Locus 4853

Sequence ID 3L_DroMel_CAF1
Location 13,594,176 – 13,594,292
Length 116
Max. P 0.594121
window7654

overview

Window 4

Location 13,594,176 – 13,594,292
Length 116
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 95.76
Mean single sequence MFE -18.59
Consensus MFE -18.17
Energy contribution -18.43
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.42
Structure conservation index 0.98
SVM decision value 0.12
SVM RNA-class probability 0.594121
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13594176 116 + 23771897
-CCAUCCCCAU-UCCCAUUCUCCAAC-CCAAUUCUCCAUUCUCCCCCAGCGACUCGACGCCAAACAAAAGCCAUUACGCUGAAACUUUUCAAUGAAGCGUUGCUCGUUGGCUUCUUUCG
-..........-..............-..................(((((((..((((((........(((......)))(((....)))......)))))).)))))))......... ( -19.30)
>DroSec_CAF1 1043 117 + 1
CCCAUCCCCGU-CCCCAUUCUCCAUC-CCAAUUCUCCAUUCUCCCCCAGCGACUCGACGCCAAACAAAAGCCAUUACGCUGAAACUUUUCAAUGAAGCGUUGCUCGUUGGCUUCUUUCG
...........-..............-..................(((((((..((((((........(((......)))(((....)))......)))))).)))))))......... ( -19.30)
>DroSim_CAF1 10400 117 + 1
UCCAUCCCCGU-CCCCAUUCUCCAUC-CCAAUUCUCCAUUCUCCCCCAGCGACUCGACGCCAAACAAAAGCCAUUACGCUGAAACUUUUCAAUGAAGCGUUGCUCGUUGGCUUCUUUCG
...........-..............-..................(((((((..((((((........(((......)))(((....)))......)))))).)))))))......... ( -19.30)
>DroYak_CAF1 7027 118 + 1
-CCAUCCCCAUUCUCCAUUCCCCAUCCCCAAUUCUCCAUUCUCCCCCAGCGACUCGUCGCCAAACAAAAGCCAUUACGCUGAAACUUUUCAAUGAAGCGUUGCUCGUUGGCUUCUUUCG
-...............................................((((....)))).......((((((..(((((...............))))).......))))))...... ( -16.46)
>consensus
_CCAUCCCCAU_CCCCAUUCUCCAUC_CCAAUUCUCCAUUCUCCCCCAGCGACUCGACGCCAAACAAAAGCCAUUACGCUGAAACUUUUCAAUGAAGCGUUGCUCGUUGGCUUCUUUCG
.............................................(((((((..((((((........(((......)))(((....)))......)))))).)))))))......... (-18.17 = -18.43 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:11 2006