Locus 1897

Sequence ID 2L_DroMel_CAF1
Location 5,201,203 – 5,201,323
Length 120
Max. P 0.863137
window3044

overview

Window 4

Location 5,201,203 – 5,201,323
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.94
Mean single sequence MFE -39.66
Consensus MFE -16.68
Energy contribution -19.02
Covariance contribution 2.34
Combinations/Pair 1.19
Mean z-score -3.03
Structure conservation index 0.42
SVM decision value 0.84
SVM RNA-class probability 0.863137
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5201203 120 + 22407834
AUCUUCUCCAGCAGCUCAUCAAACUUACUGCAGAGCAUAAAAAUUGGCUGGGAAAACAAGAAAGCCAAAUUGCCGGCUUCGAAAGAGAUCAGAAGUCCCACAGCAAGCAUAAGCUGGAGG
.....(((((((.((((..((.......))..))))..........((((((..........((((........))))((....))...........)).))))........))))))). ( -34.80)
>DroEre_CAF1 80508 120 + 1
AUCUUCUCCAGCAGCUCAUCAAGCUCACUGCCGAGCACAAAAACUGGCUGGGAAAACAGGAAAGCCAAAUUGCCGGCUUUGAGCGAGAUCAGAAGUCCCACAGCAAGCCUAAGCUGGAGG
.....(((((((..((.(((..(((((..((((.(((.......(((((.............)))))...)))))))..)))))..))).))..((......))........))))))). ( -41.02)
>DroWil_CAF1 85736 120 + 1
AUCUUCUCCAGCAGCUGAUUAAAUUAACAGCCGAGCACAAGAAUUGGCUGGGCACACAAGAAACGCAAUUGGCUGGAUUUGAGAGAGAUCAGAAAUCCUCAAACAAGCAAAAAAUAGAGG
..((((((((((.................(((.(((.((.....))))).)))...(((.........)))))))))((((((.((.........)))))))).............)))) ( -28.80)
>DroYak_CAF1 80251 120 + 1
AUCUUCUCCAGCAGCUGAUCAAACUCACGGCCGAGCACAAGAACUGGCUGGGAAAACAAGAAAGCCAAAUUGCCGGCUUUGAACGAGAUCAGAAGUCCAACAGCAAGCAAAAGCUGGAGG
.....(((((((..((((((....(((.(((((.(((.......(((((.............)))))...)))))))).)))....))))))..((......))........))))))). ( -40.32)
>DroAna_CAF1 81453 120 + 1
AUCUGCUGCAGCAGCUGAUCAAGCUAACAGCCGAGCACAAGAACUGGCUGGGCAAGCAGGAGGGUCAACUGACUGGCUACGAAAGGGACCAAAAAUCCCACAGCAAGAACAAGCUGGAGG
..((.((((...((((.....))))....(((.(((.((.....))))).)))..)))).))((((....))))((((.(....))).))......((..((((........))))..)) ( -40.00)
>DroPer_CAF1 92345 120 + 1
AUCUCCUGCAGAGUCUGAUCAAACAGACAGCCGAGCACAAGAACUGGCUGGGCAAGCAGGAGACCCAGCUGGCGGGCUACGAACGUGACCACAAGUCCAGCGGCAAGCAGAAGCUGGAGG
.((((((((...(((((......))))).(((.(((.((.....))))).)))..)))))))).((((((.((..((..(....(.(((.....)))).)..))..))...))))))... ( -53.00)
>consensus
AUCUUCUCCAGCAGCUGAUCAAACUAACAGCCGAGCACAAGAACUGGCUGGGAAAACAAGAAAGCCAAAUGGCCGGCUUCGAAAGAGAUCAGAAGUCCCACAGCAAGCAAAAGCUGGAGG
.....(((((((..((((((..........((.(((.((.....))))).))..........((((........))))........))))))..((......))........))))))). (-16.68 = -19.02 +   2.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:59 2006