Locus 4568

Sequence ID X_DroMel_CAF1
Location 11,993,881 – 11,994,001
Length 120
Max. P 0.539206
window7510

overview

Window 0

Location 11,993,881 – 11,994,001
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 77.92
Mean single sequence MFE -24.52
Consensus MFE -12.81
Energy contribution -16.30
Covariance contribution 3.49
Combinations/Pair 1.03
Mean z-score -1.79
Structure conservation index 0.52
SVM decision value 0.01
SVM RNA-class probability 0.539206
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11993881 120 - 22224390
AAAACAAGCAAACGUAUUGAUAGCGAUGCUGCCGAAAUUGCUGGCAAGCCAUUAGAGCCAACGCAAAAUGGUCAAUUAUCAACAGUAUCAGUGGAAAUUGGCCAAGCAUAAGUUUGGAAA
....(((((....((((((....))))))(((.....((((((((...........))))..))))..(((((((((.((.((.......)).))))))))))).)))...))))).... ( -30.40)
>DroSec_CAF1 32987 114 - 1
AAAACAAGCAAACGUAUUGAUAGUCAUGCUGCCAAAAUUGCUGGCAAGCCAUUAGAG------CAAAAUGGUCAAUUAUCAACAGUAUCAGUGGAAAUUGGCCAAGCAUAAGUUUGGAAA
...........((...((((((((.....(((((.......))))).((((((....------...))))))..))))))))..)).(((((....)))))((((((....))))))... ( -26.00)
>DroSim_CAF1 34237 120 - 1
NNNNNNNNNNNNNNNNUUGAUAGCCAUGCUGCCAAAAUUGCUGGCAAGCCAUUAGAGCCAACGCAAAAUGGUCAAUUAUCAACAGUAUCAGUGGAAAUUGGCCAAGCAUAAGUUUGGAAA
................((((((((((.((..........))))))..((((((...((....))..))))))....)))))).....(((((....)))))((((((....))))))... ( -26.90)
>DroEre_CAF1 31816 119 - 1
AAAACAAGUAAACGUAUUGAUAGCCAUGCUGCCGAAUUUCUUGGCAAGCCAUUAGAGCCAACGCAA-AUGGUCAAUUAUCAACAGUAUCAGUGGAAAUUGGGCAAGCAUAAGUUUGAAAA
........(((((....((...(((((((((((((.....)))))..((((((...((....)).)-)))))...........)))))((((....)))))))...))...))))).... ( -25.30)
>DroYak_CAF1 33032 93 - 1
AACACAA---------------------------AAACUACUAGCAUGCCAUUAGAACCAACGCAAAAUGGUCAAUUAUCAACAGUAUCAGUGAAAAUUGGGCUAGCAUAAGUUCAAAAA
.......---------------------------.((((.(((((..((((((.............))))))...............(((((....))))))))))....))))...... ( -14.02)
>consensus
AAAACAAG_AAACGUAUUGAUAGCCAUGCUGCCAAAAUUGCUGGCAAGCCAUUAGAGCCAACGCAAAAUGGUCAAUUAUCAACAGUAUCAGUGGAAAUUGGCCAAGCAUAAGUUUGGAAA
................(((((((......(((((.......))))).((((((...((....))..))))))...))))))).....(((((....)))))((((((....))))))... (-12.81 = -16.30 +   3.49)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:20 2006