Locus 5735

Sequence ID 3R_DroMel_CAF1
Location 14,947,987 – 14,948,106
Length 119
Max. P 0.774333
window9387

overview

Window 7

Location 14,947,987 – 14,948,106
Length 119
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 91.90
Mean single sequence MFE -23.98
Consensus MFE -18.90
Energy contribution -19.77
Covariance contribution 0.88
Combinations/Pair 1.05
Mean z-score -1.99
Structure conservation index 0.79
SVM decision value 0.54
SVM RNA-class probability 0.774333
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14947987 119 + 27905053
AUGGGUAACAAUGCGGGCACAUUCAAA-AACAAAAAUACAGCAGCAACAUUUAGCUGGCCCAGUUAUGCAAUUUGCCAAACAACCCUUUUCCCGCUCCCUACCCCCCCAAUCAUCAUUCG
..(((((.....(((((..........-.............((((........)))).....(((..((.....))..))).........)))))....)))))................ ( -23.20)
>DroSec_CAF1 83689 119 + 1
AUGGGUAACAAUGCGGGCACAUUCAAAAAACAAAAAUACAGCAGCAACAUUUAGCUGGCCCAGUUAUGCAAUUUGCCAAACAGCCCUUUUCCCGCUCACUGCCC-CCCAAUCAUCAUUCG
..(((((.....(((((........................((((........)))).....(((..((.....))..))).........)))))....)))))-............... ( -23.20)
>DroSim_CAF1 76608 119 + 1
AUGGGUAACAAUGCGGGCACAUUCAAAAAACAGAAAUACAGCAGCAACAUUUAGCUGGCCCAGUUAUGCAAUUUGCCAAACAACCCUUUUCCCGCUCCCUACCC-CCCAAUCGUCAUUCG
..(((((.....((((((...(((........)))......((((........)))))))).(((..((.....))..)))............))....)))))-............... ( -24.60)
>DroYak_CAF1 80677 116 + 1
AUGGGUAACAAUGCGGGCACAACCAAA-AACCAAAAUACGGCAGCAGCAUUUAGCUGCCCCAGUUAUGCAAUUUGCCAAACAGCCCUUUUCCCC-UCCA-UCCC-CCCAAUCAUCAUUUG
.((((((....)))((((.........-...........((((((........))))))...(((..((.....))..))).))))........-....-....-.)))........... ( -24.90)
>consensus
AUGGGUAACAAUGCGGGCACAUUCAAA_AACAAAAAUACAGCAGCAACAUUUAGCUGGCCCAGUUAUGCAAUUUGCCAAACAACCCUUUUCCCGCUCCCUACCC_CCCAAUCAUCAUUCG
..(((((.....(((((........................((((........)))).....(((..((.....))..))).........)))))....)))))................ (-18.90 = -19.77 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:14 2006