Locus 6460

Sequence ID 3R_DroMel_CAF1
Location 16,966,590 – 16,966,698
Length 108
Max. P 0.534102
window10522

overview

Window 2

Location 16,966,590 – 16,966,698
Length 108
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 88.56
Mean single sequence MFE -24.18
Consensus MFE -17.32
Energy contribution -17.84
Covariance contribution 0.52
Combinations/Pair 1.19
Mean z-score -1.69
Structure conservation index 0.72
SVM decision value 0.00
SVM RNA-class probability 0.534102
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16966590 108 + 27905053
GAACGCAUGUUUCGAGUUUCGGAACGGAACGGAAGGAAACACAAACGCGAAAUUAAGCGAAAGUUGGAAAAAGGAUAUGCCCAGUAUUAGCGGGAAAAUGCAAUAAAA
....((((.((((..((((((...))))))....(....).....(((.......(((....))).......((......)).......))))))).))))....... ( -22.90)
>DroSec_CAF1 2031 108 + 1
AAACGCAUGUUUCGAGUUUCGGAACGGAACGGAAGAAGACACAACCGCGCAAUUAAGCGAAAGUUGCAAAAAGGAUAUGCCCAGUAGUAGCGGGAAAAUGCAAUAAAA
....((((((((((.....))))))....(....).........((((((((((.......)))))).....((......)).......))))....))))....... ( -26.30)
>DroSim_CAF1 2053 108 + 1
AAACGCAUGUUUCGAGUUUCGGAACGGAACGGAAGAAGACACAACCGCGCAAUUAAGCGAAAGUUGCAAAAAGGAUAUGCCCAGUAGUAGCGGGAAAAUGCAAUAAAA
....((((((((((.....))))))....(....).........((((((((((.......)))))).....((......)).......))))....))))....... ( -26.30)
>DroEre_CAF1 2065 102 + 1
GAGCGUGAUUUUCGAUUUUCGGAACGGA-----AGGA-ACACAACCGCGCAUUUAACCGAAAGUUGCAAAAAGGAUAUGCCCAGUAGUAGCGGGAAAAUGCAAUAAAA
..(((((..(((((.....)))))(...-----.)..-.)))..(((((((......(....).))).....((......)).......))))......))....... ( -21.80)
>DroYak_CAF1 2079 103 + 1
AAACGCGAGCUUUGAGUUUCGGAACGGA-----AGGAAACGCAAUCGCGCAAUUAACCGAAAGUUGCAAAAAGGAUAUGCCCUGUAGUAGCGGGAAAAUGCAAUAAAA
....((((...(((.(((((....(...-----.)))))).)))))))(((.((..((....(((((....(((......)))...)))))))..)).)))....... ( -23.60)
>consensus
AAACGCAUGUUUCGAGUUUCGGAACGGAACGGAAGGAAACACAACCGCGCAAUUAAGCGAAAGUUGCAAAAAGGAUAUGCCCAGUAGUAGCGGGAAAAUGCAAUAAAA
....(((.((((((.....))))))...................((((((((((.......)))))).....((......)).......)))).....)))....... (-17.32 = -17.84 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:01 2006