Locus 5796

Sequence ID 2L_DroMel_CAF1
Location 16,431,954 – 16,432,061
Length 107
Max. P 0.968422
window9193 window9194

overview

Window 3

Location 16,431,954 – 16,432,061
Length 107
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 94.58
Mean single sequence MFE -31.58
Consensus MFE -25.68
Energy contribution -26.48
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.43
Structure conservation index 0.81
SVM decision value 0.04
SVM RNA-class probability 0.556206
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16431954 107 + 22407834
AUAUUUGCCUUUUUGCACAUGGUUGACAUUUUCCCCAACGCCAUUUUGGCCAUGUUGGCACAGCGCUGGCAAUGUUUUAUGGCCGAGAAAAAGGGAAAAUUUUUGGG
...(((.(((((((....(((((((..........))..)))))((((((((((..((((..((....))..)))).))))))))))))))))).)))......... ( -28.60)
>DroSec_CAF1 56312 107 + 1
AUGUUUGCCUUUUUGCACAUGGUUGACAUUUUCCCCAACGCCAUUUUGGCCAUGUUGCCACAGCGCUGGCGAUGUUUUAUGGCCGAGAAAAAGGGAAAAUUUUUGGA
.((((.(((...........))).))))(((((((........(((((((((((((((((......))))))).....))))))))))....)))))))........ ( -32.70)
>DroSim_CAF1 56632 107 + 1
AUGUUUGCCUUUUUGCACAUGGUUGACAUUUUCCCCAACGCCAUUUUGGCCAUGUUGCCACAGCGCUGGCGAUGUUUUAUGGCCGAGAAAAAGGGAAAAUUUUUGGA
.((((.(((...........))).))))(((((((........(((((((((((((((((......))))))).....))))))))))....)))))))........ ( -32.70)
>DroEre_CAF1 51242 107 + 1
AUGUUUGCCUUUUUGCACAUGGUUGACAUUUUCACCAACGCCAUUUUGGCCAUGUUGGCAGAGGGGUGGCGAUGUUUUAUGGCCGAGAAAAAGGGAAAAUUUUCGGG
.((.(..((((((((((((((((((..........))))(((.....))))))))..)))))))))..)))...........(((((((..........))))))). ( -31.80)
>DroYak_CAF1 57595 107 + 1
AUGUUUGCCUUUUUGCACAUGGUUGACAUUUUCAGCAACGCCAUUUUGGCCAUGUUGGCAGAGGGCUGGCGAUGUUUUAUGGCCGAGAAAAAGGGAAAAUAUUCGGU
((((((.(((((((((.....(((((.....)))))...))..((((((((((((((.(((....))).)))).....))))))))))))))))).))))))..... ( -32.10)
>consensus
AUGUUUGCCUUUUUGCACAUGGUUGACAUUUUCCCCAACGCCAUUUUGGCCAUGUUGGCACAGCGCUGGCGAUGUUUUAUGGCCGAGAAAAAGGGAAAAUUUUUGGA
...(((.(((((((....(((((((..........))..)))))((((((((((..((((..((....))..)))).))))))))))))))))).)))......... (-25.68 = -26.48 +   0.80)

alignment

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secondary structure

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dotplot

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Window 4

Location 16,431,954 – 16,432,061
Length 107
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 94.58
Mean single sequence MFE -25.92
Consensus MFE -22.38
Energy contribution -23.18
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.79
Structure conservation index 0.86
SVM decision value 1.63
SVM RNA-class probability 0.968422
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16431954 107 - 22407834
CCCAAAAAUUUUCCCUUUUUCUCGGCCAUAAAACAUUGCCAGCGCUGUGCCAACAUGGCCAAAAUGGCGUUGGGGAAAAUGUCAACCAUGUGCAAAAAGGCAAAUAU
.......(((((((((.......(((.((.....)).)))(((((((((((.....)))....)))))))))))))))))..........(((......)))..... ( -27.40)
>DroSec_CAF1 56312 107 - 1
UCCAAAAAUUUUCCCUUUUUCUCGGCCAUAAAACAUCGCCAGCGCUGUGGCAACAUGGCCAAAAUGGCGUUGGGGAAAAUGUCAACCAUGUGCAAAAAGGCAAACAU
.........(((.(((((((....(((((...(((((.((((((((.((((......))))....)))))))).))...))).....))).))))))))).)))... ( -29.00)
>DroSim_CAF1 56632 107 - 1
UCCAAAAAUUUUCCCUUUUUCUCGGCCAUAAAACAUCGCCAGCGCUGUGGCAACAUGGCCAAAAUGGCGUUGGGGAAAAUGUCAACCAUGUGCAAAAAGGCAAACAU
.........(((.(((((((....(((((...(((((.((((((((.((((......))))....)))))))).))...))).....))).))))))))).)))... ( -29.00)
>DroEre_CAF1 51242 107 - 1
CCCGAAAAUUUUCCCUUUUUCUCGGCCAUAAAACAUCGCCACCCCUCUGCCAACAUGGCCAAAAUGGCGUUGGUGAAAAUGUCAACCAUGUGCAAAAAGGCAAACAU
.........(((.(((((((...(((.((.....)).)))........((..((((((((.....)))((((..(....)..)))))))))))))))))).)))... ( -22.20)
>DroYak_CAF1 57595 107 - 1
ACCGAAUAUUUUCCCUUUUUCUCGGCCAUAAAACAUCGCCAGCCCUCUGCCAACAUGGCCAAAAUGGCGUUGCUGAAAAUGUCAACCAUGUGCAAAAAGGCAAACAU
.......................(((.((.....)).))).(((...(((..((((((......(((((((......))))))).)))))))))....)))...... ( -22.00)
>consensus
CCCAAAAAUUUUCCCUUUUUCUCGGCCAUAAAACAUCGCCAGCGCUGUGCCAACAUGGCCAAAAUGGCGUUGGGGAAAAUGUCAACCAUGUGCAAAAAGGCAAACAU
.........(((.((((((((.(((((((....(((.((....)).))).....))))))....(((((((......))))))).....).).))))))).)))... (-22.38 = -23.18 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:09 2006