Locus 5143

Sequence ID 3R_DroMel_CAF1
Location 13,530,616 – 13,530,729
Length 113
Max. P 0.647187
window8393

overview

Window 3

Location 13,530,616 – 13,530,729
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.65
Mean single sequence MFE -37.32
Consensus MFE -28.02
Energy contribution -29.64
Covariance contribution 1.62
Combinations/Pair 1.03
Mean z-score -1.69
Structure conservation index 0.75
SVM decision value 0.24
SVM RNA-class probability 0.647187
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13530616 113 + 27905053
ACCGUGUGCAC-UGCACCACAGACAAUUUCGGCUGGCAUUAAAUGAAUGCAGCAGUUGUGUGCUGCUGGC------GGCUGGCUGGCCCGCAAAUUUCAGAUGCUGAUAGGCAUACAGAU
...((((((.(-((((...(((.(......).)))(((((...((((..(((((((.....)))))))((------((((....)).))))....))))))))))).))))))))).... ( -37.30)
>DroSec_CAF1 5308 118 + 1
-ACGUGUGCACUUGCACCACAGACAAUUUCGGCUGGCAUUAAAUGAAUGCAGCAGUUGUGUGCUGCUGGCUGGU-UGGCUAGCUGGCCCGCAAAUUUCAGAUGCUGAUAGGCAUACAGAU
-..((((((..((((....((.(((((....((((.((((.....)))))))).))))).))..((..(((((.-...)))))..))..))))...((((...))))...)))))).... ( -41.60)
>DroSim_CAF1 5790 119 + 1
ACCGUGUGCAC-UGCACCACAGACAAUUUCGGAUGGCAUUAAAUGAAUGCAGCAGUUGUGUGCUGCUGGCUGGUAUGUGUAGCUGGCCCGCAAAUUUCAGAUGCUGAUAGGCAUACAGAU
...((((((.(-((((...((..(......)..))(((((...(((((((((((((.....))))))(((..((.......))..))).)))...))))))))))).))))))))).... ( -37.80)
>DroEre_CAF1 5266 103 + 1
ACCGUGUGCAC-UGCACCACAGACAAUUUCGGCUGGCAUUAAAUGAAUGCAGCAGUUGUGUGCUG----------------GCUGGCCCGCAAAUUUCAGAUGCGGAUAGGCAUACAGAU
...((((((.(-(((((((((.(((((....((((.((((.....)))))))).))))).)).))----------------).))..(((((.........))))).))))))))).... ( -35.20)
>DroYak_CAF1 6043 103 + 1
ACCGUGUGCAC-UGCACCACAGACAAUUUCGGCUGGCAUUAAAUGAAUGCAGCCAUUGUGUGCUG----------------GCUGGCCCGCAAAUUUGAGAUGCUGAUAGGCAUACAGAU
...((((((.(-((.....(((...((((((((((.((((.....))))))))).(((((.(((.----------------...))).)))))....))))).))).))))))))).... ( -34.70)
>consensus
ACCGUGUGCAC_UGCACCACAGACAAUUUCGGCUGGCAUUAAAUGAAUGCAGCAGUUGUGUGCUGCUGGC______G__U_GCUGGCCCGCAAAUUUCAGAUGCUGAUAGGCAUACAGAU
...((((((....(((.(.............((((.((((.....))))))))..(((((.((((((((((.....))))))).))).)))))......).)))......)))))).... (-28.02 = -29.64 +   1.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:26 2006