Locus 6600

Sequence ID 3L_DroMel_CAF1
Location 17,539,029 – 17,539,134
Length 105
Max. P 0.844317
window10744

overview

Window 4

Location 17,539,029 – 17,539,134
Length 105
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 91.28
Mean single sequence MFE -33.77
Consensus MFE -30.60
Energy contribution -31.22
Covariance contribution 0.62
Combinations/Pair 1.06
Mean z-score -1.66
Structure conservation index 0.91
SVM decision value 0.76
SVM RNA-class probability 0.844317
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17539029 105 + 23771897
CACAA----ACACAGGGAUACAGAUACUGCUAGAGAUAGAGAUACAGAAGACCAAGUCGGAGACUCCAGCUCAUUUAGCAGUUGCCAGUCGCGAGUUGGCGAGUUGCUG
.....----...(((.(((.......((((((((....(((........(((...)))((.....))..))).))))))))(((((((.(....))))))))))).))) ( -29.60)
>DroSec_CAF1 24881 109 + 1
CACACACGGAUAAACGGAUACAGAUACUGCUAGAGAUGGAGAUACAGAAGACCAAGUCGGAGUCUCCAGCUCAUUUAGCAGUUGCCAGUCGCGAGUUGGCGAGUUGCCG
......(((...(((...........(((((((((.(((((((.(....(((...))).).))))))).)))...))))))(((((((.(....))))))))))).))) ( -38.00)
>DroSim_CAF1 27337 109 + 1
AACACACGCACACACGGAUACAGAUACUGCUAGAGAUGGAGAUACAGAAGACCAAGUCGGAGUCUCCAGCUCAUUUAGCAGUUGCCAGUCGCGAGUUGGCGAGUUGCUG
.......(((.((.............(((((((((.(((((((.(....(((...))).).))))))).)))...))))))(((((((.(....))))))))))))).. ( -36.20)
>DroEre_CAF1 24828 104 + 1
-----ACACACACACGGAUACAGAUACUGCUAGAGAUAGAGAUACAGAAGACCAAGUCGGAGUCUCCAGCUCAUUUAGCAGUCGCCAGUCGCGAGUUGGCGAGUUGCUG
-----.........(((..((.....(((((((((...(((((.(....(((...))).).)))))...)))...))))))(((((((.(....))))))))))..))) ( -31.30)
>consensus
CACACACGCACACACGGAUACAGAUACUGCUAGAGAUAGAGAUACAGAAGACCAAGUCGGAGUCUCCAGCUCAUUUAGCAGUUGCCAGUCGCGAGUUGGCGAGUUGCUG
..............(((..((.....(((((((((.(((((((.(....(((...))).).))))))).)))...))))))(((((((.(....))))))))))..))) (-30.60 = -31.22 +   0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:23 2006