Locus 2275

Sequence ID X_DroMel_CAF1
Location 6,160,715 – 6,160,891
Length 176
Max. P 0.724153
window3687 window3688

overview

Window 7

Location 6,160,715 – 6,160,833
Length 118
Sequences 3
Columns 118
Reading direction forward
Mean pairwise identity 80.23
Mean single sequence MFE -23.62
Consensus MFE -19.82
Energy contribution -20.48
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.33
Structure conservation index 0.84
SVM decision value 0.41
SVM RNA-class probability 0.724153
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6160715 118 + 22224390
UACCCCCUUUUCUCUGCUCUCUUCUCCUGCCAUCUCACUCUGUCGCCGCAUUUGUCUCGCUCGCUUGCAGUGGCGAAUAAUUCGAUGGCAAUGCAGACACGUAUGUAUUGCCUCAUAU
............(((((..........(((((((........(((((((....(...)((......)).))))))).......)))))))..)))))...(((((........))))) ( -28.06)
>DroSim_CAF1 1695 118 + 1
UACCCCCUUUUCUCUGCUCUCUUCUCCUGCCGUCUCCCUCUGUCGCCGCAUCCGUCUCGCUCGCUCCCAGUGGCGAAUAAUUCGCUGGCAAUGCAGACACGUAUGUAUUGCCUCAUAU
...............((..........(((((.(.......).))..)))......((((.(((.....))))))).......)).(((((((((........)))))))))...... ( -24.80)
>DroYak_CAF1 5155 99 + 1
UGUCCCCUUU-CUCU------------------CCCUUUCUCUCACCGCAUCCGUCUCGCUCGCUCGCAGUGGCAAAUUAUUCGCUGGCAAUGCAGACACGUAUGUAUUGCCUCAAAU
..........-....------------------.........((((.((...((.......))...)).)))).............(((((((((........)))))))))...... ( -18.00)
>consensus
UACCCCCUUUUCUCUGCUCUCUUCUCCUGCC_UCUCACUCUGUCGCCGCAUCCGUCUCGCUCGCUCGCAGUGGCGAAUAAUUCGCUGGCAAUGCAGACACGUAUGUAUUGCCUCAUAU
..........................................(((((((....................)))))))..........(((((((((........)))))))))...... (-19.82 = -20.48 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 6,160,793 – 6,160,891
Length 98
Sequences 3
Columns 106
Reading direction forward
Mean pairwise identity 90.32
Mean single sequence MFE -25.53
Consensus MFE -21.51
Energy contribution -21.29
Covariance contribution -0.22
Combinations/Pair 1.05
Mean z-score -1.82
Structure conservation index 0.84
SVM decision value 0.02
SVM RNA-class probability 0.542810
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6160793 98 + 22224390
AAUUCGAUGGCAAUGCAGACACGUAUGUAUUGCCUCAUAUA--------UAUUUAGUUUGGCUUAUUUUUCCAAAUGAUUCCCGAAUGAUUGAUGGGGCCCAACGC
.....((.(((((((((........))))))))))).....--------......(((.(((((((((....))))))..((((.........))))))).))).. ( -24.50)
>DroSim_CAF1 1773 98 + 1
AAUUCGCUGGCAAUGCAGACACGUAUGUAUUGCCUCAUAUA--------UAUUUAGUUUGGCUUAUUUUUCCAAAUGAUUCCCCAAUGAUUGAUGGAGCCCAACGC
.....((.(((((((((........))))))))).......--------......(((.((((((((..((....((......))..))..))).))))).))))) ( -23.40)
>DroYak_CAF1 5214 106 + 1
UAUUCGCUGGCAAUGCAGACACGUAUGUAUUGCCUCAAAUAUAUGUAUGUAUUUAGUUUGGCUUAUUUCUCCAAAUGAUUCCCCCAUGAUUGAUGGGGCCCAACGC
.....((.(((((((((........)))))))))..(((((((....))))))).(((.(((((((((....))))))....(((((.....)))))))).))))) ( -28.70)
>consensus
AAUUCGCUGGCAAUGCAGACACGUAUGUAUUGCCUCAUAUA________UAUUUAGUUUGGCUUAUUUUUCCAAAUGAUUCCCCAAUGAUUGAUGGGGCCCAACGC
........(((((((((........))))))))).....................(((.((((((((..((................))..))).))))).))).. (-21.51 = -21.29 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:25 2006