Locus 4045

Sequence ID 2R_DroMel_CAF1
Location 13,352,919 – 13,353,012
Length 93
Max. P 0.653244
window6519

overview

Window 9

Location 13,352,919 – 13,353,012
Length 93
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 84.99
Mean single sequence MFE -14.06
Consensus MFE -11.38
Energy contribution -11.58
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.61
Structure conservation index 0.81
SVM decision value 0.25
SVM RNA-class probability 0.653244
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13352919 93 + 20766785
CCCCCC-UCCACCUUUUGUGCCA----CCCCCUUGGUCAGCUGCCUUCCUGCAGCAGCUUCCAUCGCUCAAUUGCUGAUUUUUAAUUACAAAUGCAAA
......-.......((((((...----......(((..((((((.........)))))).)))..((......))...........))))))...... ( -15.40)
>DroSec_CAF1 52153 90 + 1
---CCC-CCCACCUUUUGUGCCA----CCCCCUUGGUCAGCUGCCUUCCUGCAGCAGCUUCCAUCGCUCAAUUGCUGAUUUUUAAUUACAAAUGCAAA
---...-.......((((((...----......(((..((((((.........)))))).)))..((......))...........))))))...... ( -15.40)
>DroSim_CAF1 54099 91 + 1
---CCCCCCCACCUUUUGUGCCA----CCCCCUUGGUCAGCUGCCUUCCUGCAGCAGCUUCCAUCGCUCAAUUGCUGAUUUUUAAUUACAAAUGCAAA
---...........((((((...----......(((..((((((.........)))))).)))..((......))...........))))))...... ( -15.40)
>DroEre_CAF1 52732 71 + 1
---------------------------CCCCCUUGGCCACCUGCCUUCCUGCAGCAGCUUCCAUCGCUCAAUUGCUGAUUUUUAAUUACAAAUGCAAA
---------------------------.......(((.....)))....((((.((((...............))))...............)))).. (  -9.25)
>DroYak_CAF1 53498 88 + 1
----CU-UCCA-----UGUGCCACCACCCCCCCUGGUCAGCUGCCUUCCUGCAGCAGCUUCCAUCGCUCAAUUGCUGAUUUUUAAUUACAAAUGCAAA
----..-....-----((.((.((((.......))))..(((((......)))))..........)).)).((((..................)))). ( -14.87)
>consensus
___CCC_CCCACCUUUUGUGCCA____CCCCCUUGGUCAGCUGCCUUCCUGCAGCAGCUUCCAUCGCUCAAUUGCUGAUUUUUAAUUACAAAUGCAAA
.................................(((..((((((.........)))))).)))..((....(((.((((.....)))))))..))... (-11.38 = -11.58 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:23 2006