Locus 1330

Sequence ID 2R_DroMel_CAF1
Location 5,140,833 – 5,140,947
Length 114
Max. P 0.798606
window2304

overview

Window 4

Location 5,140,833 – 5,140,947
Length 114
Sequences 3
Columns 119
Reading direction reverse
Mean pairwise identity 80.95
Mean single sequence MFE -24.77
Consensus MFE -20.32
Energy contribution -19.77
Covariance contribution -0.55
Combinations/Pair 1.20
Mean z-score -1.62
Structure conservation index 0.82
SVM decision value 0.61
SVM RNA-class probability 0.798606
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5140833 114 - 20766785
UGAGCUAUCAAUUUCAUGUCCAAUCAACCUGGCAGACAGGACACACCA-----CACCACAUCGUCUCACCCACCUACCCACCAGGCCACUCUUCAUUUUCCGGGUGGCACAGGAGCAUC
...(((..........(((((..((.........))..))))).....-----...........................((..(((((((..........)))))))...)))))... ( -22.60)
>DroSec_CAF1 16657 119 - 1
UGAGCUAUCAAUUUCAUGUCCAAUCAACCUGGCAGACAGGACACACCACACCACACCACAUCGUCUCAGCCACCCACCUACCAGGACACUCUUCAUUUUCCUGGUGGCACAGGAGCAUC
...(((.......................((((((((.........................))))..))))((...(((((((((............)))))))))....)))))... ( -23.91)
>DroYak_CAF1 16623 101 - 1
UGAGCUAUCAAUUUCAUGUCCAAUCAACCUGGCAGACAGGACACGCCACACCG------------------GCCCACCCACCUGGCCACUCUUCAUAUUCUGGGUGGCACAGAAGCAUC
...(((..........(((((..((.........))..))))).(((.....)------------------))........((((((((((..........))))))).))).)))... ( -27.80)
>consensus
UGAGCUAUCAAUUUCAUGUCCAAUCAACCUGGCAGACAGGACACACCACACC_CACCACAUCGUCUCA_CCACCCACCCACCAGGCCACUCUUCAUUUUCCGGGUGGCACAGGAGCAUC
...(((.((.......(((((..((.........))..)))))..................................((((((((..............))))))))....)))))... (-20.32 = -19.77 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:21 2006