Locus 4348

Sequence ID 3L_DroMel_CAF1
Location 12,770,527 – 12,770,637
Length 110
Max. P 0.599176
window6730

overview

Window 0

Location 12,770,527 – 12,770,637
Length 110
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 86.45
Mean single sequence MFE -22.71
Consensus MFE -18.54
Energy contribution -19.46
Covariance contribution 0.92
Combinations/Pair 1.05
Mean z-score -1.51
Structure conservation index 0.82
SVM decision value 0.13
SVM RNA-class probability 0.599176
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12770527 110 + 23771897
CGUGUGGCCACAACAAUGUGGCGUUUUUAGGCAAACUUA-AACAAAACAAAAAGCCCAAAGUUUUCGUUUCGAUUAGAACUAUUUUGCAAACACACUACCUUGAACACAAA
.(((((((((((....))))))........(((((....-..........(((((.....))))).((((......))))...)))))...)))))............... ( -22.30)
>DroSec_CAF1 12444 97 + 1
CGUGUGGCCACAACAAUGUGGCGUUUUUAAGCAAACUCA-AACAAAACAAAAAGCCCAAAGUUUUCGUUUCGAUUAGAACUAUUUUGGAAACACCCUA-------------
.((((.((((((....)))))).................-...............(((((((.(((..........)))..)))))))..))))....------------- ( -19.80)
>DroSim_CAF1 11848 110 + 1
CGUGUGGCCACAACAAUGUGGCGUUUUUAGGCAAACUUA-AACCAAACAAUAAGCCCAAAGUUUUCGUUUCGAUUAGAACUAUUUUGGAAACACCCUGCCUUGAACUCAAA
......((((((....))))))((((..(((((..((((-..........)))).(((((((.(((..........)))..)))))))........))))).))))..... ( -25.20)
>DroEre_CAF1 11266 104 + 1
CGUGUGGCCACAACAAUGUGGCGUUUUAAGGCAAACUCGCAACAAAACA-AAAGCCCAAAGUUUUCGUUUCGAUUAGAACUAUUUUGGAAACAGGCUAGCUUGAG------
......((((((....))))))(((((...((......))...))))).-..((((...((((((.((....)).))))))....((....))))))........------ ( -24.60)
>DroYak_CAF1 11122 110 + 1
CGUGUGGCCACAACAGUGUGGCGUUUUAAGGCAAACUCACAACAAAACA-AAAGCCCACAGUUUUCAUUUCGAUUAGAACUAUUUUGGAAACACGCUACCUUGAAUCUAAA
.(((((((((((....))))))((((((((((.................-...)))........((.....)))))))))...........)))))............... ( -21.65)
>consensus
CGUGUGGCCACAACAAUGUGGCGUUUUUAGGCAAACUCA_AACAAAACAAAAAGCCCAAAGUUUUCGUUUCGAUUAGAACUAUUUUGGAAACACCCUACCUUGAA___AAA
.(((((((((((....)))))).................................(((((((.(((..........)))..)))))))...)))))............... (-18.54 = -19.46 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:14 2006