Locus 4482

Sequence ID 3R_DroMel_CAF1
Location 11,852,842 – 11,852,938
Length 96
Max. P 0.995358
window7331 window7332

overview

Window 1

Location 11,852,842 – 11,852,938
Length 96
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 95.62
Mean single sequence MFE -21.30
Consensus MFE -19.98
Energy contribution -20.26
Covariance contribution 0.28
Combinations/Pair 1.09
Mean z-score -1.58
Structure conservation index 0.94
SVM decision value 1.83
SVM RNA-class probability 0.979064
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11852842 96 + 27905053
CAUUAGACCGCUGUUAAGUGCCAUUCAAUGAUCUAUUUCAACGAUUGGCGAACUGCAACUUUGUGUGAGAACAGUUACAGCUUAACUUAGACAUAA
............(((((((((((.((..(((......)))..)).)))).(((((...(((.....)))..)))))...))))))).......... ( -20.70)
>DroSec_CAF1 9359 96 + 1
CAUUAGACCGCUGUUAAGUGUCAUUCAAUGAUCUAUUUCAAUGAUUGGCGAACUGCAACUUUGUGUGAGAAUAGUUACAGCUUAAAUUAGACAUAA
.........(((((....(((((.(((.(((......))).))).)))))(((((...(((.....)))..))))))))))............... ( -18.70)
>DroSim_CAF1 9309 95 + 1
CAUUAGACCGCUGUUAAGUGCCAUUCAAUGAUCUAUUUCAAUGAUUGGCGAACUGCACCUUU-UGUGAGAACAGUUACAGCUUAAAUUAGACAUAA
.........(((((....(((((.(((.(((......))).))).)))))(((((...(((.-...)))..))))))))))............... ( -23.20)
>DroEre_CAF1 9493 96 + 1
CAUUAGAUCGCUUUUAAGAGCCAUUCAAUGAUCUAUUUCAAUGAUUGGCGAACUGCAACUUUGUGUGAGAACAGUUACAGCUUAAAUUAGACAUAA
..(((..((...((((((.((((.(((.(((......))).))).)))).(((((...(((.....)))..)))))....))))))...))..))) ( -21.70)
>DroYak_CAF1 10034 96 + 1
CAUUAGAUCGCUGUUAAGUGCCAUUCAAUGAUCUAUUUCAAUGAUUGGCGAACUGCAACUUUGUGUGAAAACAGUUACAGCUUAAAUUAGACAUAA
.........(((((....(((((.(((.(((......))).))).)))))(((((..((.....)).....))))))))))............... ( -22.20)
>consensus
CAUUAGACCGCUGUUAAGUGCCAUUCAAUGAUCUAUUUCAAUGAUUGGCGAACUGCAACUUUGUGUGAGAACAGUUACAGCUUAAAUUAGACAUAA
.........(((((.....((((.(((.(((......))).))).)))).(((((...(((.....)))..))))))))))............... (-19.98 = -20.26 +   0.28)

alignment

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secondary structure

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dotplot

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Window 2

Location 11,852,842 – 11,852,938
Length 96
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 95.62
Mean single sequence MFE -22.60
Consensus MFE -19.98
Energy contribution -19.98
Covariance contribution 0.00
Combinations/Pair 1.08
Mean z-score -2.10
Structure conservation index 0.88
SVM decision value 2.57
SVM RNA-class probability 0.995358
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11852842 96 - 27905053
UUAUGUCUAAGUUAAGCUGUAACUGUUCUCACACAAAGUUGCAGUUCGCCAAUCGUUGAAAUAGAUCAUUGAAUGGCACUUAACAGCGGUCUAAUG
...(((.(((((..((((((((((............)))))))))).((((.(((.(((......))).))).))))))))))))........... ( -25.00)
>DroSec_CAF1 9359 96 - 1
UUAUGUCUAAUUUAAGCUGUAACUAUUCUCACACAAAGUUGCAGUUCGCCAAUCAUUGAAAUAGAUCAUUGAAUGACACUUAACAGCGGUCUAAUG
...((((.......((((((((((............))))))))))......(((.(((......))).)))..)))).................. ( -16.60)
>DroSim_CAF1 9309 95 - 1
UUAUGUCUAAUUUAAGCUGUAACUGUUCUCACA-AAAGGUGCAGUUCGCCAAUCAUUGAAAUAGAUCAUUGAAUGGCACUUAACAGCGGUCUAAUG
...............(((((((((((.((....-...)).)))))).((((.(((.(((......))).))).)))).....)))))......... ( -24.30)
>DroEre_CAF1 9493 96 - 1
UUAUGUCUAAUUUAAGCUGUAACUGUUCUCACACAAAGUUGCAGUUCGCCAAUCAUUGAAAUAGAUCAUUGAAUGGCUCUUAAAAGCGAUCUAAUG
(((.(((...((((((((((((((............))))))))...((((.(((.(((......))).))).)))).))))))...))).))).. ( -23.40)
>DroYak_CAF1 10034 96 - 1
UUAUGUCUAAUUUAAGCUGUAACUGUUUUCACACAAAGUUGCAGUUCGCCAAUCAUUGAAAUAGAUCAUUGAAUGGCACUUAACAGCGAUCUAAUG
(((.(((.......((((((((((............)))))))))).((((.(((.(((......))).))).))))..........))).))).. ( -23.70)
>consensus
UUAUGUCUAAUUUAAGCUGUAACUGUUCUCACACAAAGUUGCAGUUCGCCAAUCAUUGAAAUAGAUCAUUGAAUGGCACUUAACAGCGGUCUAAUG
(((..((.......((((((((((............)))))))))).((((.(((.(((......))).))).))))..........))..))).. (-19.98 = -19.98 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:31 2006