Locus 7576

Sequence ID 3R_DroMel_CAF1
Location 20,311,552 – 20,311,644
Length 92
Max. P 0.757303
window12231

overview

Window 1

Location 20,311,552 – 20,311,644
Length 92
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 82.44
Mean single sequence MFE -27.18
Consensus MFE -18.54
Energy contribution -19.43
Covariance contribution 0.89
Combinations/Pair 1.09
Mean z-score -2.22
Structure conservation index 0.68
SVM decision value 0.49
SVM RNA-class probability 0.757303
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20311552 92 + 27905053
---GGCAGAAAGGUAAACAAAAACCUGUGCGCGUGUU--UUGUGCAUCAAUAAAACACCGGCACACCGCCCA--CGCCGCACA-GCGUCAAGGUCCUUUU---
---....((((((...((....(((((((((((((((--((((......))))))))).(((.....)))..--.).))))))-).))....))))))))--- ( -30.30)
>DroSec_CAF1 120403 92 + 1
---GGCAGAAAGGUAAACAAAAACCUGUGCGCGUGUU--UUGUGCAUCAAUAAAACACCGGCACUCCGCCCA--CGCCGCACAAGCGUCACGGUCCUUU----
---(((....((((........))))(((((((((((--((((......))))))))).(((.....)))..--.).)))))....)))..........---- ( -27.30)
>DroSim_CAF1 128806 92 + 1
---GGCAGAAAGGUAAACAAAAACCUGUGCGCGUGUU--UUGUGCAUCAAUAAAACACCGGCACACCGCCCA--CGCCGCACAAACGUCAAGGUCCUUU----
---(((....((((........))))(((((((((((--((((......))))))))).(((.....)))..--.).)))))....)))..........---- ( -27.30)
>DroEre_CAF1 123974 93 + 1
---GGCAGAAAGGUAAACAAAAACCUGUGCGCGUGUU--UUGUGCAUCAAUAAAACACCGGCACACCGCCCA--CGCCGCACG-ACGUCAAGGUCCU--CCUU
---(((....((((........))))(((((((((((--((((......))))))))).(((.....)))..--.).))))).-..)))((((....--)))) ( -29.30)
>DroYak_CAF1 126528 102 + 1
AAAGGCAGAAAGGUAAACAAAAACCUGUGCGCGUGUUUUUUGUGCAUCAAUAAAACACCGGCACACCGCCCACACGCCGCACA-GCGCCAAGGUCCUUUCUUU
......(((((((...((.....(((((((((((((.((((((......))))))....(((.....))).))))).))))))-).).....))))))))).. ( -31.30)
>DroMoj_CAF1 155917 79 + 1
--AGACCGAAAGGUAAACAAAAACCUGUGCGCGUGUU--UUUAGUAUCAAUAAAACACCGGCCGAGCGCC----------------UUCAAGGCAACCG----
--..(((....))).........(((..(((((((((--((..........)))))))(....).)))).----------------....)))......---- ( -17.60)
>consensus
___GGCAGAAAGGUAAACAAAAACCUGUGCGCGUGUU__UUGUGCAUCAAUAAAACACCGGCACACCGCCCA__CGCCGCACA_GCGUCAAGGUCCUUU____
...(((....((((........))))(((((.(((((..(((.....)))...))))).(((.....))).......)))))....))).............. (-18.54 = -19.43 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:20 2006