Locus 6901

Sequence ID 3R_DroMel_CAF1
Location 18,228,771 – 18,228,877
Length 106
Max. P 0.541226
window11204

overview

Window 4

Location 18,228,771 – 18,228,877
Length 106
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 91.77
Mean single sequence MFE -31.64
Consensus MFE -26.82
Energy contribution -27.34
Covariance contribution 0.52
Combinations/Pair 1.11
Mean z-score -1.25
Structure conservation index 0.85
SVM decision value 0.02
SVM RNA-class probability 0.541226
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18228771 106 + 27905053
GGCAGGCGGUUCUUUAAUAAGUUUAUAAUUGCUGCCCGUCCGCAUCGAGUUCGCUGC-------UUUCGCUUGCAGCAAGUUCGCUGCCUGAGUCUUUCGCUUCGCCCGUUUC
(((((((((..(((.....(((......(((((((.((...(((.((....)).)))-------...))...)))))))....)))....)))....)))))).)))...... ( -30.90)
>DroSec_CAF1 30962 113 + 1
GGCAGGCGGUUCUUUAAUAAGUUUAUAAUUGCUGCCCGUCCGCAUCGAGUUUGCUGCCUAAGUCUUUCGCUUGCAGCAAGUUCGCUGCCUGAGUCUCUCGCUUCGCCCGUUUC
(((.((((((....(((.....))).....)))))).....(((.(((..(((((((..((((.....)))))))))))..))).)))..(((...))).....)))...... ( -34.60)
>DroSim_CAF1 32081 113 + 1
GGCAGGCGGUUCUUUAAUAAGUUUAUAAUUCCUGCCCGUCCGCAUCGAGUUUGCUGCCUAAGUCUUUCGCUUGCAGCAAGUUCGCUGCCUCAGUCUUUCGCUUCGCCCGUUUC
(((.(((((.....(((.....)))......))))).....(((.(((..(((((((..((((.....)))))))))))..))).)))................)))...... ( -31.80)
>DroEre_CAF1 30976 113 + 1
GGCAGGCGGUUCUGUAAUAAGUUUAUAAUUGCUGCCCGUCCGCAUCGAGCUCGCUGCCUAAGUCUUUCGUUUGCAGUAAGUUCGCUGCCCAAGUCUUUCGCUUCCCUCGUUUC
(((.((((((..(((((.....)))))...)))))).))).(((.((((((..((((....(.....)....))))..)))))).)))......................... ( -33.50)
>DroYak_CAF1 28259 112 + 1
GGCAGACGGUUCU-UAAUAAGUUUAUAAUUGCUGCCCGUCCGCAUCGAGUUUGCUGCCUAAGUCUUUCGUUUGCAGCAAGUUCGCUGUCUAAGUCUUUCGCUUCCCCCGUUUC
(((((.(((((..-(((.....))).)))))))))).....(((.(((..(((((((....(.....)....)))))))..))).)))......................... ( -27.40)
>consensus
GGCAGGCGGUUCUUUAAUAAGUUUAUAAUUGCUGCCCGUCCGCAUCGAGUUUGCUGCCUAAGUCUUUCGCUUGCAGCAAGUUCGCUGCCUAAGUCUUUCGCUUCGCCCGUUUC
(((.((((((....(((.....))).....)))))).))).(((.((((((((((((....(.....)....)))))))))))).)))......................... (-26.82 = -27.34 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:53 2006