Locus 3044

Sequence ID X_DroMel_CAF1
Location 8,135,556 – 8,135,651
Length 95
Max. P 0.835169
window4981 window4982

overview

Window 1

Location 8,135,556 – 8,135,651
Length 95
Sequences 3
Columns 95
Reading direction forward
Mean pairwise identity 81.99
Mean single sequence MFE -26.73
Consensus MFE -18.85
Energy contribution -18.74
Covariance contribution -0.11
Combinations/Pair 1.10
Mean z-score -1.70
Structure conservation index 0.71
SVM decision value 0.15
SVM RNA-class probability 0.606331
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8135556 95 + 22224390
CGGUGGCGUUUCGGCAUUUCGAGCGAACUGCGAACUGUUCCACAGUUUGUGUUCUGUUUUAUUUCGCUGCCUGCUUUUAGGCGCAAAUAUUUGCC
.((..(((.(((((....))))).((((.((((((((.....))))))))))))..........)))..)).(((....)))((((....)))). ( -30.60)
>DroEre_CAF1 25847 82 + 1
CGGUGGCG----GGAAUUUCGGGCG---------CAGUUCCGCAGCUCGUGCUUUGUUUUAUUUCGCUGCCUGCUUUUAGGCGCAAAUAUUUGCC
.((..(((----..(.....(((((---------((((......))).)))))).......)..)))..)).(((....)))((((....)))). ( -25.80)
>DroYak_CAF1 27190 78 + 1
CGGUGGCG----GGAAUUUC----G---------CAGUUCCGCAGUUUGUGCUCUGUUUUAUUUCGCUGCCUGCUUUUAGGCGCAAAUAUUUGCC
.((..(((----..(.....----(---------(((...(((.....)))..))))....)..)))..)).(((....)))((((....)))). ( -23.80)
>consensus
CGGUGGCG____GGAAUUUCG_GCG_________CAGUUCCGCAGUUUGUGCUCUGUUUUAUUUCGCUGCCUGCUUUUAGGCGCAAAUAUUUGCC
.((..(((....(((((...................)))))((((........)))).......)))..)).(((....)))((((....)))). (-18.85 = -18.74 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 8,135,556 – 8,135,651
Length 95
Sequences 3
Columns 95
Reading direction reverse
Mean pairwise identity 81.99
Mean single sequence MFE -22.17
Consensus MFE -17.28
Energy contribution -16.83
Covariance contribution -0.44
Combinations/Pair 1.07
Mean z-score -1.92
Structure conservation index 0.78
SVM decision value 0.73
SVM RNA-class probability 0.835169
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8135556 95 - 22224390
GGCAAAUAUUUGCGCCUAAAAGCAGGCAGCGAAAUAAAACAGAACACAAACUGUGGAACAGUUCGCAGUUCGCUCGAAAUGCCGAAACGCCACCG
(((.......(((........)))(((((((((.....((((........)))).......)))))..(((....))).)))).....))).... ( -25.30)
>DroEre_CAF1 25847 82 - 1
GGCAAAUAUUUGCGCCUAAAAGCAGGCAGCGAAAUAAAACAAAGCACGAGCUGCGGAACUG---------CGCCCGAAAUUCC----CGCCACCG
(((.....(((((((((......)))).))))).............((.((.(((....))---------))).)).......----.))).... ( -21.70)
>DroYak_CAF1 27190 78 - 1
GGCAAAUAUUUGCGCCUAAAAGCAGGCAGCGAAAUAAAACAGAGCACAAACUGCGGAACUG---------C----GAAAUUCC----CGCCACCG
(((.....(((((((((......)))).)))))..........(((.....)))((((...---------.----....))))----.))).... ( -19.50)
>consensus
GGCAAAUAUUUGCGCCUAAAAGCAGGCAGCGAAAUAAAACAGAGCACAAACUGCGGAACUG_________CGC_CGAAAUUCC____CGCCACCG
(((.....(((((((((......)))).)))))..........(((.....)))..................................))).... (-17.28 = -16.83 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:39 2006