Locus 3283

Sequence ID X_DroMel_CAF1
Location 8,729,465 – 8,729,559
Length 94
Max. P 0.709220
window5378

overview

Window 8

Location 8,729,465 – 8,729,559
Length 94
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 70.77
Mean single sequence MFE -14.67
Consensus MFE -6.06
Energy contribution -6.38
Covariance contribution 0.32
Combinations/Pair 1.23
Mean z-score -1.79
Structure conservation index 0.41
SVM decision value 0.37
SVM RNA-class probability 0.709220
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8729465 94 - 22224390
GCCCAAACAAAAGAACUAAUUGUUCUUGUGAGUUGGCAGUUUCAAAAAAAAAAAAAAAAAUGGGGGGGAACU--AAA-AAAACAGACAUGA-CAGAAA
(((.(..((.((((((.....)))))).))..).)))((((((.......................))))))--...-.............-...... ( -14.20)
>DroVir_CAF1 13077 89 - 1
UG--------CACAACUAAUUGUUGUUAUAUGUUGGCAAUUAAACCAAUCAUAAAGUGACUGAGGCGCAAAUGUCAAAAAAGAAAACAUUCGAC-UAU
((--------(....((....((..((.((((((((........)))).)))).))..))..))..)))...(((................)))-... ( -12.69)
>DroSim_CAF1 10351 88 - 1
CCCCAAACAAAAGAACUAAUUGUUCUUGUGAGUUGGCAGUUUCAAAAAAAAAAAAAA-----GGGGGGAACU--AAA--AAACAGACAUGA-CAGAAA
((((......((((((.....)))))).((((........)))).............-----))))......--...--............-...... ( -15.00)
>DroEre_CAF1 10008 84 - 1
CCCCACACAAAAGAACUAAUUGUUCUUGUGAGUUGGCAGUUUCACAAAAAAAAAG---------AAGGAACU--AAA--AAGCAGACAUGA-CAGAAU
.....((((..(((((.....))))))))).(((.((((((((............---------..))))))--...--..)).)))....-...... ( -14.04)
>DroYak_CAF1 10377 83 - 1
CGCCACACAAAAGAACUAAUUGUUCUUGUGAGUUGGCAGUUUCACAAUA-AAAAG---------AGGGAACU--AAA--AAGCAGACAUGA-CAGAAA
.(((((.((.((((((.....)))))).)).).))))((((((.(....-....)---------..))))))--...--............-...... ( -17.40)
>consensus
CCCCAAACAAAAGAACUAAUUGUUCUUGUGAGUUGGCAGUUUCACAAAAAAAAAA________GGGGGAACU__AAA__AAGCAGACAUGA_CAGAAA
.(((......((((((.....)))))).((((........)))).....................))).............................. ( -6.06 =  -6.38 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:33 2006