Locus 2187

Sequence ID 3L_DroMel_CAF1
Location 5,968,567 – 5,968,660
Length 93
Max. P 0.757899
window3389

overview

Window 9

Location 5,968,567 – 5,968,660
Length 93
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 81.03
Mean single sequence MFE -25.10
Consensus MFE -17.47
Energy contribution -17.72
Covariance contribution 0.25
Combinations/Pair 1.05
Mean z-score -1.73
Structure conservation index 0.70
SVM decision value 0.49
SVM RNA-class probability 0.757899
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5968567 93 + 23771897
AUUUCC------------AAUUCCAUUCCUAUUCCCAUUUCGACCGGUUGA-----AGUGGCACCCGCAGUGCGUGUUUGUAUUGCUUUUGAAUCGAAACUCGAUUGCGA
......------------................(((((((((....))))-----))))).....((((((((....))))))))..((((((((.....))))).))) ( -23.70)
>DroPse_CAF1 34770 92 + 1
AUUUUC------------AUUUCGAGUCCCAUUUCCAUUU-GUAUGGGUGA-----AGUGGCACCCGCAGUGCGUGUUUGUAUUGCUUUUGAAUUGAAACUCGAUUGCGA
......------------...((((((..((.(((.....-....(((((.-----.....)))))((((((((....))))))))....))).))..))))))...... ( -28.70)
>DroEre_CAF1 26689 92 + 1
AUUUUC------------AAUUCCAUUCCUAUUC-CAUUUCGACCGGGUGA-----AGUGGCACCCGCAGUGCGUGUUUGUAUUGCUUUUGAAUCGAAACUCGAUUGCGA
......------------................-..((((((..(((((.-----.....)))))((((((((....)))))))).......)))))).(((....))) ( -23.30)
>DroYak_CAF1 28422 110 + 1
AUUUUCAUUUUCAAUUCCAAUUCCAUUGCUAUUCCCAUUUCAAACGGGUGAAGUGAAGUGGCACCCGCAGUGCGUGUUUGUAUUGCUUUUGAAUCGAGACUCGAUUGCGA
..((((...(((((............(((((((..(((((((......))))))).)))))))...((((((((....))))))))..)))))..)))).(((....))) ( -26.40)
>DroAna_CAF1 27086 80 + 1
AUUUCG------------AAUUCCAAUU-------------GUUUGUCUGA-----AGUGGCACCCGCAGUGCGUGUUUGUAUUGCUUUUGAAUUGAAACUCGAUUGCGA
...(((------------(.((.(((((-------------(..((((...-----...))))..)((((((((....)))))))).....))))).)).))))...... ( -19.80)
>DroPer_CAF1 38625 92 + 1
AUUUUC------------AUUUCGAGUCCCAUUUCCAUUU-GUAUGGGUGA-----AGUGGCACCCGCAGUGCGUGUUUGUAUUGCUUUUGAAUUGAAACUCGAUUGCGA
......------------...((((((..((.(((.....-....(((((.-----.....)))))((((((((....))))))))....))).))..))))))...... ( -28.70)
>consensus
AUUUUC____________AAUUCCAUUCCUAUUCCCAUUU_GAACGGGUGA_____AGUGGCACCCGCAGUGCGUGUUUGUAUUGCUUUUGAAUCGAAACUCGAUUGCGA
.............................................(((((...........)))))((((((((....))))))))..((((((((.....))))).))) (-17.47 = -17.72 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:20 2006