Locus 1878

Sequence ID 3R_DroMel_CAF1
Location 5,397,078 – 5,397,197
Length 119
Max. P 0.783276
window3084

overview

Window 4

Location 5,397,078 – 5,397,197
Length 119
Sequences 3
Columns 119
Reading direction forward
Mean pairwise identity 86.27
Mean single sequence MFE -39.04
Consensus MFE -32.85
Energy contribution -32.97
Covariance contribution 0.12
Combinations/Pair 1.12
Mean z-score -2.01
Structure conservation index 0.84
SVM decision value 0.56
SVM RNA-class probability 0.783276
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5397078 119 + 27905053
GUUGUUGGAGGAGUGGCAGACAUUCCGGAACGCUACUGUUUUUCCUAUAUUUUCCAACGUCCAACCAAUAGCAGAUGCACAGAGUAACUGCUGGUCAGGUUUGCGAAUUGAGAGGAAUU
...((((((((((((.....))))))((((.((....))..)))).......)))))).(((((((..((((((.(((.....))).))))))....))))..(.......).)))... ( -34.10)
>DroSim_CAF1 6911 119 + 1
GGAGUUGGAGGAGUGGCAGACAUUCCGGACUGCAGCUGUUUUUCCUAUAUUUUCCAACGUCCAAGCAAUAGCAGUUGCACAGAGUAACUGCUGGUCAGGUUUGCGAAUCGAGAGGAAUU
(((((((((((((((.....))))))(((..((....))...))).......)))))).)))..((((((((((((((.....)))))))))).......))))...((....)).... ( -40.51)
>DroYak_CAF1 6976 118 + 1
GGAGUUGGAGGAGUGGUAGACAUUCCGGAUUGCAGGUGUUUUCCCUCUAUUUUCCAACGUCCAACCGAUCGCAGUUGCAAAGAGAAACUGCUG-UUGGAUUUGCAAGUCGAGAGGAAAU
(((((((((((((((.....))))))(((..((....))..)))........)))))).)))..((..(((.(.(((((((....(((....)-))...))))))).))))..)).... ( -42.50)
>consensus
GGAGUUGGAGGAGUGGCAGACAUUCCGGAAUGCAGCUGUUUUUCCUAUAUUUUCCAACGUCCAACCAAUAGCAGUUGCACAGAGUAACUGCUGGUCAGGUUUGCGAAUCGAGAGGAAUU
...((((((((((((.....))))))(((..((....))..)))........)))))).(((......((((((((((.....))))))))))....((((....))))....)))... (-32.85 = -32.97 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:43 2006