Locus 10165

Sequence ID 3R_DroMel_CAF1
Location 27,296,801 – 27,296,910
Length 109
Max. P 0.500000
window16173

overview

Window 3

Location 27,296,801 – 27,296,910
Length 109
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.42
Mean single sequence MFE -27.38
Consensus MFE -20.66
Energy contribution -20.74
Covariance contribution 0.08
Combinations/Pair 1.16
Mean z-score -1.48
Structure conservation index 0.75
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27296801 109 + 27905053
AAGCAAAUAUAGCCAUAUGCAUAUA----UGUAUU----AUCCAA---CCGAUGGCCGAUUGCUUCCUGGGUUAUGACUUCUGCGGCUAAUGCCAAGAAUUAGUUGUGGAAAAAUUAACA
((((((.....((((((((((....----))))).----......---...)))))...)))))).....((((....(((..((((((((.......))))))))..)))....)))). ( -26.50)
>DroSec_CAF1 1870 109 + 1
AAGCAAAUAUAGCCAUAUGCAUAUA----UGCAUU----AUCCAA---CCGAUGGCCGAUUGCUUCCUGGGUUAUGACUUCUGCGGCUAAUGCCAAGAAUUAGUUGUGGAAAAAUUAACA
((((((.....((((((((((....----))))).----......---...)))))...)))))).....((((....(((..((((((((.......))))))))..)))....)))). ( -28.50)
>DroSim_CAF1 2278 109 + 1
AAGCAAAUAUAGCCAUAUGCAUAUA----UGCAUU----AUCCAA---CCGAUGGCCGAUUGCUUCCUGGGUUAUGACUUCUGCGGCUAAUGCCAAGAAUUAGUUGUGGAAAAAUUAACA
((((((.....((((((((((....----))))).----......---...)))))...)))))).....((((....(((..((((((((.......))))))))..)))....)))). ( -28.50)
>DroEre_CAF1 2003 109 + 1
AAGCAAAUAUAGCCAUAUGCAUACA----UGCAUU----AUCCAA---CCGAUUGCCGAUUGCUUCCUGGGUUAUGACUUCUGUGGCUAAUGCCAAGAAUUAGUUGUGGAAAAAUUAACA
.......(((((((....(((....----.(((..----(((...---..))))))....)))......)))))))..(((((..((((((.......))))))..)))))......... ( -23.20)
>DroAna_CAF1 2963 118 + 1
AAGACUCCAUUUCCAUAUGCAUAUCCACGGGUAUUUGCAAUCCAAGUGCCGAUUGC-UAUUGCUUCCUGGGUUAUGACUUCUGCGGCU-GUGCCAGGAAUUAGUUGUGGAAAAAUUAACA
.........((((((((..((((.((.((((.....((((((........))))))-........)))))).))))..((((..(((.-..))).)))).....))))))))........ ( -30.22)
>consensus
AAGCAAAUAUAGCCAUAUGCAUAUA____UGCAUU____AUCCAA___CCGAUGGCCGAUUGCUUCCUGGGUUAUGACUUCUGCGGCUAAUGCCAAGAAUUAGUUGUGGAAAAAUUAACA
.......(((((((..(((((........)))))....................((.....))......)))))))..(((..((((((((.......))))))))..)))......... (-20.66 = -20.74 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:50:15 2006