Locus 348

Sequence ID X_DroMel_CAF1
Location 1,074,796 – 1,074,904
Length 108
Max. P 0.726119
window528

overview

Window 8

Location 1,074,796 – 1,074,904
Length 108
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 74.09
Mean single sequence MFE -29.08
Consensus MFE -11.10
Energy contribution -12.34
Covariance contribution 1.24
Combinations/Pair 1.06
Mean z-score -1.85
Structure conservation index 0.38
SVM decision value 0.41
SVM RNA-class probability 0.726119
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1074796 108 - 22224390
AAAAGCGAAGACACAGUCGGCGAAAGAUGACUAGGUGCUCCU---GA---ACAUUUCCAAACGAGUUUUCGUUCAAAUAUUCCCGGGAAUCUAAGUCCGUCUUUGUCUCGGCUU
..((((..(((((.((.((((...((((..(..((......(---((---((..(((.....))).....)))))......))..)..))))..).))).)).)))))..)))) ( -29.00)
>DroSec_CAF1 8498 111 - 1
AAAAGCGAAGACACAGUCGGCGAAAGGUGACUAGGUGCUUCUUUUCU---AUACUCGGAAACGAGUUUUCGUUCAAAUAUUCCCGAGAAUCUANNNNNNNNNNNNNNNNNNNNN
......((((.((((((((.(....).)))))..)))))))......---..(((((....)))))(((((............))))).......................... ( -26.40)
>DroSim_CAF1 5249 108 - 1
AAAAGCGAAGACGCAGUCGGCGAAAGGUGACUAGGUGCUCGU---GA---ACAUUUCCAAACGAGUUUUCGUUCAAAUAUUCCCGAGAAUCUAAGUCCGUCUUUGUCUCAGCUU
....(((((((((..((((.(....).))))(((((.((((.---((---(.((((...((((......)))).)))).))).)))).)))))....)))))))))........ ( -33.80)
>DroEre_CAF1 15460 111 - 1
CAAAGCGAAGACACAGUCGGCGACAGAUAACUAGGUGCUCCC---GAAACGAGUUUUAAAACGAGUUUUCAUUCGAAUAUACCCGAGAGUCUAAGUCCGUCUCUGUCUCGCUUU
.(((((((.((((.((.((((...((((.....(((((((..---.....)))).......(((((....))))).....))).....))))..).))).)).))))))))))) ( -30.10)
>DroYak_CAF1 7890 94 - 1
CAAAGCGCAGACACACUCGGCGAAAGAUAACUAGGUGCUCCU---GA---GCAUUUUCAAACGAGUUCUCGUUUGAAUAUUCCCGAGAAUCCAAGUCCGU--------------
......((.(((...(((((.(((.........((((((...---.)---)))))(((((((((....)))))))))..)))))))).......))).))-------------- ( -26.10)
>consensus
AAAAGCGAAGACACAGUCGGCGAAAGAUGACUAGGUGCUCCU___GA___ACAUUUCCAAACGAGUUUUCGUUCAAAUAUUCCCGAGAAUCUAAGUCCGUCU_UGUCUC___UU
...(((((((((..(((((.(....).))))).((....)).......................)))))))))......................................... (-11.10 = -12.34 +   1.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:19 2006