Locus 3469

Sequence ID X_DroMel_CAF1
Location 9,303,663 – 9,303,755
Length 92
Max. P 0.634489
window5675

overview

Window 5

Location 9,303,663 – 9,303,755
Length 92
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 73.07
Mean single sequence MFE -20.22
Consensus MFE -6.87
Energy contribution -6.27
Covariance contribution -0.60
Combinations/Pair 1.20
Mean z-score -1.75
Structure conservation index 0.34
SVM decision value 0.21
SVM RNA-class probability 0.634489
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9303663 92 + 22224390
AUGAGGCUGCUGCCAAAAAAACAAAAAAAACGCUGGAAAAUGCGGGAAAGCCAAAUUAGGUAUAAUGUUCGACAA--------------------GCACCAGUGCAAAACAU
....(((....)))................((((((....((((((...(((......)))......)))).)).--------------------...))))))........ ( -18.10)
>DroSec_CAF1 85177 106 + 1
AUGAGGCUGCUACCAAAAA------AAAAACGCAGGAAAAUGCGGGAAUGCCAAAUUAGGUAUAAUGUUCGACUAGAAAUUAGCCUGCAGUAGUAGCUCCAGUGAAAAACAU
.((..((((((((......------.....(....)....((((((.(((((......)))))....(((.....))).....))))))))))))))..))........... ( -27.40)
>DroSim_CAF1 84692 108 + 1
AUGAGGCUGCUGCCAAAAAA----AAAAAACGCAGGAAAAUGCGGGAAAGCCAAAUUAGGUAUAAUGUUCGACUAGAAAAUAGCCUGCAGUAGUAGCUCCAGUGAAAAACAU
.((..((((((((.......----......((((......))))((....))....(((((......(((.....)))....)))))..))))))))..))........... ( -26.20)
>DroEre_CAF1 92269 85 + 1
AUGAGGCUGCUGCCACAA-------AUAAGCACCGGAAAAUGCGGGAAAUCCAAAUUAGGUUUAAUAUUCGAGCCCA------------------GCUCCAGCGAAAAGC--
....((.((((.......-------...))))))(((....((.((....))......(((((.......)))))..------------------))))).((.....))-- ( -15.20)
>DroYak_CAF1 85068 92 + 1
AUGAGGCUGCUGCC-CAA-------AUAAACACAGGAAAAUGCGGAAAAGUCAAAUUAGAUAUAAUACUCGACUUAAAAAUAG------------CCUGAAGUGAAAAACAU
.(.(((((((((((-(..-------.........)).....))))..(((((..((((....))))....))))).....)))------------))).)............ ( -14.20)
>consensus
AUGAGGCUGCUGCCAAAAA______AAAAACGCAGGAAAAUGCGGGAAAGCCAAAUUAGGUAUAAUGUUCGACUAGAAA_UAG____________GCUCCAGUGAAAAACAU
.((((.((((..((....................)).....))))....(((......)))......))))..............................((.....)).. ( -6.87 =  -6.27 +  -0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:07 2006