Locus 1751

Sequence ID 3R_DroMel_CAF1
Location 5,053,303 – 5,053,397
Length 94
Max. P 0.997033
window2876 window2877

overview

Window 6

Location 5,053,303 – 5,053,397
Length 94
Sequences 5
Columns 94
Reading direction forward
Mean pairwise identity 95.41
Mean single sequence MFE -22.06
Consensus MFE -21.92
Energy contribution -21.92
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.70
Structure conservation index 0.99
SVM decision value 2.79
SVM RNA-class probability 0.997033
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5053303 94 + 27905053
AUGCUCACUAUCCAAUCGCCCGUCUUAACCUCCAAGUAAUUAAAUUGCUCGCGACAGUUGCUGGCAAUUAAAAUCGUUUGGAGAGCCAAGUCAA
.....................(.(((..((((((((..(((.(((((((.((((...)))).)))))))..)))..))))))).)..))).).. ( -22.20)
>DroSec_CAF1 159534 94 + 1
AUGCUCACUAUCCAAUCGCCCGUCUUAACCUCCAAGUAAUUAAAUUGCUCGCGACAGUUGCUGGCAAUUAAAAUCGUUUGGAGAGCCAAGUCAA
.....................(.(((..((((((((..(((.(((((((.((((...)))).)))))))..)))..))))))).)..))).).. ( -22.20)
>DroSim_CAF1 165249 94 + 1
AUGCUCACUAUCCAAUCGCCCGUCUUAACCUCCAAGUAAUUAAAUUGCUCGCGACAGUUGCUGGCAAUUAAAAUCGUUUGGAGAGCCAAGUCAA
.....................(.(((..((((((((..(((.(((((((.((((...)))).)))))))..)))..))))))).)..))).).. ( -22.20)
>DroEre_CAF1 162011 89 + 1
AUGCUCACCA-----UCGCCCGUCUUAACCUCCAAGUAAUUAAAUUGCUCGCGACAGUUGCUGGCAAUUAAAAUAGUUUGGAGAGCCAAGUCAA
..........-----......(.(((..((((((((..(((.(((((((.((((...)))).)))))))..)))..))))))).)..))).).. ( -20.80)
>DroYak_CAF1 166101 90 + 1
AUGCUCAUGAU----UCGCCCGUCUUAACCUCCAAGUAAUUAAAUUGCUCGCGACAGUUGCUGGCAAUUAAAAUCGUUUGGAGAGCCAAGUCAA
..((((..(((----......)))......((((((..(((.(((((((.((((...)))).)))))))..)))..))))))))))........ ( -22.90)
>consensus
AUGCUCACUAUCCAAUCGCCCGUCUUAACCUCCAAGUAAUUAAAUUGCUCGCGACAGUUGCUGGCAAUUAAAAUCGUUUGGAGAGCCAAGUCAA
.....................(.(((..((((((((..(((.(((((((.((((...)))).)))))))..)))..))))))).)..))).).. (-21.92 = -21.92 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 7

Location 5,053,303 – 5,053,397
Length 94
Sequences 5
Columns 94
Reading direction reverse
Mean pairwise identity 95.41
Mean single sequence MFE -24.65
Consensus MFE -24.00
Energy contribution -24.20
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.10
Structure conservation index 0.97
SVM decision value 0.34
SVM RNA-class probability 0.697250
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5053303 94 - 27905053
UUGACUUGGCUCUCCAAACGAUUUUAAUUGCCAGCAACUGUCGCGAGCAAUUUAAUUACUUGGAGGUUAAGACGGGCGAUUGGAUAGUGAGCAU
....((((((.((((((..((((..((((((..((.......))..)))))).))))..))))))))))))....((.............)).. ( -24.62)
>DroSec_CAF1 159534 94 - 1
UUGACUUGGCUCUCCAAACGAUUUUAAUUGCCAGCAACUGUCGCGAGCAAUUUAAUUACUUGGAGGUUAAGACGGGCGAUUGGAUAGUGAGCAU
....((((((.((((((..((((..((((((..((.......))..)))))).))))..))))))))))))....((.............)).. ( -24.62)
>DroSim_CAF1 165249 94 - 1
UUGACUUGGCUCUCCAAACGAUUUUAAUUGCCAGCAACUGUCGCGAGCAAUUUAAUUACUUGGAGGUUAAGACGGGCGAUUGGAUAGUGAGCAU
....((((((.((((((..((((..((((((..((.......))..)))))).))))..))))))))))))....((.............)).. ( -24.62)
>DroEre_CAF1 162011 89 - 1
UUGACUUGGCUCUCCAAACUAUUUUAAUUGCCAGCAACUGUCGCGAGCAAUUUAAUUACUUGGAGGUUAAGACGGGCGA-----UGGUGAGCAU
....((((((.((((((...(((..((((((..((.......))..)))))).)))...))))))))))))....((..-----......)).. ( -24.40)
>DroYak_CAF1 166101 90 - 1
UUGACUUGGCUCUCCAAACGAUUUUAAUUGCCAGCAACUGUCGCGAGCAAUUUAAUUACUUGGAGGUUAAGACGGGCGA----AUCAUGAGCAU
....((((((.((((((..((((..((((((..((.......))..)))))).))))..))))))))))))....((..----.......)).. ( -25.00)
>consensus
UUGACUUGGCUCUCCAAACGAUUUUAAUUGCCAGCAACUGUCGCGAGCAAUUUAAUUACUUGGAGGUUAAGACGGGCGAUUGGAUAGUGAGCAU
....((((((.((((((..((((..((((((..((.......))..)))))).))))..))))))))))))....((.............)).. (-24.00 = -24.20 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:24 2006