Locus 3676

Sequence ID 3R_DroMel_CAF1
Location 9,965,941 – 9,966,031
Length 90
Max. P 0.896371
window5899

overview

Window 9

Location 9,965,941 – 9,966,031
Length 90
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 73.31
Mean single sequence MFE -28.21
Consensus MFE -10.20
Energy contribution -10.37
Covariance contribution 0.17
Combinations/Pair 1.31
Mean z-score -2.31
Structure conservation index 0.36
SVM decision value 0.99
SVM RNA-class probability 0.896371
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9965941 90 - 27905053
AAAACCAGCA-----G---GAACAC---AAUUCUAACCACAGACACGGCUUCAGGACUC----AGAUCCUGAUAAGGAUAACAUUAGUGCUGUGCGGUUCCUGCA
.......(((-----(---((((..---...(((......)))((((((.((((((...----...))))))...(.....)......))))))..)))))))). ( -29.70)
>DroPse_CAF1 47062 102 - 1
AAAAGAACCCAAGACGCAGGAAUACGGGAAUACGAGGCAGGGAUGCGGGUGU-GGACUCCAUAGGGACUAGAUCA-GAUAUCGCCAGUGCUGACUGGUU-CUGCU
.......(((...............))).......(((((((((((.(((.(-((.(((....))).))).))).-).))))((((((....)))))))-))))) ( -25.96)
>DroSec_CAF1 48466 93 - 1
AAAACCAGCA-----GGAGGAACAC---AAUUCUCACCGCAGACACGGCUGCAGGACUC----AGAUCCUGAUAAGGAUAACAUUAGUGCUGUGCGGUUCCUGCA
.......(((-----(((((((...---..)))).(((((((......))((((.(((.----(.(((((....)))))....).))).))))))))))))))). ( -30.60)
>DroSim_CAF1 48653 93 - 1
AAAACCAGCA-----GGAGGAACAC---AAUUCUCACCGCAGACACGGCUGCAGGACUC----AGAUCCUGAUAAGGAUAACAUUAGUGCUGUGCGGUUCCUGCA
.......(((-----(((((((...---..)))).(((((((......))((((.(((.----(.(((((....)))))....).))).))))))))))))))). ( -30.60)
>DroEre_CAF1 52931 73 - 1
AGAACCAGCA-----G---GAACCC---AGGUC-----------------ACAGGACUC----GGAUCCUGAUAAGGAUAACAUUGGUGCUGUGCGGUUUCUGCA
.......(((-----(---(((((.---..(.(-----------------((((.(((.----(.(((((....)))))....).))).))))))))))))))). ( -29.40)
>DroYak_CAF1 51083 90 - 1
AAAACCAGCA-----G---GAACAC---AAUUCUCACCGCAGACACGGCUUCAGGACUC----AGAUCCUGAUAAGGAUAACAUUAGUGCUGUGCGGUUCAUGCA
.......(((-----.---((((..---...(((......)))((((((.((((((...----...))))))...(.....)......))))))..)))).))). ( -23.00)
>consensus
AAAACCAGCA_____G___GAACAC___AAUUCUCACCGCAGACACGGCUGCAGGACUC____AGAUCCUGAUAAGGAUAACAUUAGUGCUGUGCGGUUCCUGCA
...................................................(((.(((.......(((((....)))))......))).)))(((((...))))) (-10.20 = -10.37 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:06 2006