Locus 3943

Sequence ID 3R_DroMel_CAF1
Location 10,675,486 – 10,675,597
Length 111
Max. P 0.581401
window6321

overview

Window 1

Location 10,675,486 – 10,675,597
Length 111
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 87.24
Mean single sequence MFE -24.83
Consensus MFE -20.98
Energy contribution -21.58
Covariance contribution 0.60
Combinations/Pair 1.16
Mean z-score -1.43
Structure conservation index 0.85
SVM decision value 0.10
SVM RNA-class probability 0.581401
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10675486 111 + 27905053
UUCAUUGAAACUCUUAAAGUUUUCAAUUGCAUUUCCGUUGACCGCCUUCGAUGUGGGAAUUCUUUUAGAAACAAA--AAACUUACAGUGGCGGUCAGAAAAAUGUUACUUUAA
...(((((((((.....)).))))))).((((((...(((((((((.....((((((..................--...))))))..)))))))))..))))))........ ( -26.80)
>DroSec_CAF1 16845 112 + 1
UUCAAUGAAACUUUCAAAGUUUUCAAUUGCAUUUCCGUUGACCGCCUUCGAUGUGGGAAUUCACUUAGAAGCAAAA-AAACUUACAGUGGCGGUCAGAAAAAUGUCACUCUGA
.....(((((((.....)).)))))...((((((...(((((((((.....((((((..(((.....)))......-...))))))..)))))))))..))))))........ ( -25.80)
>DroSim_CAF1 18892 113 + 1
UUCAUUGAAACUUUCAAAGUUUUCAAUUGCAUUUCCGUUGACCGCCUUCAAUGUGGGAAUUCUCUUAGAAGCAAAAAAAACAUACAGUGGCGGUCAGAAAAAUGUCACUUUGA
.............(((((((........((((((...(((((((((....((((.....(((.....))).........)))).....)))))))))..)))))).))))))) ( -25.94)
>DroEre_CAF1 14078 111 + 1
CUCAUUGAAACUUAAAAAGUUUUCCAUUGCAUUUCCGUUGACCGCCUUCGAAGUGGGAAUACUUUAAGAAGCAAA--AAACUCACAGUUGUGGUCAGAAAAGUGGCGCAUUAA
......((((((.....))))))......(((((...((((((((((((((((((....))))))..))))....--.(((.....)))))))))))..)))))......... ( -21.80)
>DroYak_CAF1 8928 110 + 1
UUCAUUGAAACUUUACAAGUUUUCAAUUGCAUUUCCGUUGACCGCCUUCGAUGUGGAAAUACUUUCAGAGGCAAA---AUCUUACAGUUGCGGUCAGAAAAAUGUCACAUUAA
...(((((((((.....)).))))))).((((((...((((((((((..((.(((....)))..))..))))..(---((......)))..))))))..))))))........ ( -23.80)
>consensus
UUCAUUGAAACUUUAAAAGUUUUCAAUUGCAUUUCCGUUGACCGCCUUCGAUGUGGGAAUUCUUUUAGAAGCAAA__AAACUUACAGUGGCGGUCAGAAAAAUGUCACUUUAA
...(((((((((.....)).)))))))(((((((...(((((((((.....((((((.......................))))))..)))))))))..))))).))...... (-20.98 = -21.58 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:05 2006