Locus 3968

Sequence ID 3R_DroMel_CAF1
Location 10,729,208 – 10,729,325
Length 117
Max. P 0.741679
window6365

overview

Window 5

Location 10,729,208 – 10,729,325
Length 117
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.21
Mean single sequence MFE -39.88
Consensus MFE -25.48
Energy contribution -24.15
Covariance contribution -1.33
Combinations/Pair 1.34
Mean z-score -1.63
Structure conservation index 0.64
SVM decision value 0.45
SVM RNA-class probability 0.741679
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10729208 117 - 27905053
CAAGAAUCUGAUCUCGGUCAUCUUCUGCGAGGCCGUGGCCAUCUACGGCCUGAUCACCGCCAUCGUUCUGUCCGGCCAGCUGGAGCAGUUCUCGAUGGAGACGGCCCUUU---CGCAGGC
.((((...((((....))))))))((((((((((((((((......)))).......(.((((((..((((((((....))))).)))....)))))).)))))))...)---))))).. ( -50.90)
>DroVir_CAF1 254 117 - 1
CAAGAAUCUGAUUUCGGUCAUCUUCUGUGAGGCCGUCGCCAUCUACGGCCUGAUCACGGCCAUUGUGCUCUCCGGCCAGCUGGAGCAGUUCAAAAUGGAAUCGGCGCUAG---CCAGCGA
.......((((((((((((.......((.(((((((........))))))).))...)))).(((.(((((((((....)))))).))).)))...))))))))((((..---..)))). ( -43.00)
>DroGri_CAF1 252 119 - 1
CAAGAAUCUGAUUUCGGUCAUUUUCUGUGAGGCUGUCGCCAUCUAUGGCCUGAUCACGGCCAUUGUGCUCUCCGGCCAGCUGGAGCAGUUCCAAAUGGAAUCGGCGCUCGAAUCCAGCG-
..((((..((((....))))..)))).((((((((...((((...(((((.......)))))(((.(((((((((....)))))).)))..)))))))...)))).)))).........- ( -40.20)
>DroWil_CAF1 4001 117 - 1
CAAGAAUUUGAUCUCCGUCAUUUUCUGCGAAGCUGUGGCCAUUUACGGUUUGAUCACUGCCAUUGUAUUGUCCGGACAACUGGAACAGUUCCAAAUGGAGGUGGCCUUGA---GCUCAAC
..((((..((((....))))..))))..((.(((..((((((((.((((......))))(((((..(((((((((....)))).)))))....)))))))))))))...)---))))... ( -36.80)
>DroMoj_CAF1 254 117 - 1
CAAGAAUUUGAUUUCGGUUAUUUUCUGUGAGGCUGUCGCCAUUUACGGCCUCAUUACUGCCAUCGUGCUCUCUGGUCAGCUGGAGCAGUUCAAUAUGGAAAAUGCGCUCG---CCAGCGA
..((((..((((....))))..))))((((((((((........)))))))))).....((((...((((((..(....)..))).))).....))))......((((..---..)))). ( -34.60)
>DroAna_CAF1 254 117 - 1
CAAGAACUUGAUCUCCGUCAUUUUCUGCGAGGCUGUCGCCAUCUACGGUCUGAUCACAGCCAUUGUCCUCUCCGGCCAGCUGGAACAGUUCCAAAUGGAAACUGCCUUGA---ACUCUCC
..((((..((((....))))..)))).((((((.((..((((....((.(((.((.((((...((.((.....)).)))))))).)))..))..))))..)).)))))).---....... ( -33.80)
>consensus
CAAGAAUCUGAUCUCGGUCAUUUUCUGCGAGGCUGUCGCCAUCUACGGCCUGAUCACGGCCAUUGUGCUCUCCGGCCAGCUGGAGCAGUUCCAAAUGGAAACGGCCCUCG___CCAGCGC
..((((..((((....))))..))))((.(((((((........)))))))........(((((..((..(((((....)))))...))....))))).....))............... (-25.48 = -24.15 +  -1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:48 2006