Locus 6725

Sequence ID 3L_DroMel_CAF1
Location 17,974,496 – 17,974,591
Length 95
Max. P 0.686776
window10939

overview

Window 9

Location 17,974,496 – 17,974,591
Length 95
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 81.63
Mean single sequence MFE -25.27
Consensus MFE -17.24
Energy contribution -17.52
Covariance contribution 0.28
Combinations/Pair 1.20
Mean z-score -1.73
Structure conservation index 0.68
SVM decision value 0.32
SVM RNA-class probability 0.686776
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17974496 95 + 23771897
AA-GUCUAAAUGCGUUUUGUUAUGUUUUCAGUGUACUAAAACUCAUUGGAGCAUUCGAGUGAGUUUGGUGGGCAACUAUGCUAGUGAUACACAGCA
.(-((......((((......)))).....((.(((((((.((((((.(......).))))))))))))).)).))).((((.(((...))))))) ( -22.50)
>DroSec_CAF1 98144 96 + 1
AACGUCUAAACGUGUUUUGUUAUGUUUUCAGUGAACUAAAAUUCAUUGGAGCAUUCGAGUGUGUUUGGUGGGCAACUAUGCUAGUGAUACACAGCA
.....(((((((..(((....((((((.(((((((......)))))))))))))..)))..)))))))(((....)))((((.(((...))))))) ( -26.00)
>DroSim_CAF1 105443 95 + 1
AA-GUCUAAACGUGUUUUGUUAUGUUUUCAGUGUACUAAAACUCAUUGGAGCAUUCGAGUGAGUUUGGUGGGCAACUAUGCUAGUGAUACACAGCA
..-(...(((((((......))))))).).((.(((((((.((((((.(......).))))))))))))).)).....((((.(((...))))))) ( -25.30)
>DroEre_CAF1 99496 86 + 1
AA-GUCAAA---------GUUUGGUUUUCAGUGUACUGAAACUCAUUGGAGCAUUCGAGUGAGUUUGGUGGGCAACUAUGCUAGUGAUACACAGCA
..-((((.(---------((.(((((....((.((((.(((((((((.(......).))))))))))))).))))))).)))..))))........ ( -24.00)
>DroYak_CAF1 103795 95 + 1
AA-CUCAAAACGACUUUUGUUUUGUUUACAGUGCACUAAAACUCAUUGGAGCAUUCGAGUGAGUUUGGUGGGCAACUAUGCUAGUGAUACACAGCA
..-..((((((((...))))))))......((.(((((((.((((((.(......).))))))))))))).)).....((((.(((...))))))) ( -27.80)
>DroPer_CAF1 96727 78 + 1
------------------GUCUGUCUCUCUGGGAGCGACGACUCAGUGGAGCAUUCGAGUGAGUUUGGUGGGCAACUAUGCUAGUGAUAGCAGGCA
------------------(((((((.(((...))).)))((((((.(.(......).).))))))..((((....))))((((....)))))))). ( -26.00)
>consensus
AA_GUCUAAACG_GUUUUGUUAUGUUUUCAGUGUACUAAAACUCAUUGGAGCAUUCGAGUGAGUUUGGUGGGCAACUAUGCUAGUGAUACACAGCA
..................(((.(((..(((.((.....(((((((((.(......).))))))))).((((....))))..)).))).))).))). (-17.24 = -17.52 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:28:31 2006