Locus 2898

Sequence ID 3R_DroMel_CAF1
Location 7,775,973 – 7,776,093
Length 120
Max. P 0.520550
window4676

overview

Window 6

Location 7,775,973 – 7,776,093
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.17
Mean single sequence MFE -47.12
Consensus MFE -35.20
Energy contribution -36.88
Covariance contribution 1.68
Combinations/Pair 1.12
Mean z-score -1.53
Structure conservation index 0.75
SVM decision value -0.03
SVM RNA-class probability 0.520550
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7775973 120 + 27905053
AGCACUGAGACACCCCCACCGCCAGCACCUUUGGUUACGCAAUCCCAAUGGCUGGCGGGCACCGAAGUGGCUGGUCAGAUCCCAGACGCCUCCAACGGAGCGGGUUUGUAGAAGAUCCAA
....((...(((..(((.((((((((....((((..........))))..))))))))((.(((..(.(((..(((........)))))).)...))).)))))..)))...))...... ( -43.70)
>DroSec_CAF1 73204 120 + 1
AGCUCUGAGACGCCGCUACCGCCAGCUCCUUUGGUUACGCAAUCCCAAUGGCUGGCGGGCAGCGAAGUGGCUGGUCAGAUCCCAGACGCCUCCAAUGGAGCGGGUUUGUAGAAGAUCCAA
.((((((((....((((.(((((((((...((((..........)))).)))))))))..))))..(((.((((.......)))).))))))....)))))((((((.....)))))).. ( -49.50)
>DroSim_CAF1 76446 120 + 1
AGCUCUGGGACGCCCCCACCGCCAGCUCCUUUGGUUACGCAAUCCCAAUGGCUGGCGGGCAGCGAAGUGGCUGGUCAAAUCCCAGACGCCUCCAACGGAGCGGGUUUGUAGAAGAUCCAA
.((((((((((((.....(((((((((...((((..........)))).)))))))))...)))..(((.((((.......)))).))).)))..))))))((((((.....)))))).. ( -49.40)
>DroEre_CAF1 73650 120 + 1
GGCUCUGAGACGCCACCACCGCCAGCUCCUGUGGUUACGCAAUCCCAAUGGCUGGCGGGCAGCGAGUUGCCUGGUCACAUCCUUGACGCCUCCAACGGAGCGGGUUAGUAGAGGAUCCAA
(((........)))((((.((((((((..((.((((....)))).))..))))))))(((((....)))))))))...(((((((((.(((((...)))).).)))....)))))).... ( -44.20)
>DroYak_CAF1 74031 120 + 1
GGCUCUGAGACGCCGCCACCGCCAGCUCCCAUUGUUACGCAAUCCCAAUGGCUGGCGGGUGGCGAAUUGCCUGGUCAUGUCCUUGACGCCUCCAACGGAGCGGGUUAGUAGAGUAUUUAA
.((((((...(((((((..((((((((...((((.....))))......)))))))))))))))....(((((((((......))))..((((...)))))))))...))))))...... ( -48.80)
>consensus
AGCUCUGAGACGCCCCCACCGCCAGCUCCUUUGGUUACGCAAUCCCAAUGGCUGGCGGGCAGCGAAGUGGCUGGUCAGAUCCCAGACGCCUCCAACGGAGCGGGUUUGUAGAAGAUCCAA
.((((((...........(((((((((...((((..........)))).))))))))).....((.(((.((((.......)))).))).))...))))))((((((.....)))))).. (-35.20 = -36.88 +   1.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:23 2006