Locus 2963

Sequence ID 2R_DroMel_CAF1
Location 10,224,368 – 10,224,465
Length 97
Max. P 0.998876
window4902

overview

Window 2

Location 10,224,368 – 10,224,465
Length 97
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 76.63
Mean single sequence MFE -34.62
Consensus MFE -20.48
Energy contribution -23.12
Covariance contribution 2.64
Combinations/Pair 1.16
Mean z-score -2.94
Structure conservation index 0.59
SVM decision value 3.26
SVM RNA-class probability 0.998876
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10224368 97 + 20766785
AACAAAUGGGCAGCGGCGAAAGCAGCAGCCAGGAUAAUUGCCCCAAUGGACGU-------------GGCAAUUAACGAGCUGAAAGCCGCAAGGACUUCUCGGCAGGACU------
........(((.((.((....)).)).)))....((((((((.(.......).-------------))))))))....((((((((((....)).))).)))))......------ ( -35.80)
>DroSec_CAF1 53485 97 + 1
AACAAAUGGGCAGCGGCGAAAGCAGCAGCCAGGAUAAUUGCCCCAAUGGACGU-------------GGCAAUUAACGAGCUGAGAGCCGUAAGGACUUCUCGGCAGGACU------
........(((.((.((....)).)).)))....((((((((.(.......).-------------))))))))....((((((((((....)).).)))))))......------ ( -37.50)
>DroSim_CAF1 53824 97 + 1
AACAAAUGGGCAGCAGCGAAAGCAGCAGCCAGGAUAAUUGCCCCAAUGGACGU-------------GGCAAUUAACAAGCUGAGAGCCGCAAGGACUUCUCGGCAGGACU------
........(((.((.((....)).)).)))....((((((((.(.......).-------------))))))))....((((((((((....)).).)))))))......------ ( -37.80)
>DroEre_CAF1 58010 94 + 1
AAGAAAUGGGCAGCGGCGAAAGCAGCAGCCAGGAUAAUUGCCCCAAUGGACGU-------------GGCAAUUAACGAGCUGAGAGCCGCAAGGACU---CGCCAGGACU------
........(((.((.((....)).))(((..(..((((((((.(.......).-------------)))))))).)..)))..(((((....)).))---))))......------ ( -34.30)
>DroWil_CAF1 61121 106 + 1
AAGGUACGGGUGGCAGGG----GGGCAGAUUGGAUAAUUGCCCCAAUGGUCGUACAAUGGCACAAUGGCAAUUAACCACGAGAAAGUCGAACA------UUGGCAAGAGUAGUGGA
...((((((....((..(----((((((.(.....).)))))))..)).))))))....((......))......((((......(((((...------))))).......)))). ( -27.72)
>consensus
AACAAAUGGGCAGCGGCGAAAGCAGCAGCCAGGAUAAUUGCCCCAAUGGACGU_____________GGCAAUUAACGAGCUGAGAGCCGCAAGGACUUCUCGGCAGGACU______
........(((.((.((....)).)).)))....((((((((........................))))))))....((((((((((....)).))).)))))............ (-20.48 = -23.12 +   2.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:07 2006