Locus 5091

Sequence ID 3L_DroMel_CAF1
Location 13,967,291 – 13,967,410
Length 119
Max. P 0.972751
window8065 window8066

overview

Window 5

Location 13,967,291 – 13,967,410
Length 119
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 90.59
Mean single sequence MFE -37.42
Consensus MFE -30.76
Energy contribution -31.12
Covariance contribution 0.36
Combinations/Pair 1.11
Mean z-score -2.08
Structure conservation index 0.82
SVM decision value 1.70
SVM RNA-class probability 0.972751
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13967291 119 + 23771897
CUAAACGAAAAACGGUCUUACUAUAUAAAUAAAUAUAUAUCGGCAAGGCUAAUAGUAUAGGAUCCCUGGUCGAGCGAUAACGAUCUAUCGCUCCGCUGUAGUGUGACCGUCUUCGGUUG
.....((((..((((((.(((((((................(((.((((((......)))....))).)))((((((((......))))))))...))))))).)))))).)))).... ( -36.00)
>DroSec_CAF1 4665 119 + 1
UUAAACGAAAAACGGUCUUGCUAUUUCAAUCGAUAUACAUCGGCAAGGCUCAUCGUAUGGGAUCCCUGGUCGAGCGAUAACGAUCUAUCGCUCCGCUGUAGUGUGACCGUCUUCGGUUG
.....((((..((((((.((((((..(..............(((.((((((((...)))))...))).)))((((((((......)))))))).)..)))))).)))))).)))).... ( -37.40)
>DroSim_CAF1 4162 119 + 1
UUAAACGAAAAACGGUCCUGCUAUUUCAAUCGAUAUACAUCGGCAAGGCUCAUCGAAUAGGAUCCCUGGUCGAGCGAUAACGAUGUAUCGCUCCGCUGUAGUGUGACCGUCUUCGGUUG
.....((((..((((((.((((((.....(((((....)))))...(((.....((.((((...)))).))((((((((......)))))))).))))))))).)))))).)))).... ( -37.10)
>DroEre_CAF1 5037 119 + 1
AUAAACGAUGAACGGUAUCGCUAUUGCAAUCGAUAUACAUCGGCAAAGCUCAUCGUAUAGAAUCCCUGGUCGAGCGAUAAUGAUCUAUCGCCCCGCUGUAGUGUGACCGUCUUCGGUUG
.....(((.((.((((..((((((.((....(((....)))(((...((((((((...........)))).))))((((......)))))))..)).))))))..)))))).))).... ( -34.10)
>DroYak_CAF1 4900 119 + 1
AUAACCGAUGAACGGUCUUGCUAUUGCAAUCGAUAUACAUCGGCAAAGCUCAUCGUAUAGAAUCCCUGGUCGAGCGAUAACGAUCUAUCGCCCCGAUGUAGUGUGACCGUCUUCGGUUG
.(((((((.((.(((((((((....))))......((((((((.........(((..(((.....)))..)))((((((......)))))).))))))))....))))))).))))))) ( -42.50)
>consensus
AUAAACGAAAAACGGUCUUGCUAUUUCAAUCGAUAUACAUCGGCAAGGCUCAUCGUAUAGGAUCCCUGGUCGAGCGAUAACGAUCUAUCGCUCCGCUGUAGUGUGACCGUCUUCGGUUG
.....(((...((((((.((((((.........(((((((.(((...))).)).)))))........(((.((((((((......)))))))).))))))))).))))))..))).... (-30.76 = -31.12 +   0.36)

alignment

Postscript

secondary structure

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dotplot

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Window 6

Location 13,967,291 – 13,967,410
Length 119
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 90.59
Mean single sequence MFE -37.68
Consensus MFE -29.16
Energy contribution -29.32
Covariance contribution 0.16
Combinations/Pair 1.15
Mean z-score -2.36
Structure conservation index 0.77
SVM decision value 1.45
SVM RNA-class probability 0.954772
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13967291 119 - 23771897
CAACCGAAGACGGUCACACUACAGCGGAGCGAUAGAUCGUUAUCGCUCGACCAGGGAUCCUAUACUAUUAGCCUUGCCGAUAUAUAUUUAUUUAUAUAGUAAGACCGUUUUUCGUUUAG
.(((.((((((((((.........(((((((((((....)))))))))...(((((...(((......)))))))).)).((((((......))))))....)))))))))).)))... ( -35.70)
>DroSec_CAF1 4665 119 - 1
CAACCGAAGACGGUCACACUACAGCGGAGCGAUAGAUCGUUAUCGCUCGACCAGGGAUCCCAUACGAUGAGCCUUGCCGAUGUAUAUCGAUUGAAAUAGCAAGACCGUUUUUCGUUUAA
.(((.((((((((((....((((.(((((((((((....)))))))))...(((((.((.........)).))))).)).))))......(((......))))))))))))).)))... ( -36.00)
>DroSim_CAF1 4162 119 - 1
CAACCGAAGACGGUCACACUACAGCGGAGCGAUACAUCGUUAUCGCUCGACCAGGGAUCCUAUUCGAUGAGCCUUGCCGAUGUAUAUCGAUUGAAAUAGCAGGACCGUUUUUCGUUUAA
.(((.((((((((((....((((.((((((((((......))))))))...(((((.((.........)).))))).)).))))......(((......))))))))))))).)))... ( -35.00)
>DroEre_CAF1 5037 119 - 1
CAACCGAAGACGGUCACACUACAGCGGGGCGAUAGAUCAUUAUCGCUCGACCAGGGAUUCUAUACGAUGAGCUUUGCCGAUGUAUAUCGAUUGCAAUAGCGAUACCGUUCAUCGUUUAU
.....(((..(((((.(.(....).)(((((((((....)))))))))))))..)..)))((.(((((((((.....((((....))))(((((....)))))...))))))))).)). ( -35.60)
>DroYak_CAF1 4900 119 - 1
CAACCGAAGACGGUCACACUACAUCGGGGCGAUAGAUCGUUAUCGCUCGACCAGGGAUUCUAUACGAUGAGCUUUGCCGAUGUAUAUCGAUUGCAAUAGCAAGACCGUUCAUCGGUUAU
.((((((.(((((((....((((((((((((((((....))))))))....(((((.(((........))))))))))))))))......((((....)))))))))))..)))))).. ( -46.10)
>consensus
CAACCGAAGACGGUCACACUACAGCGGAGCGAUAGAUCGUUAUCGCUCGACCAGGGAUCCUAUACGAUGAGCCUUGCCGAUGUAUAUCGAUUGAAAUAGCAAGACCGUUUUUCGUUUAA
....(((((((((((....((((.(((((((((((....)))))))))...(((((...............))))).)).))))......(((......)))))))).))))))..... (-29.16 = -29.32 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:45 2006