Locus 9495

Sequence ID 3R_DroMel_CAF1
Location 25,105,857 – 25,105,948
Length 91
Max. P 0.865076
window15201 window15202

overview

Window 1

Location 25,105,857 – 25,105,948
Length 91
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 90.85
Mean single sequence MFE -24.40
Consensus MFE -20.20
Energy contribution -20.12
Covariance contribution -0.08
Combinations/Pair 1.13
Mean z-score -1.65
Structure conservation index 0.83
SVM decision value 0.84
SVM RNA-class probability 0.865076
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25105857 91 + 27905053
UCAGAUGGGAUGGAU-------------GGUGGAUAUGUGCUAUGCUAUAGGCAUGGUAUGGAGACAUGCAUAUUUGAAGAUCAUAAAACAACGCCAGCAGCAG
...(.((((.((.((-------------((((((((((((((((((.....)))))))(((....)))))))))))....)))))....)).).))).)..... ( -24.30)
>DroSec_CAF1 34836 87 + 1
UCAGAUGGGA----U-------------GGUGGGUAUGUGCUAUGCUAUAGGCAUGGUAUGGAGACAUGCAUAUUUGAAGAUCAUAAAACAACGCCAGCAGCAG
.....((.(.----(-------------((((((((((((((((((.....)))))))(((....))))))))))((.....))........))))).)..)). ( -23.10)
>DroSim_CAF1 35770 91 + 1
UCAGAUGGGAUGGAU-------------GGUGGGUAUGUGCUGUGCUAUAGACAUGGUAUGGAGACAUGCAUAUUUGAAGAUCAUAAAACAACGCCAGCAGCAG
..........((..(-------------((((.((((((.(((((((((....)))))))))..)))))).....((.....))........))))).)).... ( -21.10)
>DroEre_CAF1 35300 91 + 1
UCAGAUGGGAUGGAU-------------GGUGGGUAUGUGCUAUGCUAUAGGCAUGGUAUGGAGACAUGCAUAUUUGAAGAUCAUAAAACAACGCCAGCAGCAG
...(.((((.((.((-------------((((((((((((((((((.....)))))))(((....)))))))))))....)))))....)).).))).)..... ( -23.80)
>DroYak_CAF1 36109 104 + 1
UCAGAUGGGAUGGAUAUGGAUGGUGGGUAGUGGGUAUGUGCUAUGCUAUAGGCAUGGCAUGGAGACAUGCAUAUUUGAAGAUCAUAAAACAACGCCAGCAGCAG
.....((.(.(((...((....((((....(..(((((((((((((.....)))))))(((....)))))))))..)....))))....))...))).)..)). ( -29.70)
>consensus
UCAGAUGGGAUGGAU_____________GGUGGGUAUGUGCUAUGCUAUAGGCAUGGUAUGGAGACAUGCAUAUUUGAAGAUCAUAAAACAACGCCAGCAGCAG
............................((((((((((((((((((.....)))))))(((....))))))))))((.....))........))))........ (-20.20 = -20.12 +  -0.08)

alignment

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secondary structure

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dotplot

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Window 2

Location 25,105,857 – 25,105,948
Length 91
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 90.85
Mean single sequence MFE -14.80
Consensus MFE -14.42
Energy contribution -14.10
Covariance contribution -0.32
Combinations/Pair 1.12
Mean z-score -1.06
Structure conservation index 0.97
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25105857 91 - 27905053
CUGCUGCUGGCGUUGUUUUAUGAUCUUCAAAUAUGCAUGUCUCCAUACCAUGCCUAUAGCAUAGCACAUAUCCACC-------------AUCCAUCCCAUCUGA
.(((((..(((((.((.....(((...((....))...))).....)).)))))..)))))...............-------------............... ( -14.60)
>DroSec_CAF1 34836 87 - 1
CUGCUGCUGGCGUUGUUUUAUGAUCUUCAAAUAUGCAUGUCUCCAUACCAUGCCUAUAGCAUAGCACAUACCCACC-------------A----UCCCAUCUGA
.(((((..(((((.((.....(((...((....))...))).....)).)))))..)))))...............-------------.----.......... ( -14.60)
>DroSim_CAF1 35770 91 - 1
CUGCUGCUGGCGUUGUUUUAUGAUCUUCAAAUAUGCAUGUCUCCAUACCAUGUCUAUAGCACAGCACAUACCCACC-------------AUCCAUCCCAUCUGA
.((.(((((((.........((.....)).(((.(((((.........))))).))).)).)))))))........-------------............... ( -13.40)
>DroEre_CAF1 35300 91 - 1
CUGCUGCUGGCGUUGUUUUAUGAUCUUCAAAUAUGCAUGUCUCCAUACCAUGCCUAUAGCAUAGCACAUACCCACC-------------AUCCAUCCCAUCUGA
.(((((..(((((.((.....(((...((....))...))).....)).)))))..)))))...............-------------............... ( -14.60)
>DroYak_CAF1 36109 104 - 1
CUGCUGCUGGCGUUGUUUUAUGAUCUUCAAAUAUGCAUGUCUCCAUGCCAUGCCUAUAGCAUAGCACAUACCCACUACCCACCAUCCAUAUCCAUCCCAUCUGA
.(((((..(((((.......((.....)).....(((((....))))).)))))..)))))........................................... ( -16.80)
>consensus
CUGCUGCUGGCGUUGUUUUAUGAUCUUCAAAUAUGCAUGUCUCCAUACCAUGCCUAUAGCAUAGCACAUACCCACC_____________AUCCAUCCCAUCUGA
.(((((..(((((.((.....(((...((....))...))).....)).)))))..)))))........................................... (-14.42 = -14.10 +  -0.32)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:35:54 2006