Locus 2479

Sequence ID 3L_DroMel_CAF1
Location 6,978,295 – 6,978,400
Length 105
Max. P 0.551795
window3836

overview

Window 6

Location 6,978,295 – 6,978,400
Length 105
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 89.40
Mean single sequence MFE -27.68
Consensus MFE -19.81
Energy contribution -21.62
Covariance contribution 1.81
Combinations/Pair 1.08
Mean z-score -1.62
Structure conservation index 0.72
SVM decision value 0.04
SVM RNA-class probability 0.551795
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6978295 105 - 23771897
AUCUGGU--------AGCUAGUCUAGAAUUUAUUGGACAG------CAUCAAAGAGACGCCUUC-UCAUGCGAAUUCAAAAGUGUAUACCAUAUUUUGUAAGCAUACACAUUAUAUGUGA
...((((--------.(((.((((((......))))))))------)))))..((((.....))-))((((.....((((((((.....))).)))))...)))).(((((...))))). ( -22.60)
>DroSec_CAF1 48167 119 - 1
AUCUGGUGCUUUCACAGCUAGUCUAGAAUUUAUUGGACAGCUGGAGCAUCAAAGAGACGCCUUC-UCAUGCGAAUUCAACAAUGUAUACCAUAUUUUGUAAGCAUACACAUUAUAUGUGA
...((((((((...(((((.((((((......)))))))))))))))))))..((((.....))-))((((.....(((.(((((.....))))))))...)))).(((((...))))). ( -32.40)
>DroSim_CAF1 47910 119 - 1
AUCUGGUGUUUUCACAGCUAGUCUAGAAUUUAUUGGACAGCAGGAGCAUCAAAGAGACGCCUUC-UCAUGCGAAUUCAACAAUGUAUACCAUAUUUUGUAAGCACACACAUUAUAUGUGA
...(((((((((....(((.((((((......))))))))).)))))))))..((((.....))-)).(((.....(((.(((((.....))))))))...)))..(((((...))))). ( -24.70)
>DroYak_CAF1 49718 120 - 1
AUCUGUUGUUUUCACAGCUAGUCUAGAAUUUAUUGGACAGCUGGAGCAUCAAAGAGACGUCUUCCUCAUGCGAAUUCAAGAGUGUAUAGCAUAUUUUGUAGGCAUGCACAUUAUAUGUGA
..((.(((..(((.(((((.((((((......)))))))))))..((((....(((........))))))))))..))).))......((((((..(((........)))..)))))).. ( -31.00)
>consensus
AUCUGGUGUUUUCACAGCUAGUCUAGAAUUUAUUGGACAGCUGGAGCAUCAAAGAGACGCCUUC_UCAUGCGAAUUCAACAAUGUAUACCAUAUUUUGUAAGCAUACACAUUAUAUGUGA
...((((((((...(((((.((((((......)))))))))))))))))))................((((.....((((((((.....))).)))))...)))).(((((...))))). (-19.81 = -21.62 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:30 2006