Locus 1444

Sequence ID 2L_DroMel_CAF1
Location 3,838,497 – 3,838,611
Length 114
Max. P 0.967728
window2350

overview

Window 0

Location 3,838,497 – 3,838,611
Length 114
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 75.04
Mean single sequence MFE -44.64
Consensus MFE -16.30
Energy contribution -18.22
Covariance contribution 1.92
Combinations/Pair 1.14
Mean z-score -2.24
Structure conservation index 0.37
SVM decision value 1.61
SVM RNA-class probability 0.967728
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3838497 114 - 22407834
GAGCUACAUAUGCUGCUUCU----CAAGCCAAAGAAUCCUCCGAUUCUUCUCGCC-AGAAUCUUCAGCUAUUGCGGGAGACUACGGUGACGGGUUUGUGAAGAGGCUGUGGCGAGGGUC
..((((((...(((.((((.----((((((.(((((((....))))))).(((((-..(.(((((.((....)).))))).)..)))))..)))))).)))).)))))))))....... ( -44.00)
>DroSec_CAF1 27365 114 - 1
GAGCUACAUAUGCUGCUCCU----CAAGCCAAAGAAUCAUACGAUUCUUCUCGCC-AGAAUCUUCAGCUAUUGCGGGAGACUACGGUGACAGGUUUGAUGAGGGGCUGUGGCGAGGGUC
..((((((...(((.(((.(----((((((.(((((((....))))))).(((((-..(.(((((.((....)).))))).)..)))))..))))))).))).)))))))))....... ( -47.00)
>DroEre_CAF1 31959 99 - 1
GAGCUACAGAUGCUG-------------------AAUCGAAGGACUCUUCUGUCC-AGAAUCUUCAGCUGUUGCGUGAGACCACGGUGACGGGUUUGAUGAGGGGCUGUGGCGAGGGUC
..(((((((..((((-------------------((((...((((......))))-.))...)))))).....(((.(((((.((....))))))).))).....)))))))....... ( -38.30)
>DroYak_CAF1 28728 114 - 1
GAGCUACAGAUGCUGCUCCU----CAAGCCAAAGAAUCGCUGGAUUCUUCUGUCC-AGAAUCUUCAGCUGUUGCGGGACACCACAGUGACGGGCUUAAUGAGGGGCUGUGGCGAGGGAC
..((((((......((((((----((((((...(((...((((((......))))-))....))).(((((...((....)))))))....))))...))))))))))))))....... ( -41.80)
>DroAna_CAF1 28650 115 - 1
AAGCUACAGG--CUCCACCCUGGCCCAGCCC--CAAUCAGACAGAUCUGGCGGCCGGGGGGCUUCAGCUGUUGCGAGACACAACUGUGACGGGUUUGAUGAGGGCCUGGGGCGAGGGAC
.(((.....)--))...((((.((((.((((--..(((((((....((((.((((....))))))))((((..(.((......)))..)))))))))))..))))...)))).)))).. ( -52.10)
>consensus
GAGCUACAGAUGCUGCUCCU____CAAGCCAAAGAAUCAUACGAUUCUUCUGGCC_AGAAUCUUCAGCUGUUGCGGGAGACCACGGUGACGGGUUUGAUGAGGGGCUGUGGCGAGGGUC
..(((((((.(.((............................((((((........)))))).....((((..(.(.......).)..))))........)).).)))))))....... (-16.30 = -18.22 +   1.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:48 2006