Locus 8405

Sequence ID 3R_DroMel_CAF1
Location 22,378,912 – 22,379,004
Length 92
Max. P 0.697186
window13535

overview

Window 5

Location 22,378,912 – 22,379,004
Length 92
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 83.24
Mean single sequence MFE -30.48
Consensus MFE -21.62
Energy contribution -21.86
Covariance contribution 0.24
Combinations/Pair 1.09
Mean z-score -1.79
Structure conservation index 0.71
SVM decision value 0.34
SVM RNA-class probability 0.697186
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22378912 92 + 27905053
GGGCUGCAGCAAUCUAAUUGUGUGGCUGUGUGGCAAU--------AUG--------GCAAGUAGCAAUGCAGUUGCAAAUAAAUAGCUUAUCGGCAACCUGCCACAAC
.(((..((.((((...))))))..))).(((((((..--------...--------....(((....))).(((((..((((.....))))..))))).))))))).. ( -30.00)
>DroSec_CAF1 19859 100 + 1
GGGCUGCAGCAAUCUGGUUGUGUGGCUGUGUGGCAAU--------AUGGCAAUGUGGCAAGUAGCAAUGAAGUUGCAAAUAAAUAGCUUAUCAGCAACCUGCCACAAC
..((.(((((......))))))).(((((((....))--------)))))..(((((((.((.((....((((((........))))))....)).)).))))))).. ( -29.80)
>DroSim_CAF1 15464 100 + 1
GGGCUGCAGCAAUCUGGUUGUGUGUCUGUGUGGCAAU--------AUGGCAAUGUGGCAAGUAGCAAUGCAGUUGCAAAUAAAUAGCUUAUCGGCAACCUGCCACAAC
((((((((((......)))))).)))).(((((((..--------...(((.(((........))).))).(((((..((((.....))))..))))).))))))).. ( -32.00)
>DroEre_CAF1 15649 108 + 1
GUGCUGCAGCAAUGUGGCUGUGUGGAUAUGUGGCAAUAUGGCAGUAUGGCAAUGGGGCAAGUAGCAAUGCAGUUGCAAAUAAAUAGCUUAUCGGCAACCUGCCACAAC
(((((((....((((.((..(((....)))..)).)))).))))))).....((.((((.(((....))).(((((..((((.....))))..))))).)))).)).. ( -32.00)
>DroYak_CAF1 15951 100 + 1
GUGCUGCUGCAAUGUGGCA--------AUAUGGCAAUAUGUGAAUAUGGCAAUGGGGCAAGUAGCAAUGCAGUUGCAAAUAAAUAGCUUAUCGGCAACCUGCCACAAC
.(((((((((..(((.((.--------((((.((.....))..)))).)).)))..)).)))))))..((((((((..((((.....))))..)))).))))...... ( -28.60)
>consensus
GGGCUGCAGCAAUCUGGUUGUGUGGCUGUGUGGCAAU________AUGGCAAUGGGGCAAGUAGCAAUGCAGUUGCAAAUAAAUAGCUUAUCGGCAACCUGCCACAAC
.....(((((......))))).......(((((((.....................((.....))......(((((..((((.....))))..))))).))))))).. (-21.62 = -21.86 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:41 2006