Locus 2882

Sequence ID 2R_DroMel_CAF1
Location 9,963,167 – 9,963,259
Length 92
Max. P 0.956682
window4760

overview

Window 0

Location 9,963,167 – 9,963,259
Length 92
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 73.73
Mean single sequence MFE -21.35
Consensus MFE -6.36
Energy contribution -6.60
Covariance contribution 0.24
Combinations/Pair 1.14
Mean z-score -2.12
Structure conservation index 0.30
SVM decision value 1.47
SVM RNA-class probability 0.956682
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9963167 92 + 20766785
CAGCAUCUACCC-UCU------CACUCACCCACUAUCUCACUCU----UUCUUUUUUUUUGAUGGGUG-GGGGGGGUGAAGUGCUACAGUGCUCGCGAAAUUUC
..((........-...------...((((((....((((((((.----.((.........)).)))))-))).))))))((..(....)..)).))........ ( -26.60)
>DroSec_CAF1 20376 93 + 1
CAGCAUCUACCC-UCU------CACUCACCCACUAUCUCACUCU----UACUUUUUUUUUGGGGGGGGGGGGGGGGAGCAGCGCUACAGUGCUCGCGAAAUUUC
.....((..(((-(((------(.(((.((((............----...........))))))))))))))..))(((((((....))))).))........ ( -31.60)
>DroSim_CAF1 21353 78 + 1
CAGCAUCUACCC-UCU------CACUCACCCAC--------UCU----UUCUUUUUUUUUUGGG-------GGGGGAGCAGCGCUACAGUGCUCGCGAAAUUUC
..((.....(((-(((------((.........--------...----............))))-------))))(((((.(......))))))))........ ( -20.06)
>DroEre_CAF1 20607 91 + 1
--------ACCC-UCUCACUCACACCCUCCCACUACCUCCCACUAUUUUUCUUUUUUUUUCUUGUUU----GAGGUAGCAGCGCUACAGUGCCCGCGAAAUUUC
--------....-......((.(.........(((((((..((....................))..----)))))))..((((....))))..).))...... ( -14.15)
>DroYak_CAF1 21824 99 + 1
UAGCAUCUACCCACCUCCCUCACACUCUCCCACUAUCUCACUCUAUU-UUCUUUUUUUUUUUUGUUC----GAGAUAGCAGCGCUACAGUGCUCGCGAAAUUUC
..((............................(((((((........-...................----))))))).(((((....))))).))........ ( -14.33)
>consensus
CAGCAUCUACCC_UCU______CACUCACCCACUAUCUCACUCU____UUCUUUUUUUUUGGUGGGU____GGGGGAGCAGCGCUACAGUGCUCGCGAAAUUUC
.............................................................................(((((((....))))).))........ ( -6.36 =  -6.60 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:51 2006