Locus 2143

Sequence ID X_DroMel_CAF1
Location 5,808,815 – 5,808,929
Length 114
Max. P 0.654069
window3477

overview

Window 7

Location 5,808,815 – 5,808,929
Length 114
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 82.63
Mean single sequence MFE -43.42
Consensus MFE -30.15
Energy contribution -31.32
Covariance contribution 1.17
Combinations/Pair 1.26
Mean z-score -1.86
Structure conservation index 0.69
SVM decision value 0.25
SVM RNA-class probability 0.654069
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5808815 114 + 22224390
GCCACUAGGAGGAGCACCUGAUCUCCACUGGGUUUCAAAAGGUGCAGCUGUAGAAAAGCACCUGGCAGCGAGAACUCCUGGAGGGGCUCAAAGCUCACCUGUGUGGCUGGAUCU
(((((((((..((((...(((.((((.(..((((((...((((((............))))))......))))...))..).)))).)))..)))).)))).)))))....... ( -43.10)
>DroGri_CAF1 20559 108 + 1
GCCAGCAAGAGCAGGACCUGUUCGGGAUUGGGUUUGAGCAGGUGCAGCUGCUGCAGCUUUGCAGCCAGUGCGAACUCUUGUAUGGGCUCAAAGUGCAGCUGUAUGCC------A
....(((..(((.(.(((((((((((......))))))))))).).)))((((((.(((((.((((.((((((....)))))).)))))))))))))))....))).------. ( -48.50)
>DroSec_CAF1 14340 114 + 1
GCCACUAGAAGGAGCACCUGAUCUCCACUGGGUUUCAGAAGGUGCAGCUGUAGGAAAGCACCUGGCAGAGAGAACUCCUGCAGGGGCUCAAAGCUCAGCUGUGUGGCUGGAUCU
((((((((...((((...(((.((((.(((.....))).((((((..(.....)...)))))).((((.((....)))))).)))).)))..))))..))).)))))....... ( -42.40)
>DroSim_CAF1 14836 114 + 1
GCCACUAGGAGGAGCACCUGAUCUCCAUUGGGUUUCAGAAGGUGCAGCUGUAGGAAAGCACCUGGCAGCGAAAACUCCUGCAGGGGCUCAAAGCUCAGCUGUGUGGCUGGAUCU
(((((.(((((..((((((.....((....)).......)))))).((((((((......))).))))).....)))))((((((((.....))))..)))))))))....... ( -45.50)
>DroEre_CAF1 13973 114 + 1
GCCACCAGGAGGAGCACCUGAUCGCCACUGGGUUUCAGAAGGUGCAGCUGAAUGAAACCUCCUGGCAGCGAAAACUCCUGCAGAGGCUCGAAGCUCAGCUGUGUGGCGGGAUCU
((((((((...((((........((((..((((((((...((.....))...))))))))..))))..(((...(((.....)))..)))..))))..))).)))))....... ( -44.50)
>DroYak_CAF1 14647 114 + 1
GCCACCAGAAGGAGCACCUGAUCGCCACUGGGUUUCAGAAGGUGCAGCUGAAGGAAAGCUCCUGGUAACGAAAACUCCUGCAAAGGCUCAAAGCUCAGCUGUGUGGCGGGAUCU
((((((((...((((..((((..(((....))).))))....(((((..(.((((....))))(....).....)..)))))..........))))..))).)))))....... ( -36.50)
>consensus
GCCACCAGGAGGAGCACCUGAUCGCCACUGGGUUUCAGAAGGUGCAGCUGUAGGAAAGCACCUGGCAGCGAAAACUCCUGCAGGGGCUCAAAGCUCAGCUGUGUGGCUGGAUCU
(((((((((((..((((((.....((....)).......)))))).((((((((......)))).)))).....))))))...((((.....))))......)))))....... (-30.15 = -31.32 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:13 2006