Locus 4300

Sequence ID 3R_DroMel_CAF1
Location 11,419,828 – 11,419,920
Length 92
Max. P 0.991574
window7006 window7007

overview

Window 6

Location 11,419,828 – 11,419,920
Length 92
Sequences 4
Columns 92
Reading direction forward
Mean pairwise identity 93.12
Mean single sequence MFE -30.60
Consensus MFE -28.52
Energy contribution -28.77
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.57
Structure conservation index 0.93
SVM decision value 2.28
SVM RNA-class probability 0.991574
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11419828 92 + 27905053
AAGCAACAUGGCUACCGCCAUGUGUGGGUUUAUGUGCGCCAAGUGCCUAUGUGUGCGUGUUUGUAUGGCAAGUGCACGAAAUAAAUGUUUAU
((((((((((((....)))))))....((((.(((((((....((((.....(((((....))))))))).)))))))))))...))))).. ( -30.30)
>DroSec_CAF1 167391 92 + 1
AAGCAACAUGGCUGCCGCCAUGUGUGUGUUUAUGUGCGCCAAGUGCCUAUGUGUGCGUGUUUGUAUGGCAAGUGCACGAAAUAAAUGUUUAU
((((((((((((....)))))))...(((((.(((((((....((((.....(((((....))))))))).))))))))))))..))))).. ( -31.20)
>DroSim_CAF1 160209 92 + 1
AAGCAACAUGGCUGCCGCCAUGUGUGUGUUUAUGUGCGCCAAGUGCCUAUGUGUGCGUGUUUGUAUGGCAAGUGCACGAAAUAAAUGUUUAU
((((((((((((....)))))))...(((((.(((((((....((((.....(((((....))))))))).))))))))))))..))))).. ( -31.20)
>DroEre_CAF1 155410 84 + 1
AAGCAACAUGGCUGCCGCCAUG--------UGUGUGCGCCAAGUGCCAGUGUGUGCGUGUUUGUAUGGCAAGUGCACGAAAUAAAUGUUUAU
((((((((((((....))))))--------).(((((((....(((((.....((((....))))))))).))))))).......))))).. ( -29.70)
>consensus
AAGCAACAUGGCUGCCGCCAUGUGUGUGUUUAUGUGCGCCAAGUGCCUAUGUGUGCGUGUUUGUAUGGCAAGUGCACGAAAUAAAUGUUUAU
((((((((((((....))))))).........(((((((....((((.....(((((....))))))))).))))))).......))))).. (-28.52 = -28.77 +   0.25)

alignment

Postscript

secondary structure

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dotplot

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Window 7

Location 11,419,828 – 11,419,920
Length 92
Sequences 4
Columns 92
Reading direction reverse
Mean pairwise identity 93.12
Mean single sequence MFE -22.16
Consensus MFE -20.99
Energy contribution -21.23
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.30
Structure conservation index 0.95
SVM decision value 2.05
SVM RNA-class probability 0.986773
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11419828 92 - 27905053
AUAAACAUUUAUUUCGUGCACUUGCCAUACAAACACGCACACAUAGGCACUUGGCGCACAUAAACCCACACAUGGCGGUAGCCAUGUUGCUU
...............((((.((((((...................))))...)).))))..........(((((((....)))))))..... ( -21.81)
>DroSec_CAF1 167391 92 - 1
AUAAACAUUUAUUUCGUGCACUUGCCAUACAAACACGCACACAUAGGCACUUGGCGCACAUAAACACACACAUGGCGGCAGCCAUGUUGCUU
...............((((.((((((...................))))...)).)))).......((.(((((((....)))))))))... ( -22.01)
>DroSim_CAF1 160209 92 - 1
AUAAACAUUUAUUUCGUGCACUUGCCAUACAAACACGCACACAUAGGCACUUGGCGCACAUAAACACACACAUGGCGGCAGCCAUGUUGCUU
...............((((.((((((...................))))...)).)))).......((.(((((((....)))))))))... ( -22.01)
>DroEre_CAF1 155410 84 - 1
AUAAACAUUUAUUUCGUGCACUUGCCAUACAAACACGCACACACUGGCACUUGGCGCACACA--------CAUGGCGGCAGCCAUGUUGCUU
...............((((.(((((((.................)))))...)).))))..(--------((((((....)))))))..... ( -22.83)
>consensus
AUAAACAUUUAUUUCGUGCACUUGCCAUACAAACACGCACACAUAGGCACUUGGCGCACAUAAACACACACAUGGCGGCAGCCAUGUUGCUU
...............((((.((((((...................))))...)).))))..........(((((((....)))))))..... (-20.99 = -21.23 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:17 2006