Locus 5877

Sequence ID 3R_DroMel_CAF1
Location 15,421,817 – 15,421,912
Length 95
Max. P 0.548244
window9604

overview

Window 4

Location 15,421,817 – 15,421,912
Length 95
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 78.81
Mean single sequence MFE -11.75
Consensus MFE -7.84
Energy contribution -8.20
Covariance contribution 0.36
Combinations/Pair 1.05
Mean z-score -1.20
Structure conservation index 0.67
SVM decision value 0.03
SVM RNA-class probability 0.548244
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15421817 95 + 27905053
AAAAUGCAGUUAGCAAAUUAUUCAACCACUUCUGUGUAGUAAAAUGUCCC--AACUAUGAGUAUUUUU--CUAACCCAA-------ACCGUACCAACCCAAACCGA
........(((((.(((.((((((..(((....)))((((..........--.)))))))))).))).--)))))....-------.................... ( -12.20)
>DroSec_CAF1 174051 80 + 1
AAAAUGCAGUUAGCAAAUUAUUCAACCACUUCUGUGUAGUAAAAUGUCCC--AACUAUGAGUAUUUUU--CUAACCC----------------------AAACCGA
........(((((.(((.((((((..(((....)))((((..........--.)))))))))).))).--)))))..----------------------....... ( -12.20)
>DroSim_CAF1 179437 80 + 1
AAAAUGCAGUUAGCAAAUUAUUCAACCACUUCUGUGUAGUAAAAUGUCCC--AACUAUGAGUAUUUUU--CUAACCC----------------------AAACCGA
........(((((.(((.((((((..(((....)))((((..........--.)))))))))).))).--)))))..----------------------....... ( -12.20)
>DroEre_CAF1 170876 95 + 1
GAAAUGCAGUUAGCAAAUUAUUCAACCACUUCUGUGUAGUAAAAGGACCC--AACUAUGAGUAUUUUUGUCUAACC-AU-------ACCGUACCAACC-CAACCCA
........(((((((((.((((((..(((....)))((((..........--.))))))))))..)))).))))).-..-------............-....... ( -13.50)
>DroYak_CAF1 194012 90 + 1
AAAAUACAGUUAGCAAAUUAUUCAACCACUUCUCUGUAGUAAAAUGACCC--AACUAUGAGUAUUUUUGUCUAACC-AU-------ACCAUACCAG------CCCA
........(((((((((.((((((...((......))(((..........--.))).))))))..)))).))))).-..-------..........------.... ( -10.00)
>DroAna_CAF1 167089 98 + 1
A-AAUGCAGUUAGCUAAAUUUUCAACCACUUCUGUGUAGUGAAAUAUCCCACAACUAUGAGUAUUUUU--UUAACCACUACCAAUAACCAUACC-----AUGUCCA
.-......(((((..((((.((((..(((....)))..(((........))).....)))).))))..--)))))...................-----....... ( -10.40)
>consensus
AAAAUGCAGUUAGCAAAUUAUUCAACCACUUCUGUGUAGUAAAAUGUCCC__AACUAUGAGUAUUUUU__CUAACCCAU_______ACC_UACC_____AAACCCA
........(((((.(((.((((((..(((....)))((((.............)))))))))).)))...)))))............................... ( -7.84 =  -8.20 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:06:44 2006