Locus 7457

Sequence ID 3R_DroMel_CAF1
Location 19,887,375 – 19,887,482
Length 107
Max. P 0.519952
window12057

overview

Window 7

Location 19,887,375 – 19,887,482
Length 107
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 80.61
Mean single sequence MFE -28.40
Consensus MFE -19.48
Energy contribution -19.40
Covariance contribution -0.08
Combinations/Pair 1.20
Mean z-score -1.22
Structure conservation index 0.69
SVM decision value -0.03
SVM RNA-class probability 0.519952
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19887375 107 - 27905053
CAUCCGGAUCGCUUUGUCGCACUGCGUCGUCCAGCGAGCCGCGCAACAGUGGUACCACGAUGCAAUCGGUCUACAGAGUGAAUAAUACAUUAU-AAGA-CAGA-GUAAUA
.......((..(((((((....((((((((...(.(.(((((......))))).)))))))))).(((.((....)).)))............-..))-))))-)..)). ( -31.40)
>DroVir_CAF1 3270 101 - 1
UAUCCACAUCACUUUGCCGCACUGCAUCGUCCAGCGAGCCGCGCAGUAGGGGUACCACAAUACAAUCCGUCUUUGGAGUAAGAAACAU--UG-UUA----AUA-CAAAU-
...........((((((.((.(.((.(((.....))))).).)).))))))(((..(((((....((((....))))((.....))))--))-)..----.))-)....- ( -20.50)
>DroSec_CAF1 3254 106 - 1
CAUCUGGAUCGCUUUGUCGCACAGCGUCGUCCAGCGAGCCGCGCAACAGUGGCACCACAAUGCAAUCAGUCUACAUAGUGAAUAAUAU--UAU-AACAUUAUA-AUAAUA
...((((((((((.((...)).))))..))))))...(((((......)))))..(((.(((...........))).))).....(((--(((-(....))))-)))... ( -25.00)
>DroSim_CAF1 3249 99 - 1
CAUCUGGAUCGCUUUGUCGCACAGCGUCGUCCAGCGAGCCGCGCGACAGUGGCACCACAAUGCAAUCGGUCUACAGAGUGAAUAAUAC--UA--------AUA-AUAAUA
........((((((((((((.(.((.(((.....))))).).))))).((((.(((...........)))))))))))))).......--..--------...-...... ( -28.20)
>DroEre_CAF1 3262 104 - 1
CAUCCGGAUCGCUUUGUCGCACUGCGUCGUCCAGCGAGCCGCGCAACAGUGGCACUACGAUGCAAUCGGUCUACGGAGUGAAUAACAC---AU-AACG-CAAAAAUAAU-
..((((((((((......))..((((((((..((...(((((......))))).))))))))))...))))..))))(((.....)))---..-....-..........- ( -30.40)
>DroYak_CAF1 3248 104 - 1
CAUCCGGAUCGCUUUGUCGCACCGCGUCGUCCAGCGAGCCGCGCAACAGUGGCACCACGAUGCAAUCGGUCUACGGAGUGAUCACAAU---GU-AACA-CAAA-AUAAUG
(((...(((((((((((.(.((((((((((...(.(.(((((......))))).)))))))))....)))).)))))))))))...))---).-....-....-...... ( -34.90)
>consensus
CAUCCGGAUCGCUUUGUCGCACUGCGUCGUCCAGCGAGCCGCGCAACAGUGGCACCACAAUGCAAUCGGUCUACAGAGUGAAUAAUAC__UAU_AACA_CAUA_AUAAUA
........(((((((((.(.((....(((.....)))(((((......)))))...............))).)))))))))............................. (-19.48 = -19.40 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:46:31 2006