCUCUGGCUUGCAUUUGGCCAAUCUCACCCAUUUCUCGCCCCAUUAUCUGCUGGCCACUCACAGUUCAGCAGG
......((.....((((.......---))))..(((.(((((.(((((....)))))))))).)))..................))........((((((..(.......)..)))))). ( -28.60)
>DroWil_CAF1 39072 117 + 1
CCAAGAGCCUCCA---CCAGUUAUUCAAUUGAAACCUAAUAAGGAGCUGGCCCAUUUACAAUUGUCCAAUUUGGUCAAUUUUAAUUGUGAUUAUCUUCUGGCCACUAAGAGUGUGGGCAA
......(((..((---((((((.(((....))).(((....)))))))((((((.(((.(((((.((.....)).))))).))).)).((......)).)))).....).)))..))).. ( -29.70)
>DroYak_CAF1 3669 117 + 1
UGAGGAGCAUGGGCGGCCCAAAAC---GCUUAUGCCAGAUGCAGAGCUUUCUCGCUUGCAGCUGGCCAAUCUGACCAUUUUCUCAAAACACUAUCUGCUGGCCACUCACAGUUCAGCAGG
(((((((.(((((((........)---))....(((((.((((.(((......))))))).)))))........))))))))))).........((((((..(.......)..)))))). ( -42.40)
>consensus
CAAAGAGCUACAAAAGCCCAUUAU___GCUUAUGCCCGAUGCCGAGCUCUCUCGCUUGCAUCUGGCCAAUCUCACCAAUUUCUCGCCCCACUAUCUGCUGGCCACUCACAGUUCAGCAGG
.................................(((.(((((.((((......))))))))).)))...........................(((((((..(.......)..))))))) (-15.46 = -16.15 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:59 2006