Locus 3531

Sequence ID 2L_DroMel_CAF1
Location 10,307,179 – 10,307,284
Length 105
Max. P 0.654883
window5575

overview

Window 5

Location 10,307,179 – 10,307,284
Length 105
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 80.32
Mean single sequence MFE -35.12
Consensus MFE -20.61
Energy contribution -21.78
Covariance contribution 1.17
Combinations/Pair 1.30
Mean z-score -1.87
Structure conservation index 0.59
SVM decision value 0.25
SVM RNA-class probability 0.654883
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10307179 105 - 22407834
UCUUGGCGGUGAAGAUCUCGUCGCCACUGUAUUCCGCAUACAAGCAGGUGAGUGGCAACUGCUCGCUGACCAAGGGAGUUGUGUCGCUGAUCUGCAAUU--AUUGAA
...(((((..((.....))..))))).(((((.....))))).((((((.(((((((...((((.((.....)).))))..))))))).))))))....--...... ( -42.30)
>DroVir_CAF1 226 105 - 1
UCUUAUCGGUAAAGAUCUCGUCCCCAUUAUAUUCUUCCUGUAAACAAGUCAGCGGCAGUUGCUCACUCACGAGAGGAGUUGUAUCGCUGAUCUAAAACC--AUUUGA
.......(((................(((((.......)))))....((((((((.....((((.(((....)))))))....)))))))).....)))--...... ( -21.50)
>DroSim_CAF1 137 105 - 1
UCUUGGCGGUGAAGAUCUCGUCGCCACUGUACUCCGCGUACAAACAGGUGAGUGGCAACUGCUCGCUGAUCAAGGGAGUUGUGUCGCUGAUCUGUAAUU--UUUGAA
...(((((..((.....))..))))).(((((.....))))).((((((.(((((((...((((.((.....)).))))..))))))).))))))....--...... ( -42.10)
>DroEre_CAF1 1549 105 - 1
UCUUGGCGGUGAAGACCUCGUCGCCGCUGUACUCCGCAUACAAGCAGGUGAGUGGCAACUGAUCGCUGACCAACGGAGUCGUGUCGCUGAUCUGCAAUU--AUUGAA
....((((((((.(....).))))))))...............((((((.(((((((...(((..(((.....))).))).))))))).))))))....--...... ( -36.30)
>DroYak_CAF1 137 105 - 1
UCUUGGCGGUGAAGAUCUCGUCGCCACUGUACUCCGCAUACAAGCAGGUGAGUGGCAACUGCUCGCUGACCAACGGAGUCGUCUCGCUGAUCUGCAAUU--AUUGAA
...(((((..((.....))..)))))..(.(((((((......)).(((.((((((....)).)))).)))...)))))).....((......))....--...... ( -35.20)
>DroAna_CAF1 126 107 - 1
UUUUGGCAGUAAACACCUCAUCGCCAUUAUACUCAGCCCACAGGCACGUUAACGGCAACUGCUCGCUGACCAAAGGAGUGGUAUCGAUGAUCUGUGUUUGGGUUAAA
.((((((..(((((((.((((((((.(((.((...(((....)))..))))).))).((..(((.((......)))))..))...)))))...))))))).)))))) ( -33.30)
>consensus
UCUUGGCGGUGAAGAUCUCGUCGCCACUGUACUCCGCAUACAAGCAGGUGAGUGGCAACUGCUCGCUGACCAAAGGAGUUGUGUCGCUGAUCUGCAAUU__AUUGAA
...(((((((((.....))))))))).................((((((.((((...((.((((.((......)))))).))..)))).))))))............ (-20.61 = -21.78 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:44 2006