Locus 778

Sequence ID X_DroMel_CAF1
Location 2,158,540 – 2,158,648
Length 108
Max. P 0.664246
window1266

overview

Window 6

Location 2,158,540 – 2,158,648
Length 108
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 85.24
Mean single sequence MFE -39.05
Consensus MFE -27.68
Energy contribution -28.06
Covariance contribution 0.38
Combinations/Pair 1.17
Mean z-score -2.90
Structure conservation index 0.71
SVM decision value 0.28
SVM RNA-class probability 0.664246
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2158540 108 - 22224390
---UUCUCUGCGGCAUUUU-------AGGGCGGACAAUUUCAUCAAUGUCUUUGCCGCCACUG--UAAAUGCUCGAGGGACAGAUACACAUGCCCACUUGGCCACAGCAGCGGCCAAGAC
---.......(((((((((-------(((((((.(((...((....))...)))))))).)))--.)))))).)).(((.((........))))).(((((((.(....).))))))).. ( -40.90)
>DroSec_CAF1 38918 108 - 1
---UUCUCUGCGGCAUUUU-------AGGGCGGACAAUUUCAUCAAUGUCUUUGCCGCCACUG--UAAAUGCUCGAGGGACAGAUACACAUGCCCACUUGGCCACAGCAGCGGCCAAGAC
---.......(((((((((-------(((((((.(((...((....))...)))))))).)))--.)))))).)).(((.((........))))).(((((((.(....).))))))).. ( -40.90)
>DroSim_CAF1 36597 108 - 1
---UUCUCUGCGGCAUUUU-------AGGGCGGACAAUUUCAUCAAUGUCUUUGCCGCCACUG--UAAAUGCUCGAGGGACAGAUACACAUGCCCACUUGGCCACAGCAGCGGCCAAGAC
---.......(((((((((-------(((((((.(((...((....))...)))))))).)))--.)))))).)).(((.((........))))).(((((((.(....).))))))).. ( -40.90)
>DroEre_CAF1 40021 108 - 1
---UCCUCUGCGGCGUUUU-------AGGGCGGACAAUUUCAUCAAUGUCUUUGCCGCCACUG--UAAAUGCUCGAGGGACAGAUACACAUGCCCACUUGGCCACAGCAGCGGCCAAGCC
---.......(((((((((-------(((((((.(((...((....))...)))))))).)))--.)))))).)).(((.((........))))).(((((((.(....).))))))).. ( -39.80)
>DroYak_CAF1 41545 110 - 1
---UUCUCUGCGGCGUUUU-------AGGGCGGACAAUUUCAUCAAUGUCUUUGCCGCCACUGUGUAAAUGCUCGAGGGACAGAUACACAUGCCCGCUUGGCCACAGCAGCGGCCAAGCU
---......(.(((((...-------(((((((.(((...((....))...)))))))).))(((((..((((....)).))..)))))))))))((((((((.(....).)))))))). ( -42.70)
>DroAna_CAF1 45967 106 - 1
UUUUUUUUUGUGGUAUCUUCUCCAGACGGCCAGACAAUUUCAUCAAUGUCUUUGCCGCCACCG--UAAAUGCUA------AAGAUACAAAUG------UAUCUACAGCGGCGGUUGAGAU
..................((((..(.((((.(((((..........)))))..)))).)((((--(...((((.------.((((((....)------)))))..))))))))).)))). ( -29.10)
>consensus
___UUCUCUGCGGCAUUUU_______AGGGCGGACAAUUUCAUCAAUGUCUUUGCCGCCACUG__UAAAUGCUCGAGGGACAGAUACACAUGCCCACUUGGCCACAGCAGCGGCCAAGAC
...........(((((((..........(((((.(((...((....))...)))))))).......)))))))...(((.((........))))).(((((((.(....).))))))).. (-27.68 = -28.06 +   0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:38 2006