Locus 5286

Sequence ID 2L_DroMel_CAF1
Location 14,900,474 – 14,900,577
Length 103
Max. P 0.505193
window8409

overview

Window 9

Location 14,900,474 – 14,900,577
Length 103
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 82.96
Mean single sequence MFE -38.23
Consensus MFE -22.64
Energy contribution -24.38
Covariance contribution 1.75
Combinations/Pair 1.00
Mean z-score -1.86
Structure conservation index 0.59
SVM decision value -0.06
SVM RNA-class probability 0.505193
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14900474 103 - 22407834
AAGGCGUCCCAGUGGGUGGCGGUGGUCCUC-----------------CCACUGGCGAAGCCAUAAAUCUCAGCCUACACUUUCAACUUGACCCCAACGGAGUCGACUCGAUGUCGUUGGG
..(((.((((((((((.(((....).)).)-----------------))))))).)).)))..............................(((((((..((((...))))..))))))) ( -41.90)
>DroSec_CAF1 58081 92 - 1
AAG-----------GGUGGCGCUGGUCCCC-----------------GCACUGGCGAAGCCAUAAAUCUCAGCCUACAUUUUCAACUUGACCCCAACGGAGUCGACUCGAUGUCGUUGGG
...-----------(((..(((..((....-----------------..))..)))..)))..............................(((((((..((((...))))..))))))) ( -29.60)
>DroSim_CAF1 60920 103 - 1
AAGGCGUCCCAGUGGGUGGCGCUGGUCCUC-----------------CCACUGGCGAAGCCAUAAAUCUCAGCCUACACUUUCAACUUGACCCCAACGGAGUCGACUCGAUGUCGUUGGG
..(((.((((((((((.(((....).)).)-----------------))))))).)).)))..............................(((((((..((((...))))..))))))) ( -41.90)
>DroYak_CAF1 57716 120 - 1
AAGGCGUCCCAGUGGGUGGCGCUGCUCCUCCUCCUGCCUCCUCCUGGCCACUGGAGCAGCCAUAAAUUUCAGCCUACACUUUCAACUUGACCCCAACAGAGUCGACUCGAUGUCGUUGGA
.(((((((((....)).)))((((((((.......(((.......)))....))))))))...........)))).....((((((..((((......).)))(((.....))))))))) ( -39.50)
>consensus
AAGGCGUCCCAGUGGGUGGCGCUGGUCCUC_________________CCACUGGCGAAGCCAUAAAUCUCAGCCUACACUUUCAACUUGACCCCAACGGAGUCGACUCGAUGUCGUUGGG
.((((.........(((..(((((((.......................)))))))..)))..........))))................((((((((.((((...)))).)))))))) (-22.64 = -24.38 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:34 2006