Locus 5408

Sequence ID 2R_DroMel_CAF1
Location 17,457,084 – 17,457,259
Length 175
Max. P 0.979267
window8626 window8627

overview

Window 6

Location 17,457,084 – 17,457,181
Length 97
Sequences 3
Columns 97
Reading direction forward
Mean pairwise identity 95.85
Mean single sequence MFE -26.83
Consensus MFE -21.73
Energy contribution -22.07
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -3.00
Structure conservation index 0.81
SVM decision value 0.59
SVM RNA-class probability 0.790884
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17457084 97 + 20766785
ACACAAAGCCCGAGGAGGAGUCUGCUACCGCGAUACACAUGCAAAUUUGUGUACAAACUGAAUCAAUUUUUACCGCGAUAAACUUCGGCUCCACCUU
...........((((.((((((.......(((.((((((........)))))).....((((......)))).)))((......)))))))).)))) ( -24.20)
>DroSec_CAF1 171736 95 + 1
ACUCAAAGCCCGAGGUGGAGUCUGCUACCCCGAUACACAUGCAAAU--GUGUACAAGCUGAAUCAAUUUUUACCGCGAUAAACUUCGGCUCCACCUU
...........(((((((((((.((......(.(((((((....))--))))))..(.((((......)))).)))((......))))))))))))) ( -28.50)
>DroSim_CAF1 176735 95 + 1
ACACAAAGCCCGAGGUGGAGUCUGCUACCCCGAUACACAUGCAAAU--GUGUACAAACUGAAUCAAUUUUUACCGCGAUAAACUUCGGCUCCACCUU
...........(((((((((((.((......(.(((((((....))--))))))....((((......))))..))((......))))))))))))) ( -27.80)
>consensus
ACACAAAGCCCGAGGUGGAGUCUGCUACCCCGAUACACAUGCAAAU__GUGUACAAACUGAAUCAAUUUUUACCGCGAUAAACUUCGGCUCCACCUU
...........(((((((((((.((......(.(((((..........))))))....((((......))))..))((......))))))))))))) (-21.73 = -22.07 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 17,457,152 – 17,457,259
Length 107
Sequences 3
Columns 107
Reading direction reverse
Mean pairwise identity 99.38
Mean single sequence MFE -29.82
Consensus MFE -29.62
Energy contribution -29.62
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.68
Structure conservation index 0.99
SVM decision value 1.83
SVM RNA-class probability 0.979267
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17457152 107 - 20766785
AUUUGCAAAUUUUACACAACAUUUUGCAGUUACCUCAGUGCCGUAAAAUCCGGUGCUCUCUCCACUUUUCCACCGCAAAAGGUGGAGCCGAAGUUUAUCGCGGUAAA
..(((((((.............)))))))(((((.(((..(((.......)))..))......(((((((((((......))))))...))))).....).))))). ( -30.22)
>DroSec_CAF1 171802 107 - 1
AUUUGCAAAUUUUACACAACAUUUUGCAGUUACCUCAGUGCCGUAAAAUCCGGUGCUCUCUCCACUUUUCCCCCGCAAAAGGUGGAGCCGAAGUUUAUCGCGGUAAA
..(((((((.............)))))))(((((.(((..(((.......)))..))..((((((((((........))))))))))............).))))). ( -29.62)
>DroSim_CAF1 176801 107 - 1
AUUUGCAAAUUUUACACAACAUUUUGCAGUUACCUCAGUGCCGUAAAAUCCGGUGCUCUCUCCACUUUUCCCCCGCAAAAGGUGGAGCCGAAGUUUAUCGCGGUAAA
..(((((((.............)))))))(((((.(((..(((.......)))..))..((((((((((........))))))))))............).))))). ( -29.62)
>consensus
AUUUGCAAAUUUUACACAACAUUUUGCAGUUACCUCAGUGCCGUAAAAUCCGGUGCUCUCUCCACUUUUCCCCCGCAAAAGGUGGAGCCGAAGUUUAUCGCGGUAAA
..(((((((.............)))))))(((((.(((..(((.......)))..))..((((((((((........))))))))))............).))))). (-29.62 = -29.62 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:03 2006