Locus 1999

Sequence ID X_DroMel_CAF1
Location 5,499,017 – 5,499,137
Length 120
Max. P 0.721517
window3256

overview

Window 6

Location 5,499,017 – 5,499,137
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 89.33
Mean single sequence MFE -42.42
Consensus MFE -37.11
Energy contribution -36.73
Covariance contribution -0.38
Combinations/Pair 1.38
Mean z-score -1.58
Structure conservation index 0.87
SVM decision value 0.40
SVM RNA-class probability 0.721517
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5499017 120 + 22224390
CCAGCGUAGUGGAGCAGUAGCAGUAGGACAGGUUCGUCUUGAGAUCCUCGCAGAAUUGCUGCUGCUGCGCAAUGCUCUGGAUGCGCGAGCGGGCGAAUUCUCACAUAUACGUGGGCUUCA
((((.((((((.(((((((((((((((((......)))))(((...))).....)))))))))))).)))..))).)))).(((....)))...(((..(((((......))))).))). ( -47.50)
>DroVir_CAF1 38325 120 + 1
CCAGAGUUGUGGAGCAGUAGCAGUAGGAUAGAUUGGUCUUGAGAUCCUCGCAGAAUUGUUGCUGCUGCGCAAUACUUUGAAUGCGCGAGCGGGCGAAUUCUCACAUAUAUGCCGGCUUUA
.((((((((((.(((((((((((((((((......)))))(((...))).....)))))))))))).))))..)))))).......((((.((((.((........)).)))).)))).. ( -42.60)
>DroGri_CAF1 27312 120 + 1
CCAGAGUUGUGGAACAGUAGCAGUAGGAUAGAUUUGUCUUGAGAUCCUCACAGAAUUGUUGCUGCUGCGCAAUGCUCUGAAUGCGCGAGCGGGCGAAUUCUCACAUAUACGUCGGCUUGA
.((((((((((.(.((((((((((((((((....))))))(((...))).....)))))))))).).))))..))))))......(((((.((((.((........)).)))).))))). ( -40.60)
>DroWil_CAF1 57025 120 + 1
CUAAAGUUGUCGAGCAAUAGCAAUAGGAUAGAUUCGUUUUGAGAUCCUCACAGAAUUGUUGCUGCUGCGCAAUACUCUGAAUGCGCGAGCGGGCGAAUUCUCACAUAUAUGUGGGCUUCA
.....((((.((((((.((((((((((((.((......))...)))))......))))))).)))).)))))).....(..(((....)))..)(((..((((((....)))))).))). ( -31.30)
>DroMoj_CAF1 31995 120 + 1
CCAGAGUUGUGGAACAGUAGCAGUGGGAUAGAUUGGUCUUGAGAUCCUCGCAGAAUUGUUGCUGCUGCGCAAUGCUUUGAAUGCGCAUGCGGGCGAAUUCUCACAUGUACGUCGGCUUUA
.((((((((((.(.((((((((((..(...((..((((....)))).)).)...)))))))))).).))))..)))))).(((..((((.(((......))).))))..)))........ ( -35.50)
>DroAna_CAF1 25234 120 + 1
CCAGGGUGGUGGAGCAGUAGCAGUAGGAGAGGUUCGUCUUGAGGUCCUCGCAGAACUGCUGCUGCUGCGCAAUGCUCUGAAUGCGCGAGCGGGCGAACUCUCACAUGUACGUCGGCUUGA
.((((((.(((.((((((((((((..(.((((..(.......)..)))).)...)))))))))))).)))...))))))......(((((.((((.((........)).)))).))))). ( -57.00)
>consensus
CCAGAGUUGUGGAGCAGUAGCAGUAGGAUAGAUUCGUCUUGAGAUCCUCGCAGAAUUGUUGCUGCUGCGCAAUGCUCUGAAUGCGCGAGCGGGCGAAUUCUCACAUAUACGUCGGCUUCA
.((((((((((.(((((((((((((((((......)))))(((...))).....)))))))))))).))))..)))))).......((((.((((.((........)).)))).)))).. (-37.11 = -36.73 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:52 2006