Locus 4580

Sequence ID 2L_DroMel_CAF1
Location 13,128,746 – 13,128,860
Length 114
Max. P 0.736416
window7222

overview

Window 2

Location 13,128,746 – 13,128,860
Length 114
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 84.11
Mean single sequence MFE -28.36
Consensus MFE -18.88
Energy contribution -20.28
Covariance contribution 1.40
Combinations/Pair 1.10
Mean z-score -2.03
Structure conservation index 0.67
SVM decision value 0.44
SVM RNA-class probability 0.736416
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13128746 114 + 22407834
CUAAUCACUGCCCUUCGCCCAAAUUGCAGCAGCGUCAUUUCAGCGCUGGGUUGCCAAUUGACGUGGCGGCAAGCAACCUCUAUUGCAUAACACCUGACAAAUGCAAUUCAGGCA
................(((..(((((((.((((((.......)))))).(((((((.......)))))))..((((......))))...............)))))))..))). ( -33.90)
>DroSec_CAF1 21683 110 + 1
CUAUUCACUGCCCUUCGCCCAAAUUACAGCAGCAUCAUUGCA----UGGGUUGCCAAUUGACGCAACGGCAAGCAAGCUCUAUUGCAUAACACCUGACAAAUGCAAUUCAGGCA
........((((...................(((....))).----...(((((........))))))))).....(((..(((((((............)))))))...))). ( -23.10)
>DroSim_CAF1 22767 114 + 1
CUAAUCACUGCCCUUCGCCCAAAUUGCAGCAGCAUCAUUUCAGCGCUGGGUUGCCAAUUGAAGCGGCGGCAAGCAAACUCUAUUGCAUAACACCUGACAAAUGCAAUUCAGGCA
................(((..(((((((((.((.........)))))((((((((.........))))))..((((......))))......))........))))))..))). ( -28.60)
>DroEre_CAF1 23425 98 + 1
CAAAUCACUGCCCUUCGCCCAAGUUGCACCAUC---GC-------------UGCCAAUUGACGUGGCAGCCACCAAGCUCUAUUGCAUAACACCUGACAAAUGCAAUUCAGGCA
................(((..(((((((.....---((-------------(((((.......)))))))......((......))...............)))))))..))). ( -27.20)
>DroYak_CAF1 22469 111 + 1
CAAAUCACUGCCCUUCGCCCACAUUGCACCAUU---GCAUCAACGCUGGGUUGCCAAUUGACGUGGCAGCCAGCAACCUCUAUUGCAUAACACCUGACAAAUGCAAUUCAGGCA
................(((.....((((....)---))).....(((((.((((((.......))))))))))).......(((((((............)))))))...))). ( -29.00)
>consensus
CUAAUCACUGCCCUUCGCCCAAAUUGCAGCAGC_UCAUUUCA_CGCUGGGUUGCCAAUUGACGUGGCGGCAAGCAACCUCUAUUGCAUAACACCUGACAAAUGCAAUUCAGGCA
................(((..(((((((.....................(((((((.......)))))))..((((......))))...............)))))))..))). (-18.88 = -20.28 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:36 2006