Locus 1960

Sequence ID 2L_DroMel_CAF1
Location 5,301,371 – 5,301,476
Length 105
Max. P 0.618718
window3173

overview

Window 3

Location 5,301,371 – 5,301,476
Length 105
Sequences 4
Columns 108
Reading direction forward
Mean pairwise identity 86.18
Mean single sequence MFE -23.50
Consensus MFE -16.65
Energy contribution -16.96
Covariance contribution 0.31
Combinations/Pair 1.06
Mean z-score -1.60
Structure conservation index 0.71
SVM decision value 0.17
SVM RNA-class probability 0.618718
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5301371 105 + 22407834
CCCCAACAUCCCGAUCCCGUUGGCCCACUCAGCCAACCUCUACCACCCCC---CCCCCCUCAGGUGGGCCCUCAAACGCCUUAGUAGGCCAGCCAGAAAUCGCUUCGA
...........(((((..(((((((.(((..((.........(((((...---.........)))))..........))...))).)))))))..))..)))...... ( -24.11)
>DroSec_CAF1 77106 107 + 1
CCCCAACAUCCCGAUCCCGACGGCCCACUCAGCCAACCCGAC-CCUGCCCCUGCCCCCCUCAGGUGGGCCCUCAAACGCCUUAGUAGGCCAGCCAGAAAUCGCUUCGA
...........(((....((.(((((((.(((..........-.)))...(((.......)))))))))).))....((((....)))).(((.(....).)))))). ( -25.10)
>DroSim_CAF1 80875 101 + 1
CCCCAACAUCCCGAUCCCAACGGCCCACUCAGCCAACCC----CCUGCCU---CCCCCCUCAGGUGGGCCCUCAAACGCCUUAGUAGGCCAGCCAGAAAUCGCUUCGA
...........(((.......((((.(((.((.......----...(((.---.((......))..)))..........)).))).))))(((.(....).)))))). ( -23.25)
>DroYak_CAF1 81606 107 + 1
CCCCAUCAUCCCGAUCCCGUCGGCCCACUCAACCAAACCAAACCCGACCCCUCCCCCCAUCAGGUGGUCCCUCAAACGU-UCAGUAGGCCAGCCAGAAAUUGCUUCGA
...........(((.......((((.(((.(((............(((((((.........))).))))........))-).))).))))(((.(....).)))))). ( -21.55)
>consensus
CCCCAACAUCCCGAUCCCGACGGCCCACUCAGCCAACCC_AA_CCUGCCC___CCCCCCUCAGGUGGGCCCUCAAACGCCUUAGUAGGCCAGCCAGAAAUCGCUUCGA
...........(((.......((((((((.................................)))))))).......((((....)))).(((........)))))). (-16.65 = -16.96 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:02 2006