Locus 5426

Sequence ID X_DroMel_CAF1
Location 14,155,019 – 14,155,127
Length 108
Max. P 0.659085
window8798

overview

Window 8

Location 14,155,019 – 14,155,127
Length 108
Sequences 4
Columns 108
Reading direction reverse
Mean pairwise identity 93.33
Mean single sequence MFE -46.42
Consensus MFE -40.25
Energy contribution -39.88
Covariance contribution -0.38
Combinations/Pair 1.13
Mean z-score -1.57
Structure conservation index 0.87
SVM decision value 0.26
SVM RNA-class probability 0.659085
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14155019 108 - 22224390
AGCGACAGUCGUGGCCGAUAGGGCAGGCAGCGUUGCAAUUGCAGCGGGCGGCACGAAGAGUCCUGCGUGUUGUCGGCAGACGCACGAUGUGGCACAGACACAGGACGC
.((.....((((((((.....)))..((..((((((....)))))).))..)))))...(((((.(((((.(((....))))))))..(((.......)))))))))) ( -43.00)
>DroSec_CAF1 62961 107 - 1
AACGACAGUCGCGGCCGAGAG-GCAGGCAGUGCUGCAACUGCAGCGGGCGGCACGAAGAGUCCUGCGUGUCGUCGGCAGACGCACGAUGUGGCGCAGACACAGGACGC
.......(((((.(((....)-))..)).((((..((.((((.((.(((((((((.((....)).))))))))).))....))).).))..)))).)))......... ( -47.60)
>DroSim_CAF1 40776 107 - 1
AACGACAGUCGCGGCCGAGAG-GCAGGCAGUGCUGCAACUGCAGCGGGCGGCACGAAGAGUCCUGCGUGUCGUCGGCAGACGCACGAUGUGGCGCAGACACAGGACGC
.......(((((.(((....)-))..)).((((..((.((((.((.(((((((((.((....)).))))))))).))....))).).))..)))).)))......... ( -47.60)
>DroYak_CAF1 55962 107 - 1
AGCAACAGUCGUGGCCGAGAG-GCAGGCAGCGCUGCAACUGCAGCGGGAGGCACGAAGAGUGCUGCGUGACGUCGGCAGACGCACGAUGUGGCACAGACACAGGACGC
.((.....((((((((....)-))......((((((....)))))).....)))))...((((((.((.((((((((....)).)))))).)).))).))).....)) ( -47.50)
>consensus
AACGACAGUCGCGGCCGAGAG_GCAGGCAGCGCUGCAACUGCAGCGGGCGGCACGAAGAGUCCUGCGUGUCGUCGGCAGACGCACGAUGUGGCACAGACACAGGACGC
.......(((((.(((.........)))..((((((....)))))).))))).......(((((.((((.((((....))))))))..(((.......)))))))).. (-40.25 = -39.88 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:34 2006