Locus 7516

Sequence ID 3R_DroMel_CAF1
Location 20,100,534 – 20,100,654
Length 120
Max. P 0.514007
window12139

overview

Window 9

Location 20,100,534 – 20,100,654
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.11
Mean single sequence MFE -47.37
Consensus MFE -25.66
Energy contribution -24.81
Covariance contribution -0.85
Combinations/Pair 1.43
Mean z-score -1.69
Structure conservation index 0.54
SVM decision value -0.04
SVM RNA-class probability 0.514007
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20100534 120 + 27905053
GCCCUGGGCGCCGCCUCUAUGGUGGCCCGGAUCAGUGGCAUGAUGGCACCGUUCCUCAACUUCUUGGCCACCAUCUGGAAGCCACUGCCGUUGCUCAUCUGCGGAUCCCUGACCUUGGUA
(((..(((.((((((.....)))))).)(((((.(..(.(((((((((..(((....)))....((((..((....))..)))).)))))....)))))..).)))))....))..))). ( -43.40)
>DroEre_CAF1 21177 120 + 1
GCUCUGGGCGCCGCCUCCAUGGUGGCCCGCAUCAGUGGCAUGAUGGCACCAUUCCUCAACUUCCUGGCCACCAUUUGGAAGCCACUGCCGCUGCUCAUCUGCGGAUCGCUCUCCCUGGCA
(((..((((((((((.....))))))(((((.((((((((.((((....))))...........((((..((....))..)))).))))))))......)))))...)))).....))). ( -47.70)
>DroYak_CAF1 22365 120 + 1
GCUCUGGGCGCCGCCUCCAUGGUGGCACGCAUUAGUGGCAUGAUGGCACCAUUCCUCAAAAUGUUGGCCACCAUUUGGAAGCCACUGCCGCUGCUCAUCUGCGGAUCGCUCUCCUUGGCG
(((..(((.((((((.....))))))..((..(((((((....((((..((((......))))...))))((....))..)))))))((((.........))))...))..)))..))). ( -46.70)
>DroMoj_CAF1 41207 120 + 1
GGCAUGGGCGCCGCCUCCAUGGUCUCUCGGCUGACUGGCAUGCUGGCGCCCUAUCUAAAUGCCCUGGCCACCAUUUGGCCACCGCUUCCCCUGGUCAUCUAUGGCGCCCUCUCGCUGGCC
((((((((((((((..((((((((....)))))..)))...)).))))))).......)))))..(((((((((.((((((..........))))))...)))).((......))))))) ( -45.51)
>DroAna_CAF1 21799 120 + 1
GCUCUGGGAGCAGCUUCAAUGGUGGCCCGAAUCAGUAGCAUGCUGGCGCCGUUCCUCAACUAUCUGGCCACCAUUUGGACACCACUGCCGCUGCUUAUCUGUGGAUCCCUUUCCCUGGCU
(((..(((((((((...((((((((((.((.(((((.....)))))....(((....)))..)).)))))))))).((.((....)))))))))..(((....))).....)))).))). ( -41.70)
>DroPer_CAF1 32221 120 + 1
GCCUUGGGCGCCGCCUCGAUGGUGGCCCGGAUGGGCGGAAUGUUGGCCCCCUACCUCACCUUCCUGGCCAGCGUCUGGCGACCCCUGCCGCUGCUCAUCUGUGGCGUGCUCUCUCUGGCA
(((..((((((((((.....))))((((((((((((((.(((((((((.................)))))))))..((((.....)))).))))))))))).))))))))).....))). ( -59.23)
>consensus
GCCCUGGGCGCCGCCUCCAUGGUGGCCCGGAUCAGUGGCAUGAUGGCACCAUUCCUCAACUUCCUGGCCACCAUUUGGAAACCACUGCCGCUGCUCAUCUGCGGAUCCCUCUCCCUGGCA
(((..(((.((((((.....))))))(((....(((((((((.((((...................)))).)))..((.........))))))))......)))........))).))). (-25.66 = -24.81 +  -0.85)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:47:51 2006