Locus 3439

Sequence ID 2R_DroMel_CAF1
Location 11,589,626 – 11,589,734
Length 108
Max. P 0.974183
window5612

overview

Window 2

Location 11,589,626 – 11,589,734
Length 108
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 77.45
Mean single sequence MFE -25.42
Consensus MFE -13.84
Energy contribution -14.40
Covariance contribution 0.56
Combinations/Pair 1.17
Mean z-score -2.37
Structure conservation index 0.54
SVM decision value 1.73
SVM RNA-class probability 0.974183
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11589626 108 + 20766785
UACGAAGCGAUGGUAUACGAACACACACACCCACACUCGCUGGCUGUUCCUUCUUUUCCAGGGACAUCUAUCUAUGUCCUGCCCAGCCUCAUGCUCAUCCUCCA------------ACCA
...(.((.((((((((.(((................)))..(((((..(...........(((((((......))))))))..)))))..)))).)))))).).------------.... ( -21.69)
>DroSec_CAF1 23203 103 + 1
UUCGCAGCGAUGGCACA----CACUCACACGCACACUCGCUGGCUGUUCCUUCUUUUCCAGGGACAUCUAUCUAUGUCCUGCCCAGCCUCG-GCUCAUCCUCCA------------ACCU
...(((((((((((...----.........)).)).)))))(((((..(...........(((((((......))))))))..)))))...-))..........------------.... ( -24.30)
>DroSim_CAF1 26480 104 + 1
UUCGCAGCGAUGGCACA----CACACACACACACACUCGCUGGCUGUGCCUUCUUCGCCAGGGACAUCUAUCUAUGUCCUGCCCAGGCUCGUGCUCAUCCUCCA------------ACCU
...(.((.((((((((.----......((((..((.....))..))))........(((.(((((((......))))))).....)))..)))).)))))).).------------.... ( -28.30)
>DroEre_CAF1 23869 104 + 1
UACGUAGCGUCGGCACA----CACACACACGCACACUCGCUGGCGGUUCCUUCUCCUCCAUGGACAUAUAUCUAUGUCCUGGCCAGCCUCCCGCUCAUCCCCCA------------ACCA
...(.((((..(((...----.........((......))((((((........))..((.(((((((....))))))))))))))))...)))))........------------.... ( -27.30)
>DroYak_CAF1 23993 106 + 1
UACGAAGCGUCGGCACA----CA----------CACUCGCUGGCGCUUCCUUCUUUUCCAGUCACAUAUAUCUAUGUCCUGGCCAGCCUCCUGCUUCUACUCCUGCUCCUACUUCUAGCC
...(((((((((((...----..----------.....)))))))))))........((((..(((((....))))).))))..(((.....)))......................... ( -25.50)
>consensus
UACGAAGCGAUGGCACA____CACACACACGCACACUCGCUGGCUGUUCCUUCUUUUCCAGGGACAUCUAUCUAUGUCCUGCCCAGCCUCCUGCUCAUCCUCCA____________ACCA
...(.((((..(((.........................((((..............))))((((((......))))))......)))...)))))........................ (-13.84 = -14.40 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:32 2006