Locus 1828

Sequence ID 2R_DroMel_CAF1
Location 6,851,804 – 6,851,910
Length 106
Max. P 0.945838
window3035

overview

Window 5

Location 6,851,804 – 6,851,910
Length 106
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 79.11
Mean single sequence MFE -22.91
Consensus MFE -14.96
Energy contribution -15.28
Covariance contribution 0.31
Combinations/Pair 1.12
Mean z-score -2.20
Structure conservation index 0.65
SVM decision value 1.36
SVM RNA-class probability 0.945838
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6851804 106 - 20766785
AUUUAU-----GCACUUAAGCAU---------AGCCUAAUCUAACUCUUCCUAAUCAUCUUGUAGAGCACAGAGUGCGUUUCUAUGCUCUCUGCCCCCGACUCCCACAUGUCCUCCGCGU
..((((-----((......))))---------))...........................(..(((..(((((.((((....)))).))))).....(((........))))))..).. ( -22.40)
>DroPse_CAF1 4452 119 - 1
AACCCUACUUUCCACUA-ACCUAACCUCACUUAUCCUAACCUAGCUCUUUCUGAUCAUUUUGUAGAGAACAGAGUGGGUCUCUAUGCUCUCCGCCCCGGACUCCCACAUGUCCUCUGCAU
.................-..........................................(((((((.(((..(((((..(((..((.....))...)))..))))).))).))))))). ( -24.70)
>DroSim_CAF1 757 105 - 1
AUUUAU-----GCAUUC-GGCUA---------UGCUUAUUCUAACUCUUCCUAAUCAUCUUGUAGAGCACGGAGUGCGUUUCUAUGCUCUCUGCCCCGGACUCCCACAUGUCCUCCGCGU
....((-----((....-(((..---------(((((...........................))))).((((.((((....)))).)))))))..((((........))))...)))) ( -24.43)
>DroYak_CAF1 849 105 - 1
AUUUAU-----GCAUUA-GACUA---------UGCUUACUCUAACUCUUCCUAAUCAUCUUGUAGAGCACGGAGUGCGUUUCUAUGCUCUCUGCCCCCGACUCCCACAUGUCCUCCGCGU
......-----((((..-....)---------)))..........................(..(((..(((((.((((....)))).))))).....(((........))))))..).. ( -20.10)
>consensus
AUUUAU_____GCACUA_AGCUA_________AGCCUAAUCUAACUCUUCCUAAUCAUCUUGUAGAGCACAGAGUGCGUUUCUAUGCUCUCUGCCCCCGACUCCCACAUGUCCUCCGCGU
...............................................................((((((.((((.....)))).))))))..((...((((........))))...)).. (-14.96 = -15.28 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:09 2006