Locus 1784

Sequence ID 3L_DroMel_CAF1
Location 5,067,097 – 5,067,216
Length 119
Max. P 0.998845
window2761 window2762

overview

Window 1

Location 5,067,097 – 5,067,216
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.90
Mean single sequence MFE -28.08
Consensus MFE -26.88
Energy contribution -26.56
Covariance contribution -0.32
Combinations/Pair 1.06
Mean z-score -2.06
Structure conservation index 0.96
SVM decision value 3.25
SVM RNA-class probability 0.998845
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5067097 119 + 23771897
AUUUACAUAAUAUGGCCAACUCGAUGCAACAAUUUCCUGUGCGCUGGCACCCCAAAUAUUUACCAUCGUUUGUUUGCCAGUUUGGCCU-CUGCUCUCGGCUCAUACAUAUGUGAACUACU
.((((((((....((((((......(((.((......)))))(((((((...(((((..........)))))..))))))))))))).-..((.....)).......))))))))..... ( -31.10)
>DroSec_CAF1 273615 119 + 1
AUUUACAUAAUAUGGCCAACUCGAUGCAACAAUUUCCUGUGUGCUGGCACCCCAAAUAUUUACCAUCGUUUGUUUGCCUGUUUGGCCU-CUGCUCUCGGCUCAUACAUAUGUGAACUACU
.((((((((....(((.(((.(((((.....((((...((((....))))...))))......)))))...))).)))(((.(((((.-........))).)).)))))))))))..... ( -27.00)
>DroSim_CAF1 294945 119 + 1
AUUUACAUAAUAUGGCCAACUCGAUGCAACAAUUUCCUGUGUGCUGGCACCCCAAAUAUUUACCAUCGUUUGUUUGCCUGUUUGGCCU-CUGCUCUCGGCUCAUACAUAUGUGAACUACU
.((((((((....(((.(((.(((((.....((((...((((....))))...))))......)))))...))).)))(((.(((((.-........))).)).)))))))))))..... ( -27.00)
>DroEre_CAF1 280510 119 + 1
AUUUACAUAAUAUGGCCAACUCGAUGCAACAAUUUCCUGUGUGCUGGCACCCCAAAUAUUUACCAUCGUUUGUUUGCCCGUUUGGCCU-CUGCUCUUGGCUCAUACAUAUGUGAACUACU
.((((((((....((((((..((..((((((......))).))).((((...(((((..........)))))..)))))).)))))).-..((.....)).......))))))))..... ( -27.20)
>DroYak_CAF1 284346 120 + 1
AUUUACAUAAUAUGGCCAACUCGAUGCAACAAUUUCCUGUGUGCUGGCACCCCAAAUAUUUGCCAUCGUUUGUUUGCCUGUUUGGCCUUUUGCUCCUGGUUCAUACAUAUGUGAACUACU
.((((((((....(((.(((.((((((((..((((...((((....))))...))))..))).)))))...))).)))(((.(((((..........)).))).)))))))))))..... ( -28.10)
>consensus
AUUUACAUAAUAUGGCCAACUCGAUGCAACAAUUUCCUGUGUGCUGGCACCCCAAAUAUUUACCAUCGUUUGUUUGCCUGUUUGGCCU_CUGCUCUCGGCUCAUACAUAUGUGAACUACU
.((((((((....(((.(((.(((((.....((((...((((....))))...))))......)))))...))).))).((.(((((..........))).)).)).))))))))..... (-26.88 = -26.56 +  -0.32)

alignment

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secondary structure

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dotplot

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Window 2

Location 5,067,097 – 5,067,216
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.90
Mean single sequence MFE -29.92
Consensus MFE -29.92
Energy contribution -29.40
Covariance contribution -0.52
Combinations/Pair 1.12
Mean z-score -1.24
Structure conservation index 1.00
SVM decision value 0.84
SVM RNA-class probability 0.864635
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5067097 119 - 23771897
AGUAGUUCACAUAUGUAUGAGCCGAGAGCAG-AGGCCAAACUGGCAAACAAACGAUGGUAAAUAUUUGGGGUGCCAGCGCACAGGAAAUUGUUGCAUCGAGUUGGCCAUAUUAUGUAAAU
........(((((.(((((.(((((......-..(((.....))).......(((((...((((.((...((((....))))....)).)))).)))))..))))))))))))))).... ( -31.40)
>DroSec_CAF1 273615 119 - 1
AGUAGUUCACAUAUGUAUGAGCCGAGAGCAG-AGGCCAAACAGGCAAACAAACGAUGGUAAAUAUUUGGGGUGCCAGCACACAGGAAAUUGUUGCAUCGAGUUGGCCAUAUUAUGUAAAU
........(((((.(((((.(((((......-..(((.....))).......((((((((..(.....)..)))).(((.((((....)))))))))))..))))))))))))))).... ( -30.30)
>DroSim_CAF1 294945 119 - 1
AGUAGUUCACAUAUGUAUGAGCCGAGAGCAG-AGGCCAAACAGGCAAACAAACGAUGGUAAAUAUUUGGGGUGCCAGCACACAGGAAAUUGUUGCAUCGAGUUGGCCAUAUUAUGUAAAU
........(((((.(((((.(((((......-..(((.....))).......((((((((..(.....)..)))).(((.((((....)))))))))))..))))))))))))))).... ( -30.30)
>DroEre_CAF1 280510 119 - 1
AGUAGUUCACAUAUGUAUGAGCCAAGAGCAG-AGGCCAAACGGGCAAACAAACGAUGGUAAAUAUUUGGGGUGCCAGCACACAGGAAAUUGUUGCAUCGAGUUGGCCAUAUUAUGUAAAU
........(((((.(((((.(((((......-..(((.....))).......((((((((..(.....)..)))).(((.((((....)))))))))))..))))))))))))))).... ( -30.50)
>DroYak_CAF1 284346 120 - 1
AGUAGUUCACAUAUGUAUGAACCAGGAGCAAAAGGCCAAACAGGCAAACAAACGAUGGCAAAUAUUUGGGGUGCCAGCACACAGGAAAUUGUUGCAUCGAGUUGGCCAUAUUAUGUAAAU
........(((((.(((((..((((.........(((.....))).......((((((((..(.....)..)))).(((.((((....)))))))))))..)))).)))))))))).... ( -27.10)
>consensus
AGUAGUUCACAUAUGUAUGAGCCGAGAGCAG_AGGCCAAACAGGCAAACAAACGAUGGUAAAUAUUUGGGGUGCCAGCACACAGGAAAUUGUUGCAUCGAGUUGGCCAUAUUAUGUAAAU
........(((((.(((((.(((((.........(((.....))).......((((((((..(.....)..)))).(((.((((....)))))))))))..))))))))))))))).... (-29.92 = -29.40 +  -0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:16 2006