Locus 7982

Sequence ID X_DroMel_CAF1
Location 19,876,725 – 19,876,917
Length 192
Max. P 0.825196
window13094 window13095

overview

Window 4

Location 19,876,725 – 19,876,845
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.11
Mean single sequence MFE -16.23
Consensus MFE -14.86
Energy contribution -14.86
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.49
Structure conservation index 0.92
SVM decision value 0.69
SVM RNA-class probability 0.825196
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19876725 120 + 22224390
CCACUUUCUCGCAUCCCCCUCCCCCCGCCCCUCUAGCCGAACUGGAAAUUGAUUACAGUUCAUUUCAUUUUGGCUUUGUUUAUUUCCUUGCCCUCGUUUCCAUUCAUUGGCCGACUUUUC
..................................(((((((.(((((..(((.......)))))))).)))))))..................(((...(((.....))).)))...... ( -15.30)
>DroSec_CAF1 30778 100 + 1
CCACUUUCUC--------------------CCCCAGCCGAACUGGAAAUUGAUUACAGUUCAUUUCAUUUUGGCUUUGUUUAUUUCCUUGCCCUCGUUUCCAUUCAUUGGCCGACUUUUC
..........--------------------....(((((((.(((((..(((.......)))))))).)))))))..................(((...(((.....))).)))...... ( -15.40)
>DroSim_CAF1 23078 100 + 1
CCACUUUCUC--------------------CCCCAGCCGAACUGGAAAUUGAUUACAGUUCAUUUCAUUUUGGCUUUGUUUAUUUCCUUGCCCUCGUUUCCAUUCAUUGGCCGACUUUUC
..........--------------------....(((((((.(((((..(((.......)))))))).)))))))..................(((...(((.....))).)))...... ( -15.40)
>DroEre_CAF1 8162 105 + 1
CCACUUCCUC--------------CCACCGCCC-AGCCGAACUGGAAAUUGAUUACAGUUCAUUUCAUUUUGGCUUUGUUUAUUUCCUUGCCCUCAUUUCCAUUCACUGGCCGACUUUUC
..........--------------....((.((-((..(((.((((((((((.......))).........(((...............)))...)))))))))).)))).))....... ( -18.36)
>DroYak_CAF1 6253 106 + 1
CCACUGCCUC--------------CCACCCCGCAAGCCGAACUGGAAAUUGAUUACAGUUCAUUUCAUUUUGGCUUUGUUUAUUUCCUUGCCCUCGUUUCCAUUCACUGGCCGACUUUUC
...(.(((..--------------.......((((((((((.(((((..(((.......)))))))).)))))).))))................((........)).))).)....... ( -16.70)
>consensus
CCACUUUCUC______________CC_CC_CCCCAGCCGAACUGGAAAUUGAUUACAGUUCAUUUCAUUUUGGCUUUGUUUAUUUCCUUGCCCUCGUUUCCAUUCAUUGGCCGACUUUUC
...................................(((((((((...........))))))..........(((...............)))................)))......... (-14.86 = -14.86 +   0.00)

alignment

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secondary structure

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dotplot

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Window 5

Location 19,876,805 – 19,876,917
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.27
Mean single sequence MFE -23.28
Consensus MFE -18.50
Energy contribution -18.18
Covariance contribution -0.32
Combinations/Pair 1.10
Mean z-score -1.49
Structure conservation index 0.79
SVM decision value -0.02
SVM RNA-class probability 0.521448
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19876805 112 - 22224390
AUAACUCACAAAUAAAUAUUGAAAUG-------GAAAAUGGAAAAACCGCUGGCCAUAUCAGUUG-GCGUAAGGAGCGCGGAAAAGUCGGCCAAUGAAUGGAAACGAGGGCAAGGAAAUA
....(((............(((.(((-------(..(.(((.....))).)..)))).)))((((-((((.....)).(((.....)))))))))....(....))))............ ( -21.60)
>DroSec_CAF1 30838 112 - 1
AUAACUCACAAAUAAAUAUUAAAAUG-------GAAAAUGGAAAAACCGCUGGCCAUAUCAGUUG-GCGUAAGGAGCGCGGAAAAGUCGGCCAAUGAAUGGAAACGAGGGCAAGGAAAUA
....(((.................((-------(....(((.....((((..((((.......))-))((.....)))))).....))).)))......(....))))............ ( -21.30)
>DroSim_CAF1 23138 119 - 1
AUAACUCACAAAUAAAUAUUGAAAUGGAAAAUGGAAAAUGGAAAAACCGCUGGCCAUAUCAGUUG-GCGUAAGGAGCGCGGAAAAGUCGGCCAAUGAAUGGAAACGAGGGCAAGGAAAUA
....(((........................(((....(((.....((((..((((.......))-))((.....)))))).....))).)))......(....))))............ ( -21.30)
>DroEre_CAF1 8227 119 - 1
AUAACUCACAAAUAAAUAUUGAAAUGGAAAAUGGAAAAUGGAAAACCCGCUGGCCAUAUCAGUUG-GCGUAAGGAGCGCGGAAAAGUCGGCCAGUGAAUGGAAAUGAGGGCAAGGAAAUA
....((((...............................((....))((((((((.......((.-((((.....)))).))......))))))))........))))............ ( -25.82)
>DroYak_CAF1 6319 120 - 1
AUAACUCACAAAUAAAUAUUGAAAUGGAAAAUGGAAAACGGAAAAACCGCUGGCCAUAUCAGUUGAGCGUAAGGAGCGCGGAAAAGUCGGCCAGUGAAUGGAAACGAGGGCAAGGAAAUA
....(((........................................((((((((...((....))((((.....)))).........))))))))...(....))))............ ( -26.40)
>consensus
AUAACUCACAAAUAAAUAUUGAAAUGGAAAAUGGAAAAUGGAAAAACCGCUGGCCAUAUCAGUUG_GCGUAAGGAGCGCGGAAAAGUCGGCCAAUGAAUGGAAACGAGGGCAAGGAAAUA
....(((.((............................(((.....))).(((((...........((((.....)))).((....))))))).))...(....))))............ (-18.50 = -18.18 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:52:20 2006