Locus 6530

Sequence ID X_DroMel_CAF1
Location 16,353,201 – 16,353,299
Length 98
Max. P 0.834814
window10662 window10663

overview

Window 2

Location 16,353,201 – 16,353,299
Length 98
Sequences 3
Columns 113
Reading direction forward
Mean pairwise identity 74.06
Mean single sequence MFE -22.87
Consensus MFE -12.00
Energy contribution -12.00
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.17
Structure conservation index 0.52
SVM decision value 0.66
SVM RNA-class probability 0.813580
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16353201 98 + 22224390
UACGGGAAUAAUCGUAUACGAUAU-CGAAUACGAUAUUGGCUAUCCCUAAUAAUUUCAUUUGCGCAUCCUCGCAAUGCAA--------------AUAUCAUGAAUGAUGAGCA
(((((......)))))..((((((-((....))))))))(((.................(((((......))))).....--------------.(((((....)))))))). ( -20.60)
>DroSec_CAF1 20547 94 + 1
U---GGGA-UAUCGUAUACGAUAU-CGGAUACGAUAUCGGCUAUCCCUAAUAACUUCAUUUGCGCAUCCUCGCAAUGCAA--------------AUAUCAAGGAUCAUGAGUA
.---((((-((..((...((((((-((....))))))))))))))))......(((.((((((((......))...))))--------------))...)))........... ( -23.40)
>DroYak_CAF1 13631 100 + 1
U---GGGA-UAUCGUAUACGAUAUUCGAAUACGAUAU---------CUAACAAUUUCAUUUGCGCAUCCUCGCAAUGCAAAAUGCAAAAUGCAAAAUUCAAGGAUCAUGUUUA
.---.(((-((((((((.((.....)).)))))))))---------))..........(((((((......))..(((.....)))....))))).................. ( -24.60)
>consensus
U___GGGA_UAUCGUAUACGAUAU_CGAAUACGAUAU_GGCUAUCCCUAAUAAUUUCAUUUGCGCAUCCUCGCAAUGCAA______________AUAUCAAGGAUCAUGAGUA
..........(((((((.((.....)).)))))))........................(((((......)))))...................................... (-12.00 = -12.00 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 16,353,201 – 16,353,299
Length 98
Sequences 3
Columns 113
Reading direction reverse
Mean pairwise identity 74.06
Mean single sequence MFE -27.27
Consensus MFE -12.53
Energy contribution -12.87
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.89
Structure conservation index 0.46
SVM decision value 0.73
SVM RNA-class probability 0.834814
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16353201 98 - 22224390
UGCUCAUCAUUCAUGAUAU--------------UUGCAUUGCGAGGAUGCGCAAAUGAAAUUAUUAGGGAUAGCCAAUAUCGUAUUCG-AUAUCGUAUACGAUUAUUCCCGUA
(((.((((.(((..(((..--------------....)))..))))))).))).............((((........(((((((.((-....)).)))))))...))))... ( -23.30)
>DroSec_CAF1 20547 94 - 1
UACUCAUGAUCCUUGAUAU--------------UUGCAUUGCGAGGAUGCGCAAAUGAAGUUAUUAGGGAUAGCCGAUAUCGUAUCCG-AUAUCGUAUACGAUA-UCCC---A
........((((((((((.--------------...(((((((......))).))))....))))))))))....((((((((((.((-....)).))))))))-))..---. ( -31.90)
>DroYak_CAF1 13631 100 - 1
UAAACAUGAUCCUUGAAUUUUGCAUUUUGCAUUUUGCAUUGCGAGGAUGCGCAAAUGAAAUUGUUAG---------AUAUCGUAUUCGAAUAUCGUAUACGAUA-UCCC---A
........(((((((.....((((..........))))...)))))))..((((......))))..(---------(((((((((.((.....)).))))))))-))..---. ( -26.60)
>consensus
UACUCAUGAUCCUUGAUAU______________UUGCAUUGCGAGGAUGCGCAAAUGAAAUUAUUAGGGAUAGCC_AUAUCGUAUUCG_AUAUCGUAUACGAUA_UCCC___A
....................................(((((((......))).))))....................((((((((.((.....)).))))))))......... (-12.53 = -12.87 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:06 2006