Locus 6875

Sequence ID X_DroMel_CAF1
Location 17,176,964 – 17,177,056
Length 92
Max. P 0.840664
window11249

overview

Window 9

Location 17,176,964 – 17,177,056
Length 92
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 74.80
Mean single sequence MFE -18.78
Consensus MFE -11.27
Energy contribution -10.77
Covariance contribution -0.50
Combinations/Pair 1.27
Mean z-score -1.63
Structure conservation index 0.60
SVM decision value 0.75
SVM RNA-class probability 0.840664
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17176964 92 - 22224390
CCAGUUUUGUUUUCAUUUGCGGCCAACAUAAGUGACCAAUUUUAUGUGUCAUUAAAAUUGGACGCG-CUACC-----UUCGCCUACCUUCGUUUGCCU----
...((..((....))...))(((.(((....(((.(((((((((........))))))))).)))(-(....-----...))........))).))).---- ( -19.60)
>DroVir_CAF1 27156 74 - 1
CCAGUUUUGUUUUCAU-UGCGGUGCACAUAAGCUACCAAUUUUAUGUGUCAUUAAAAUUGGACGCAGCCA--------GA---------------ACA----
.......((((((..(-((((..((......))..(((((((((........))))))))).)))))..)--------))---------------)))---- ( -19.20)
>DroGri_CAF1 28666 74 - 1
CCAGUUUUGUUUUCAU-UGUGGCAAACAUAAGUGACCAAUUUUAUGUGUCAUUAAAAUUGGACGCAGCCA--------GG---------------ACA----
...((((((......(-((((.....)))))(((.(((((((((........))))))))).)))...))--------))---------------)).---- ( -19.60)
>DroWil_CAF1 62183 100 - 1
CCAGUUUUGUUUUCAU-UGCGGCCAACAUAAGUGACCAAUUUUAUGUGUCAUUAAAAUUGGACGCG-CUGGCACUCAUUCCCCUCAUUCCAUUCACCUUGUG
(((((..((....)).-.(((.((((....((((((((......)).))))))....)))).))))-))))............................... ( -18.90)
>DroYak_CAF1 28995 88 - 1
CCAGUUUUGUUUUCAUUUGCGGCCAACAUAAGUGACCAAUUUUAUGUGUCAUUAAAAUUGGACGCG-CUACC-----UUCGC----CUUCGUUUGCCU----
...((..((....))...))(((.(((....(((.(((((((((........))))))))).)))(-(....-----...))----....))).))).---- ( -19.60)
>DroMoj_CAF1 40341 74 - 1
GCAGUUUUGUUUUCAU-UGCGGCUAACAUAAGUGACCAAUUUUAUGUGUCAUUAAAAUUGAACGCAGCCA--------GG---------------ACA----
.......((((((..(-((((..(((....((((((((......)).))))))....)))..)))))..)--------))---------------)))---- ( -15.80)
>consensus
CCAGUUUUGUUUUCAU_UGCGGCCAACAUAAGUGACCAAUUUUAUGUGUCAUUAAAAUUGGACGCA_CCA________GC_______________ACA____
.................((((((........))..(((((((((........))))))))).)))).................................... (-11.27 = -10.77 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:57 2006