Locus 7122

Sequence ID 2L_DroMel_CAF1
Location 19,972,864 – 19,972,970
Length 106
Max. P 0.539571
window11365

overview

Window 5

Location 19,972,864 – 19,972,970
Length 106
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 88.28
Mean single sequence MFE -34.50
Consensus MFE -27.62
Energy contribution -27.82
Covariance contribution 0.20
Combinations/Pair 1.07
Mean z-score -1.42
Structure conservation index 0.80
SVM decision value 0.01
SVM RNA-class probability 0.539571
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19972864 106 - 22407834
---------GCCCAGCCC-----AGACCGCGCUGCAGAUAAAUGUAUCUACGUGCCUGCAUGUGGGGAUCUGGAGGCCAUUGUUUGGCACAAAAGGCUCCAAAACAAUCGGUGGAAAGUA
---------(((....((-----(((((.((((((((....((((....))))..))))).))).)).)))))..((((.....))))......)))((((...(....).))))..... ( -37.10)
>DroSec_CAF1 155734 106 - 1
---------GCCCAGCCC-----AGACCACGCUGCAGAUAAAUGUAUCUACGUGCCUGCAUGUGGGGAUUUGGAUGCCAUUGUUUGGCACAAAAGGCUCCAAAACAAUCGGUGGAAAGUA
---------(((....((-----(((((.((((((((....((((....))))..))))).))).)).))))).(((((.....))))).....)))((((...(....).))))..... ( -33.10)
>DroSim_CAF1 158271 106 - 1
---------GCCCAGCCC-----AGACCGCGCUGCAGAUAAAUGUAUCUACGUGCCUGCAUGUGGGGAUCUGGAUGCCAUUGUUUGGCACAAAAGGCUCCAAAACAAUCGGUGGAAAGUA
---------(((....((-----(((((.((((((((....((((....))))..))))).))).)).))))).(((((.....))))).....)))((((...(....).))))..... ( -37.80)
>DroEre_CAF1 153872 120 - 1
CAGUUCGCAGCCCAGCCCAACGCAGACCACUCUGCAGAUAAAUGUAUCUACGUGCCUGCAUGCAGAGAUAUGGAUGCCAUUGUUCUGCACAAAAGGCUCCAAAACAAUCGGUGGAAAGUA
...........(((.((..(((((((....)))))(((((....)))))..))((((...(((((((..((((...))))..)))))))....))))............)))))...... ( -31.80)
>DroYak_CAF1 154764 115 - 1
GAGUGCGCUGCCCAGCCC-----AGGCCACUCUGCAGAUAAAUGUAUCUACGUGCCUGCAAGUGGAGAUCUGGAUGCCAUUGUUCUGCACAAAAGGCUCCAAAACAAUCGGUGGAAAGUA
......(((..(((.((.-----...(((((.(((((....((((....))))..)))))))))).....((((.(((.((((.....))))..)))))))........)))))..))). ( -32.70)
>consensus
_________GCCCAGCCC_____AGACCACGCUGCAGAUAAAUGUAUCUACGUGCCUGCAUGUGGGGAUCUGGAUGCCAUUGUUUGGCACAAAAGGCUCCAAAACAAUCGGUGGAAAGUA
...........(((.((.........(((((.(((((....((((....))))..)))))))))).....((((.(((.((((.....))))..)))))))........)))))...... (-27.62 = -27.82 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:56 2006