Locus 3185

Sequence ID 2R_DroMel_CAF1
Location 10,880,748 – 10,880,868
Length 120
Max. P 0.506417
window5242

overview

Window 2

Location 10,880,748 – 10,880,868
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.61
Mean single sequence MFE -47.27
Consensus MFE -29.38
Energy contribution -29.58
Covariance contribution 0.20
Combinations/Pair 1.43
Mean z-score -1.48
Structure conservation index 0.62
SVM decision value -0.05
SVM RNA-class probability 0.506417
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10880748 120 + 20766785
UGCCUCAAAGAGCAGCACAUAUGAGAUGCUGGGAAGCGCAGGAGGACAGCUCCGCCUCUAUGGCGGCGAGCUGCUGCUCUUUGUCCCGGAGCACGCCAUUGGAAAGCACGUCAAGAAGCA
(((((((((((((((((((((.(((..(((....)))((.((((.....)))))))))))))((.....))))))))))))))....)).))).((..((((........))))...)). ( -41.60)
>DroVir_CAF1 17492 120 + 1
CGCCUCGAAGAGCAGCAGCUACGAGCUGCUGGGCAGCAACGGCGGCCAGCUGCGUCUGUAUGGCGGCGAGCUGUUGCUCUUUGUGCCGGAGCUGGCCAUUGGCAAGCAUCUGAAGAAGCA
.((..(((((((((((((((....(((((((.((((...((((.....))))...)))).))))))).))))))))))))))).))(((((((.(((...))).))).))))........ ( -59.60)
>DroGri_CAF1 15576 120 + 1
CGCCUCGAAGAGCACCAGUUAUGAGCUGCUGGGCAGCAGUGGCGGCCAGUUGCGUUUGUAUAACGGUGAGCUGUUGCUCUUUGUGCCGGAGCUGGCGAUUGGGAAGCAUCUGAAGAAGCA
.((.((..(((((.((((((....((..(((.....)))..)).(((((((.((...((((((....((((....)))).)))))))).)))))))))))))...)).)))...)).)). ( -48.50)
>DroWil_CAF1 58128 120 + 1
UGCCUCGAAGAGCAUCAGUUAUGAGCUUCUAGGCAGCAAUGGCGGACAACUGCGUCUGUACAAUGGAGAACUGUUGCUUUUUGUACCCGAAAUGGCCAUCAGUAAGCACCUGAAAAAGCA
(((((.((((..(((.....)))..)))).)))))((..((((((((......))))((((((.((((........))))))))))........))))((((.......))))....)). ( -34.80)
>DroMoj_CAF1 23011 120 + 1
CGCCUCGAAGAGCAGCAGCUACGAGCUCCUGGGCAGCAACGGAGGCCAGCUGCGUCUGUACGGCGGCGAGCUGCUGCUGUUUGUGCCGGAGCUGGCGAUUGGCAAGCACGUGAAGAAGCA
.(((.((((.((((((((((....(((.(((..(((..(((.((.....)).))))))..))).))).)))))))))).))))(((((....)))))...)))..((..........)). ( -51.00)
>DroAna_CAF1 9306 120 + 1
UGCCACGAAGAGCAGUUGCUACGAGCUCCUGGGAAGUUCCGGAGGACAGCUGCGCCUCUACGGUGGAGAGCUGCUGCUCUUUGUGCCGGAGCACGCCAUCGGGAAGCACCUGAAGAAGCA
.(((((((((((((((.(((.....((((.(((....))))))).....((.((((.....)))).))))).)))))))))))))..((......)).(((((.....)))))....)). ( -48.10)
>consensus
CGCCUCGAAGAGCAGCAGCUACGAGCUGCUGGGCAGCAACGGAGGACAGCUGCGUCUGUACGGCGGCGAGCUGCUGCUCUUUGUGCCGGAGCUGGCCAUUGGCAAGCACCUGAAGAAGCA
.((..(((((((((((((((....(((.....(((((...........)))))(((.....)))))).)))))))))))))))...........((.........))..........)). (-29.38 = -29.58 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:31 2006