Locus 792

Sequence ID X_DroMel_CAF1
Location 2,193,678 – 2,193,795
Length 117
Max. P 0.917250
window1283 window1284

overview

Window 3

Location 2,193,678 – 2,193,795
Length 117
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 85.42
Mean single sequence MFE -28.60
Consensus MFE -25.22
Energy contribution -25.33
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -2.12
Structure conservation index 0.88
SVM decision value 1.11
SVM RNA-class probability 0.917250
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2193678 117 + 22224390
AAUCAAAUGCCCAUUCUAGCGAAUUGAACUUUGCAAUUAAGCCGCAAGUUCCAUCGAACUGGCUCUAAUGCGAAAUUCCUGGAUGGG---GUUACCAAUCAAAUGACAUGGACUUUUUGU
...((((..(((((.((((.(((((.....(((((.(..((((...(((((....)))))))))..).)))))))))))))))))))---....(((.((....))..)))....)))). ( -30.20)
>DroSec_CAF1 6599 103 + 1
AAUCAAAUGCCCAUUCUAGCGAAUUGAACUUUGCAAUUAAGCCGCAAGUUCCAUCGAACUGGCUCUAAUGCGAAAUUCCUGGAUGGG---GUUCCCAAUAAAAU--------------GU
.........(((((.((((.(((((.....(((((.(..((((...(((((....)))))))))..).)))))))))))))))))))---..............--------------.. ( -27.90)
>DroEre_CAF1 6718 106 + 1
AUUCAAAUGCCCAUUCUAGCGAAUUGAACUUUGCAAUUAAGCAGCAAGUUCCAUCGAACUGGCUCUAAUGCGAAAUUCCUGAAUGGGGGAGUUCCUCAUAAAAU--------------GC
.........(((((((.((.(((((.....(((((.(((.(.(((.(((((....))))).))))))))))))))))))))))))))((....)).........--------------.. ( -27.70)
>consensus
AAUCAAAUGCCCAUUCUAGCGAAUUGAACUUUGCAAUUAAGCCGCAAGUUCCAUCGAACUGGCUCUAAUGCGAAAUUCCUGGAUGGG___GUUCCCAAUAAAAU______________GU
.........(((((((.((.(((((.....(((((.(..((((...(((((....)))))))))..).)))))))))))))))))))................................. (-25.22 = -25.33 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 2,193,678 – 2,193,795
Length 117
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 85.42
Mean single sequence MFE -29.30
Consensus MFE -23.70
Energy contribution -24.03
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.66
Structure conservation index 0.81
SVM decision value 0.03
SVM RNA-class probability 0.547528
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2193678 117 - 22224390
ACAAAAAGUCCAUGUCAUUUGAUUGGUAAC---CCCAUCCAGGAAUUUCGCAUUAGAGCCAGUUCGAUGGAACUUGCGGCUUAAUUGCAAAGUUCAAUUCGCUAGAAUGGGCAUUUGAUU
.((((..((((((.((..(((..(((....---.)))..)))((((((.(((...((((((((((....)))))...)))))...))).)))))).........)))))))).))))... ( -32.50)
>DroSec_CAF1 6599 103 - 1
AC--------------AUUUUAUUGGGAAC---CCCAUCCAGGAAUUUCGCAUUAGAGCCAGUUCGAUGGAACUUGCGGCUUAAUUGCAAAGUUCAAUUCGCUAGAAUGGGCAUUUGAUU
.(--------------((((((.((((...---)))).....((((((.(((...((((((((((....)))))...)))))...))).)))))).......)))))))........... ( -27.60)
>DroEre_CAF1 6718 106 - 1
GC--------------AUUUUAUGAGGAACUCCCCCAUUCAGGAAUUUCGCAUUAGAGCCAGUUCGAUGGAACUUGCUGCUUAAUUGCAAAGUUCAAUUCGCUAGAAUGGGCAUUUGAAU
..--------------.((..(((.((....))((((((((((((((..((.....(((.(((((....))))).)))((......))...))..))))).)).))))))))))..)).. ( -27.80)
>consensus
AC______________AUUUUAUUGGGAAC___CCCAUCCAGGAAUUUCGCAUUAGAGCCAGUUCGAUGGAACUUGCGGCUUAAUUGCAAAGUUCAAUUCGCUAGAAUGGGCAUUUGAUU
.................................(((......((((((.(((...((((((((((....)))))...)))))...))).)))))).((((....)))))))......... (-23.70 = -24.03 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:55 2006