Locus 2741

Sequence ID X_DroMel_CAF1
Location 7,363,552 – 7,363,697
Length 145
Max. P 0.819302
window4479 window4480

overview

Window 9

Location 7,363,552 – 7,363,667
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 76.26
Mean single sequence MFE -26.63
Consensus MFE -11.46
Energy contribution -12.30
Covariance contribution 0.84
Combinations/Pair 1.18
Mean z-score -2.01
Structure conservation index 0.43
SVM decision value 0.68
SVM RNA-class probability 0.819302
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7363552 115 + 22224390
AUAAAUAGUUUAGGUAAAAGCCUUCGUUCAAAUAUACAAACAAGAUUUUUUCGCAGUCU---GCCCAAGGGCAAGGAUAAUAUUCGUAGCCCAAGCAGACGGCGAAAAAG--GAAAAUUC
.......((((((((....))))..((........))))))....(((((((((.((((---((....((((.(.((......)).).))))..)))))).)))))))))--........ ( -33.60)
>DroSec_CAF1 112303 113 + 1
AUAAAUAGUUUGCUUUUA--CAUUCGUUCAAAUAUGCAACCAAGAUUUUUCCGCAGUCU---GCCCAAGGGCAAGGAUAAUACUCGUAGCGCAAGCAGACACCGAAAAAG--GAAAACUU
......(((((.(((((.--..((((........(((...............)))((((---(((....)))................((....))))))..))))))))--).))))). ( -22.86)
>DroSim_CAF1 112199 113 + 1
AUAAAUAGUUUGCUUUUA--CCUUCGUUCAAAUAUGCAACCAAGAUUUUUCCGCAGUCU---GCCCAAGGGCAAUGAUAAUACUCGUAGCGCAAGCAGACACCGAAAAAG--GAAAACUC
.......((((((((...--.(((.(((((....)).))).))).......(((....(---(((....))))((((......)))).))).)))))))).((......)--)....... ( -24.20)
>DroEre_CAF1 123687 103 + 1
AUAAAUAGUUU---------CCGUCCUUCAAAUAUAAAACAAAGAUUUUUCCGCAGUCUGCUGCCCAAGCGCAUGGAAAAU------AGCCCAGGCAGACGCCAAAUGGA--GGAAAUCC
.......((((---------((.(((.................((....)).((.(((((((((......)).(((.....------...)))))))))))).....)))--)))))).. ( -24.10)
>DroYak_CAF1 145986 105 + 1
AUGAAUAGUUA---------CCUUCCCUUGAACAUGAAACAAAGAUUUUUCCGCAGUCUGCUGCCCAAGGGCAAGGAUAAU------AGCCCAAGCAGACGCCAAAAGGAGUGGAAAUCC
...........---------...........................(((((((.((((((((((....)))..((.....------...)).))))))).((....)).)))))))... ( -28.40)
>consensus
AUAAAUAGUUU___U__A__CCUUCGUUCAAAUAUGCAACCAAGAUUUUUCCGCAGUCU___GCCCAAGGGCAAGGAUAAUA_UCGUAGCCCAAGCAGACGCCGAAAAAG__GAAAAUUC
.............................................((((((.((.((((...(((....)))................((....)))))))).))))))........... (-11.46 = -12.30 +   0.84)

alignment

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secondary structure

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dotplot

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Window 0

Location 7,363,592 – 7,363,697
Length 105
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 78.44
Mean single sequence MFE -32.30
Consensus MFE -18.06
Energy contribution -17.50
Covariance contribution -0.56
Combinations/Pair 1.18
Mean z-score -1.82
Structure conservation index 0.56
SVM decision value 0.19
SVM RNA-class probability 0.627293
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7363592 105 + 22224390
CAAGAUUUUUUCGCAGUCU---GCCCAAGGGCAAGGAUAAUAUUCGUAGCCCAAGCAGACGGCGAAAAAG--GAAAAUUCAAGGGAAGAU----------UGGUUUGAAUCGAUGGCGAC
.....(((((((((.((((---((....((((.(.((......)).).))))..)))))).)))))))))--................((----------((((....))))))...... ( -31.80)
>DroSec_CAF1 112341 105 + 1
CAAGAUUUUUCCGCAGUCU---GCCCAAGGGCAAGGAUAAUACUCGUAGCGCAAGCAGACACCGAAAAAG--GAAAACUUCAGGGAAGAU----------UGGUUUGGAUCGAUGGCGAC
...(((((((((...((((---(((....)))................((....)))))).((......)--).........))))))))----------)........(((....))). ( -26.70)
>DroSim_CAF1 112237 105 + 1
CAAGAUUUUUCCGCAGUCU---GCCCAAGGGCAAUGAUAAUACUCGUAGCGCAAGCAGACACCGAAAAAG--GAAAACUCCAGGGAAGAU----------UGGUUUCGAUCGAUGGCGAC
...(((((((((...((((---(((....))).((((......)))).((....)))))).........(--((....))).))))))))----------)........(((....))). ( -27.70)
>DroEre_CAF1 123718 102 + 1
AAAGAUUUUUCCGCAGUCUGCUGCCCAAGCGCAUGGAAAAU------AGCCCAGGCAGACGCCAAAUGGA--GGAAAUCCAAGGGAAGAU----------GGGCUUGGAUCGAUGGCGAC
............((((....))))....((.(((.((....------(((((((((....)))...((((--.....))))........)----------)))))....)).)))))... ( -32.30)
>DroYak_CAF1 146017 114 + 1
AAAGAUUUUUCCGCAGUCUGCUGCCCAAGGGCAAGGAUAAU------AGCCCAAGCAGACGCCAAAAGGAGUGGAAAUCCAAGGGGAGAAGAGGGGAGCAGGGUGCGGAUCGAUGGCGAC
....(((..((((((.((((((.(((..((((.........------.)))).......(.((....(((.......)))....)).)....))).)))))).))))))..)))...... ( -43.00)
>consensus
CAAGAUUUUUCCGCAGUCU___GCCCAAGGGCAAGGAUAAUA_UCGUAGCCCAAGCAGACGCCGAAAAAG__GAAAAUUCAAGGGAAGAU__________UGGUUUGGAUCGAUGGCGAC
....((((((((...((((...(((....)))................((....))))))............((....))..))))))))...................(((....))). (-18.06 = -17.50 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:09 2006