Locus 8004

Sequence ID X_DroMel_CAF1
Location 19,905,935 – 19,906,030
Length 95
Max. P 0.578238
window13140

overview

Window 0

Location 19,905,935 – 19,906,030
Length 95
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 79.18
Mean single sequence MFE -16.16
Consensus MFE -11.07
Energy contribution -11.10
Covariance contribution 0.03
Combinations/Pair 1.09
Mean z-score -1.20
Structure conservation index 0.69
SVM decision value 0.09
SVM RNA-class probability 0.578238
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19905935 95 + 22224390
UUUCUCGGAGCACCAAC-------ACCUCGCCA------CCA-CUCCUCAUCUUUAUCAUCGCUCGCAGGGUAAUAAGAUAACCUUAUUGCAUAUGCUUAUAUUACCGU
.....((((((......-------.........------...-..................))))(((..((((((((.....))))))))...))).........)). ( -15.22)
>DroSec_CAF1 20170 95 + 1
UUCCUCGGAGCACCAAC-------ACCUCGGCA------CCC-CUCCUCAUCUUUAUCAUCGCUCGCAGGGUAAUAAGAUAACCUUAUUGCAUAUGCUUAUAUUACCGU
.......(((((.....-------.(((((((.------...-..................)).)).)))((((((((.....))))))))...))))).......... ( -17.85)
>DroSim_CAF1 16177 95 + 1
UUCCUCGGAGCACCGAC-------ACCUCGGCA------CCC-CUCCUCAUCUUUAUCAUCGCUCGCAGGGUAAUAAGAUAACCUUAUUGCAUAUGCUUAUAUUACCGU
......((((..((((.-------...))))..------...-))))..................(((..((((((((.....))))))))...)))............ ( -20.20)
>DroEre_CAF1 19091 99 + 1
CUACUUGGAUCC-CAAC-CCCACCACCCCGCCA-------CC-CGCCUCAUCUUUAUCAUCGCUCGCUGGGUAAUAAGAUAACCUUAUUGCAUAUGCUUAUAUUACCGU
......((....-....-...........((..-------..-.))...................((...((((((((.....))))))))....))........)).. ( -11.50)
>DroYak_CAF1 20178 108 + 1
UUGCUCGGAUCCACAACACCCGCCACCCGUCAACCAUCGCCC-CGCCUCAUCUUUAUCAUCGCUCGCAGGGUAAUAAGAUAACCUUAUUGCAUAUGCUUAUAUUACCGU
.....(((.............((....((........))...-.))...................(((..((((((((.....))))))))...)))........))). ( -15.80)
>DroAna_CAF1 43316 78 + 1
UUCG-------------------------GCUA------CGGUUUCUGCUUCUUUAUCAUCGCUCGCAGGGUAAUAAGAUAACCUUAUUGCAUAUGUUUAUAUUACCGU
....-------------------------...(------((((.(((((................)))))((((((((.....)))))))).............))))) ( -16.39)
>consensus
UUCCUCGGAGCACCAAC_______ACCUCGCCA______CCC_CUCCUCAUCUUUAUCAUCGCUCGCAGGGUAAUAAGAUAACCUUAUUGCAUAUGCUUAUAUUACCGU
.................................................................(((..((((((((.....))))))))...)))............ (-11.07 = -11.10 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:53:04 2006