Locus 9200

Sequence ID 3R_DroMel_CAF1
Location 24,533,423 – 24,533,518
Length 95
Max. P 0.611706
window14715

overview

Window 5

Location 24,533,423 – 24,533,518
Length 95
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 78.87
Mean single sequence MFE -13.57
Consensus MFE -11.99
Energy contribution -12.22
Covariance contribution 0.22
Combinations/Pair 1.06
Mean z-score -1.02
Structure conservation index 0.88
SVM decision value 0.16
SVM RNA-class probability 0.611706
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24533423 95 + 27905053
CACGAUUCCACUAUCCCAC--------CAUCCAUUCCCAU-----CUUACCCAACUUACCCUUCC--GGUAUGCAGAAUGUGCGCAUAAGUUGCACAUUGAUUUCUGUCU
...................--------.............-----...........((((.....--)))).((((((.(((.(((.....))).)))....)))))).. ( -13.80)
>DroSec_CAF1 31749 95 + 1
CACGAUUCCACUAUCCCAC--------CAUCCAUUCCCAU-----CUUACCCAACUUACCCUUCC--GGUAUGCAGAAUGUGCGCAUAAGUUGCACAUUGAUUUCUGUCU
...................--------.............-----...........((((.....--)))).((((((.(((.(((.....))).)))....)))))).. ( -13.80)
>DroSim_CAF1 33003 95 + 1
CACGAUUCCACUAUCCCAC--------CAUCCAUUCCCAU-----CUUACCCAACUUACCCUUCC--GGUAUGCAGAAUGUGCGCAUAAGUUGCACAUUGAUUUCUGUCU
...................--------.............-----...........((((.....--)))).((((((.(((.(((.....))).)))....)))))).. ( -13.80)
>DroEre_CAF1 35967 103 + 1
CACUAUCCCACUAUUCCACUAUGCCACCAUCCAUUCCCAU-----CUUGCCCAACUUACCCUUCC--GGUAUGCAGAAUGUGCGCAUAAGUUGCACAUUGAUUUCUGUCU
........................................-----...........((((.....--)))).((((((.(((.(((.....))).)))....)))))).. ( -13.80)
>DroYak_CAF1 32315 98 + 1
CACUAUUCCACUAUGCCACCAUGCC--CAUCC---CCCAU-----CUUGCCAAGCUUACCCUUCC--GGUAUGCAGAAUGUGCGCAUAAGUUGCACAUUGAUUUCUGUCU
.........................--.....---.....-----........((.((((.....--)))).))..(((((((((....).))))))))(((....))). ( -14.90)
>DroMoj_CAF1 41310 86 + 1
---------------CGAC--------CACACAUACAUAUACAGACAUACAUGACAUACACG-CAGGCAAAUGGAGAAUGUGCGCAUAACUUGCACAUUGAUUUCUCUCU
---------------....--------...................................-.........((((((.(((.(((.....))).)))....)))))).. ( -11.30)
>consensus
CACGAUUCCACUAUCCCAC________CAUCCAUUCCCAU_____CUUACCCAACUUACCCUUCC__GGUAUGCAGAAUGUGCGCAUAAGUUGCACAUUGAUUUCUGUCU
........................................................((((.......)))).((((((.(((.(((.....))).)))....)))))).. (-11.99 = -12.22 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:28:47 2006