Locus 1234

Sequence ID X_DroMel_CAF1
Location 3,674,663 – 3,674,783
Length 120
Max. P 0.548382
window1988

overview

Window 8

Location 3,674,663 – 3,674,783
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 83.56
Mean single sequence MFE -46.50
Consensus MFE -27.89
Energy contribution -28.64
Covariance contribution 0.75
Combinations/Pair 1.16
Mean z-score -2.56
Structure conservation index 0.60
SVM decision value 0.03
SVM RNA-class probability 0.548382
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3674663 120 + 22224390
CCUGGGUGAUCUUCAACUUUUACAUGGCCGCCAAUGUGGCCGGAUGGCAGCAGGCCGGAGUCAAUCACAUUCUUAUCUUCGAAAUAGACCCCAGAAGUCAUCUGCAGCCGGCCACAUUUC
....((((..(..............)..))))(((((((((((...((((..(((.((.(((.((....(((........))))).))).))....)))..))))..))))))))))).. ( -38.14)
>DroVir_CAF1 47831 120 + 1
CCUGGGUGAUAUUUAACUUUUAUAUGGCCGCCAAUGUGGCCGGCUGGCAGCGAGCGGGCGUCAAUCAUGUGCUCAUCUUUGAGAUCGAUCCGCGCAGUCACCUGCAGCCGGCCACAUUUC
....(((.((((.........)))).)))...((((((((((((((.(((...((..((((..(((.....((((....))))...)))..)))).))...))))))))))))))))).. ( -50.00)
>DroGri_CAF1 22054 120 + 1
CGUGGGUAAUCUUUAACUUUUACAUGGCCGCCAAUGUGGCCGGGUGGCAGCGCUCGGGCGUCAAUCAUGUGCUCAUCUUUGAGAUUGAUCCGCGCAGUCAUCUGCAGCCGGCCACAUUCC
.((((((((..........))))....)))).(((((((((((((((..((((....))))..((((....((((....))))..))))))))((((....))))..))))))))))).. ( -45.00)
>DroWil_CAF1 17979 120 + 1
CCUGGGUCAUAUUCAAUUUUUUUAUGGCCGCCAAUGUGGCGGGCUGGCAGCGUGCAGGAGUGAAUCAUAUAUUGAUCUUUGAGAUUGAUCCUAGAAGUCAUUUGCAGCCGGCUACAUUUC
....(((((((...........)))))))...((((((((.(((((((.....))..((((((.((....((..(((.....)))..))....))..)))))).))))).)))))))).. ( -39.50)
>DroMoj_CAF1 15804 120 + 1
CGUGGGUGAUCUUUAACUUUUUCAUGGCCGCGAAUGUCGCCGGCUGGCAGCGGGCGGGCGUCAAUCAUGUGCUAAUCUUUGAGAUUGACCCGCGCAGCCAUCUGCAGCCGGCGACAUUCC
.((((((((............))))..))))(((((((((((((((.(((.(((((((.(((((((................))))))))).)))..))..)))))))))))))))))). ( -56.59)
>DroAna_CAF1 8804 120 + 1
CCUGGGUGAUCUUCAACUUCUUCAUGGCCGCCAACGUGGCCGGCUGGCAGCGGGCUGGCGUCAACCAUGUCCUCAUCUUCGAGAUCGAUCCGAGAAGCCACCUACUGCCGGCCACCUUUC
...((((..................((((((....))))))(((((((((..((.(((((.((....)).)(((....(((....)))...)))..))))))..)))))))))))))... ( -49.80)
>consensus
CCUGGGUGAUCUUCAACUUUUACAUGGCCGCCAAUGUGGCCGGCUGGCAGCGGGCGGGCGUCAAUCAUGUGCUCAUCUUUGAGAUUGAUCCGAGAAGUCAUCUGCAGCCGGCCACAUUUC
....(((.((.............)).)))...((((((((((((((.(((...((.((.(((.(((................))).))))).....))...))))))))))))))))).. (-27.89 = -28.64 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:38 2006