Locus 1940

Sequence ID 3R_DroMel_CAF1
Location 5,484,365 – 5,484,485
Length 120
Max. P 0.519697
window3189

overview

Window 9

Location 5,484,365 – 5,484,485
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 88.94
Mean single sequence MFE -49.38
Consensus MFE -42.35
Energy contribution -42.35
Covariance contribution 0.00
Combinations/Pair 1.18
Mean z-score -1.47
Structure conservation index 0.86
SVM decision value -0.03
SVM RNA-class probability 0.519697
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5484365 120 - 27905053
CAUGUGGCCUUCUGCUUCUCGCCCGUGGGCGAGACGUUCCGGUCCAGGGUGCAGCGCUUCCCCGCCUUGGUCUCCGGCUGCACCAUUGACUGGCUGCAUCCGUGGCCCAAGGAUGCAUUG
.....((((....((.(((((((....))))))).))...((((...((((((((((......))..(((...)))))))))))...))))))))((((((.........)))))).... ( -52.10)
>DroVir_CAF1 22839 120 - 1
CAUGUGGCAUUUUGUUUCUCGCCAGUGGGUGAGACAUUUAGGUCGCGGGUGCAGCGUUUUCCCGCCUUGGUCUCCGGCUGCACCAUCGAUUGGCUGCAUCCGUGGCCCAAGGACGCAUUG
.(((((...(((((..(((((((....)))))))......(((((((((((((((........(((.........))).....((.....)))))))))))))))))))))).))))).. ( -48.60)
>DroGri_CAF1 16424 120 - 1
CAUGUGGCAUUCUGUUUCUCGCCGGUGGGCGAGACAUUCCGUUCGCGGGUGCAGCGCUUUCCCGCCUUGGUCUCCGGCUGCACCAUCGAUUGGCUGCAUCCGUGGCCCAAGGACGCAUUG
.(((((((...((((.(((((((....)))))))...((((....)))).)))).)).......((((((.(..(((.(((((((.....))).)))).)))..).)))))).))))).. ( -50.00)
>DroWil_CAF1 16449 120 - 1
CACGUGGCAUUCUGCUUUUCACCAGUGGGAGAGACGUUCCGGUCUCGGGUGCAACGCUUUCCCGCCUUGGUCUCCGGAUGCACCAUCGACUGGCUGCACCCGUGGCCCAAGGAUGCCUUG
.....((((((((...........(((((((((.(((((((....))))....))))))))))))..(((.(..(((.(((((((.....))).)))).)))..).)))))))))))... ( -50.00)
>DroMoj_CAF1 22741 120 - 1
CACGUAGCUUUUUGUUUCUCACCUGUGGGAGAGACAUUUAGAUCGCGGGUGCAGCGCUUUCCCGCCUUGGUCUCCGGCUGCACCAUCGAUUGGCUGCAUCCGUGGCCCAAGGACGCAUUG
...(...((...((((((((.((...))))))))))...))..)(((((.((...))...)))(((((((.(..(((.(((((((.....))).)))).)))..).)))))).))).... ( -45.60)
>DroAna_CAF1 16396 120 - 1
CACGUGGCCUUCUGCUUCUCGCCCGUAGGUGAGACGUUCCGGUCGCGAGUGCAGCGCUUCCCCGCCUUGGUCUCCGGCUGCACCAUUGACUGGCUGCAUCCGUGGCCCAAGGACGCCUUG
..(((((((....((.(((((((....))))))).))...)))))))((((...))))....((((((((.(..(((.(((((((.....))).)))).)))..).)))))).))..... ( -50.00)
>consensus
CACGUGGCAUUCUGCUUCUCGCCAGUGGGAGAGACAUUCCGGUCGCGGGUGCAGCGCUUUCCCGCCUUGGUCUCCGGCUGCACCAUCGACUGGCUGCAUCCGUGGCCCAAGGACGCAUUG
......((.((((((.(((((((....))))))).))...(((((((((((((((((......))...((((...((.....))...)))).)))))))))))))))..)))).)).... (-42.35 = -42.35 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:24 2006