Locus 6663

Sequence ID 3R_DroMel_CAF1
Location 17,526,591 – 17,526,709
Length 118
Max. P 0.856577
window10839

overview

Window 9

Location 17,526,591 – 17,526,709
Length 118
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 77.53
Mean single sequence MFE -22.11
Consensus MFE -19.94
Energy contribution -19.75
Covariance contribution -0.19
Combinations/Pair 1.20
Mean z-score -1.28
Structure conservation index 0.90
SVM decision value 0.81
SVM RNA-class probability 0.856577
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17526591 118 + 27905053
CCGAACCUUCAAGAUACUUCUCGGCACCAUACACAGCACACACACACCCACUGAUCUCAGCAGGGAGUACCACGCUUCAGGUUGCAGAUUUCGAGCACAAGCUCGGCCAAAAAUUAAU
......................(((...........................(((((((((..(((((.....)))))..)))).))))).(((((....)))))))).......... ( -26.70)
>DroSec_CAF1 35270 104 + 1
CCGAAUCUUCAAGACACUUCUC--------------CCCACACACACCCACCGAUCUCAGCAGGGAGUCCCACGCUUCAGGUUGCAGAUUUCGAGCCCAAGCUCGGCCAAAAAUUAAU
......................--------------................(((((((((..(((((.....)))))..)))).)))))((((((....))))))............ ( -20.60)
>DroSim_CAF1 36072 104 + 1
CCGAAUCUUCAAGACACUUCUC--------------CCCACACACACCCACCGAUCUCAGCAGGGAGUCCCACGCUUCAGGUUGCAGAUUUCGAGCCCAAGCUCGGCCAAAAAUUAAU
......................--------------................(((((((((..(((((.....)))))..)))).)))))((((((....))))))............ ( -20.60)
>DroEre_CAF1 35594 112 + 1
CCGAACCUUAAAGACACUGCUCCACACCAUACAC------CCCACACCCAACAAUCUCAGCAGGGAGUCCCACGCUUCAGGUUGGAGAUUUCGAGCACAAGCUCGGCCAAAAAUUAAU
((.(((((........(((((.............------..................)))))(((((.....)))))))))))).....((((((....))))))............ ( -21.88)
>DroYak_CAF1 30441 112 + 1
CCGAACCUUCAAGACACUUCUCCACACCAUACAC------CCCACACCCACCAGUCUCAGCAGGGAGUUCCACGCUUCAGGUUGAAGAUUUCGAGCACAAGCUCGGCCAAAAAUUAAU
..................................------............(((((((((..(((((.....)))))..)))).)))))((((((....))))))............ ( -20.70)
>DroAna_CAF1 35241 89 + 1
CCA-----------------------GCAGCCAC------CCCCCGCCCAUCACUCACAGCAGGGAGUCCCACGCUUCAGGUUGGAGAUACCAAGCUCAAGCUUGGCCAAAAAUUAAU
...-----------------------........------.............(((.((((..(((((.....)))))..)))))))...((((((....))))))............ ( -22.20)
>consensus
CCGAACCUUCAAGACACUUCUC____CCAUACAC______CACACACCCACCAAUCUCAGCAGGGAGUCCCACGCUUCAGGUUGCAGAUUUCGAGCACAAGCUCGGCCAAAAAUUAAU
....................................................(((((((((..(((((.....)))))..)))).)))))((((((....))))))............ (-19.94 = -19.75 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:03 2006