Locus 4690

Sequence ID 3R_DroMel_CAF1
Location 12,342,144 – 12,342,261
Length 117
Max. P 0.916196
window7703

overview

Window 3

Location 12,342,144 – 12,342,261
Length 117
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 95.90
Mean single sequence MFE -32.48
Consensus MFE -25.48
Energy contribution -26.72
Covariance contribution 1.24
Combinations/Pair 1.03
Mean z-score -2.48
Structure conservation index 0.78
SVM decision value 1.11
SVM RNA-class probability 0.916196
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12342144 117 + 27905053
UAAAUUUAUUUCCCAGCGGAGUGUGAUUUUACUGCGGAAACUGCAGCGAAACCAGCUGAAAGUUGAGCGCUUUGCACUUCUCAUUUUUUAUGAGCAUUCUAAAUUUUAGCAUUCGAA
.(((((((.......(((((((((..(((..(((((....).))))..))).((((.....)))).)))))))))....(((((.....))))).....)))))))........... ( -29.40)
>DroSec_CAF1 10928 117 + 1
UAAAUUUAUUUCCCAGCGGAGUGUGAUUUUACUGCGGCAACUGCAGCGAAACCAGCUGAAAGUUGGGCGCUUUGCACAUCUCAUUUUUUAUGAGCAUUCUAAAUUUUAGCAUUCGAA
.(((((((.......(((((((((..(((..(((((....).))))..)))(((((.....))))))))))))))....(((((.....))))).....)))))))........... ( -32.70)
>DroSim_CAF1 10047 117 + 1
UAAAUUUAUUUCCCAGCGGAGUGUGAUUUUACUGCGGCAACUGCAGCGAAACCAGCUGAAAGUUGGACGCUUUGCACAUCUCAUUUUUUAUGAGCAUUCUAAAUUUUAGCAUUCGAA
.(((((((.......(((((((((..(((..(((((....).))))..)))(((((.....))))))))))))))....(((((.....))))).....)))))))........... ( -32.20)
>DroEre_CAF1 10721 117 + 1
UAAAUUCAUUUCCCAGCGGAAUGUGAUUUUACUGCGGAAACUGCAGCGAAAACAGCUCAAAGUUGGGCGCUUUGGACAUCUCAUUUUUUAUGAGAAUUCUAAAUUUUAGCAUUCGAA
((((.((((((((....)))).)))).))))(((((....).))))((((....(((((....)))))((((((((..((((((.....))))))..))))).....))).)))).. ( -33.20)
>DroYak_CAF1 6719 117 + 1
UAAAUUCAUUUCCCAGCGGAGUGUGAUUUUACUGCGGAAACUGCAGCGAAACCAGCUCAAAGUUGGGCGCUUUGGACAUCUCAUUUUUUAUGAGCAUUCUAAAUUUUAGCAUUCGAA
....(((....((((((.((((.((.(((..(((((....).))))..))).))))))...)))))).((((((((...(((((.....)))))...))))).....)))....))) ( -34.90)
>consensus
UAAAUUUAUUUCCCAGCGGAGUGUGAUUUUACUGCGGAAACUGCAGCGAAACCAGCUGAAAGUUGGGCGCUUUGCACAUCUCAUUUUUUAUGAGCAUUCUAAAUUUUAGCAUUCGAA
.(((((((.......(((((((((..(((..(((((....).))))..)))(((((.....))))))))))))))....(((((.....))))).....)))))))........... (-25.48 = -26.72 +   1.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:34 2006