Locus 7143

Sequence ID 3R_DroMel_CAF1
Location 18,830,034 – 18,830,131
Length 97
Max. P 0.797392
window11560

overview

Window 0

Location 18,830,034 – 18,830,131
Length 97
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 87.73
Mean single sequence MFE -35.24
Consensus MFE -24.66
Energy contribution -25.50
Covariance contribution 0.84
Combinations/Pair 1.04
Mean z-score -2.29
Structure conservation index 0.70
SVM decision value 0.61
SVM RNA-class probability 0.797392
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18830034 97 + 27905053
GAAAGUGGCGGCGGAAGUGGCCAGAACCGAGUGGGUUUAGUUUUGGCCCACUUUUCGGCAUCUGUCGUCGAGUAAUCGAAAUUGGCGUAGCAUGCUU
.....((((.((....)).))))(((..(((((((((.......))))))))))))((((((((.((((((..........))))))))).))))). ( -38.70)
>DroSec_CAF1 55091 78 + 1
GAAAGUGGCGGCGGAAAUGGCCAGAACCGAGUGGGUUUAGUUUUGGCCCAC-------------------AGUAAUCGAAAUUGGCGUAGCAUGCUU
..(((((((.(((.....(((((((((..((....))..)))))))))..(-------------------(((.......)))).))).)).))))) ( -22.10)
>DroSim_CAF1 58400 97 + 1
GAAAGUGGCGGCGGAAGUGGCCAGAACCGAGUGGGUUUAGUUUUGGCCCACUUUUCGGCAUCUGCCGUCGAGUAAUCGAAAUUGGCGUAGCAUGCUU
.....((((.((....)).))))(((..(((((((((.......))))))))))))(((((((((((((((....))))...))))..)).))))). ( -40.10)
>DroEre_CAF1 55210 97 + 1
GCAAGUGGCGGCGGAAAUGGCCAGAACCGUGUGGGUUCAGUUUUGGCCCACUUUUCGGCAUCUGGCGCCGAGUAAUCGAAAUGGGCAUAGCAUGCUU
(((.((.(((((.......((((((.(((.(((((((.......)))))))....)))..)))))))))((....)).......))...)).))).. ( -35.11)
>DroYak_CAF1 58865 97 + 1
GCAAGUGGCGGCGGAAAUGGCCAGAACCGAGUGGGUUUAGUGUUGGCCCACUUUUCGGCAUCUGUCGCCGAGUAAUCGAAAUUGGCAUAGCAUGCUU
(((.(((((((((((....(((.(((..(((((((((.......))))))))))))))).)))))))))((....))............)).))).. ( -40.20)
>consensus
GAAAGUGGCGGCGGAAAUGGCCAGAACCGAGUGGGUUUAGUUUUGGCCCACUUUUCGGCAUCUGUCGCCGAGUAAUCGAAAUUGGCGUAGCAUGCUU
......((((((.......(((((...((((((((((.......)))))))..((((((.......))))))...)))...)))))...)).)))). (-24.66 = -25.50 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:32 2006