Locus 4820

Sequence ID 3R_DroMel_CAF1
Location 12,600,771 – 12,600,872
Length 101
Max. P 0.999077
window7900

overview

Window 0

Location 12,600,771 – 12,600,872
Length 101
Sequences 4
Columns 116
Reading direction reverse
Mean pairwise identity 63.88
Mean single sequence MFE -22.68
Consensus MFE -14.09
Energy contribution -14.15
Covariance contribution 0.06
Combinations/Pair 1.31
Mean z-score -2.27
Structure conservation index 0.62
SVM decision value 3.36
SVM RNA-class probability 0.999077
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12600771 101 - 27905053
CAAAUAGAUCUAUUAUUUCU-UUUUUUAGGGAAAAUAUUUCACCACGAUCGUUUACGAAGGCGCCUACAUUCUGUGCCUUCGCAAC--AG------AUCGAUUUGCGCUU------
(((((.((..((((.(..((-......))..).))))..))....(((((.....(((((((((.........)))))))))....--.)------))))))))).....------ ( -28.20)
>DroSec_CAF1 83352 90 - 1
CAAAUAGUUCUAAUAUUU------------------AUAUCACAACGAUCGUUUGCGAAGGCGGCUACAAUCUAUGCCUUCGUAAA--AU------AUCGAUUUACGCUUCGUCCA
..................------------------.........((((..((((((((((((...........))))))))))))--..------))))................ ( -20.80)
>DroSim_CAF1 83657 84 - 1
CAAAUAGUUCUAAUAUUU------------------AUAUCACAAUGAUCGUUUGCGAAGGCGGCUACAAUCUAUGCCUUCGUAAA--AU------AUCGAUUUACGCUU------
..................------------------.........((((..((((((((((((...........))))))))))))--..------))))..........------ ( -18.80)
>DroEre_CAF1 81971 102 - 1
CAAAUAGUUCUGAUGUUCAUAGUUUUGCGGGAAAAUUUUACACACCGAUCUCUUGUGAAGGCCGCUACUAUCCAUGCUUUCGCAAGGAGGCUCCAUUUCGAU--------------
...(((((..((.(.(((((((.....(((..............))).....))))))).).))..)))))....((((((....))))))...........-------------- ( -22.94)
>consensus
CAAAUAGUUCUAAUAUUU__________________AUAUCACAACGAUCGUUUGCGAAGGCGGCUACAAUCUAUGCCUUCGCAAA__AG______AUCGAUUUACGCUU______
.............................................((((..((((((((((((...........))))))))))))..........))))................ (-14.09 = -14.15 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:38 2006