Locus 3308

Sequence ID 3L_DroMel_CAF1
Location 9,702,519 – 9,702,628
Length 109
Max. P 0.828214
window5145

overview

Window 5

Location 9,702,519 – 9,702,628
Length 109
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 77.76
Mean single sequence MFE -24.10
Consensus MFE -14.58
Energy contribution -15.80
Covariance contribution 1.22
Combinations/Pair 1.15
Mean z-score -1.79
Structure conservation index 0.60
SVM decision value 0.71
SVM RNA-class probability 0.828214
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9702519 109 - 23771897
GUAUAGCGAAAUCAUAGAGAGAA----AAGCGAUACAGCCUAGGGCGUAUAGAUAUUUUGAAAAAGGAUAUAAUAAAGUCCAGGGUGGAUGGCCGCCGUUAAUGUAGUUCACA
((((.((....((.....))...----..)).))))..(((.((((......(((((((.....)))))))......)))))))((((((.((..........)).)))))). ( -23.80)
>DroPse_CAF1 1304 109 - 1
GUAGAGGGAAACCAUAAACAUAC----AAAUCAAACAAGCAAUACAGUAAAAGCAUUUUGAAAAAGGAUAUAGUAGUGUCCAAGGUGGAUGGCCUCCGUUUAUGUAGUUCACG
(((((.(((..((((..((....----...(((((...((............))..)))))....((((((....))))))...))..))))..))).))))).......... ( -23.30)
>DroWil_CAF1 1262 109 - 1
GUACAAGGAAACCAUAAAAAGAA----AAAUUAACAAAGCGAAACAGUAAAAGCAUUUUGUAAAAGGAUAUAAUAAGGUCCAAGGUGGAUGGCCGCCAUUUAUAUAGGUCACA
.......(..(((..........----...........((............))....((((((.((((........))))..(((((....))))).))))))..)))..). ( -17.50)
>DroYak_CAF1 1210 109 - 1
GUACAGCGAAAUCAUAAAGAGGA----AAGCUAGACAGCCAAGGGCGUAUAGGUAUUUUGAAAAAGGAUAUAAUAGUGUCCAGGGUGGAUGGCCGCCGUUAAUGUAGUUCACA
.....(.(((..(((.((..((.----..((((..((.((..(((((.....(((((((.....))))))).....))))).)).))..))))..)).)).)))...))).). ( -26.80)
>DroAna_CAF1 891 109 - 1
GUGCAGAGAAAUCAAAAAAAUAAAUAUAAACAAAGCAGCCCAUG----AUAGGCAUUUUUGAAAAGGAUAUAAUAGUGUCCAGGGCGGGUGGCCGCCGUUUAUAUAGUUCACA
(((..((....))..........((((((((......(((....----...)))...........((((((....))))))..(((((....)))))))))))))....))). ( -29.90)
>DroPer_CAF1 1303 109 - 1
GUAGAGGGAAACCAUAAACAUAA----AAAUCAAACAAGCAAUACAGUAAAAGCAUUUUGAAAAAGGAUAUAGUAGUGUCCAAGGUGGAUGGCCUCCGUUUAUGUAGUUCACG
(((((.(((..((((..((....----...(((((...((............))..)))))....((((((....))))))...))..))))..))).))))).......... ( -23.30)
>consensus
GUACAGGGAAACCAUAAAAAGAA____AAACCAAACAACCAAUACAGUAAAAGCAUUUUGAAAAAGGAUAUAAUAGUGUCCAAGGUGGAUGGCCGCCGUUUAUGUAGUUCACA
.......(((..((((((...............................................((((((....))))))..(((((....))))).))))))...)))... (-14.58 = -15.80 +   1.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:29 2006