Locus 1398

Sequence ID 3L_DroMel_CAF1
Location 4,063,196 – 4,063,291
Length 95
Max. P 0.540435
window2172

overview

Window 2

Location 4,063,196 – 4,063,291
Length 95
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 83.01
Mean single sequence MFE -27.56
Consensus MFE -18.64
Energy contribution -19.28
Covariance contribution 0.64
Combinations/Pair 1.12
Mean z-score -1.73
Structure conservation index 0.68
SVM decision value 0.01
SVM RNA-class probability 0.540435
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4063196 95 + 23771897
AUUUAGCCACGGCUGUCUGGCUGUCU------CUCCAAG-----UCUUUUCUGGGGACUUUUCUCGCU----UCUCCGGAGAACCGAGUGAUUCUAAGCUGACAGCAGAU
...........((((((.(((((((.------(((....-----..(((((((((((...........----)))))))))))..))).)))....)))))))))).... ( -29.70)
>DroSec_CAF1 7544 91 + 1
AUUUAGCCACGGCUGUCUGGCUGUCU------CUCCAAG-----UCCUU----GGGACUUUUCUCGCU----UCUCCGGAGAACCGAGUGAUUCUAAGCUGACAGCAGAU
...((((....))))((((.(((((.------....(((-----(((..----.))))))..((((.(----(((....)))).))))............))))))))). ( -28.60)
>DroSim_CAF1 7529 91 + 1
AUUUAGCCACGGCUGUCUGGCUGUCU------CUCCAAG-----UCCUU----GGGACUUUUCUCGCU----UCUCCGGAGAACCGAGUGAUUCUAAGCUGACAGCAGAU
...((((....))))((((.(((((.------....(((-----(((..----.))))))..((((.(----(((....)))).))))............))))))))). ( -28.60)
>DroEre_CAF1 8038 91 + 1
AUUUAGCCACGGCUGUCGCUCUGUCU------CUCAAAG-----UCUCC----GGGACUUUUCUCGCU----UCUCCGGAGAACCGAGUGAUUCUAAGCUGACAGCAGAU
...........(((((((((..(((.------(((....-----(((((----((((...........----)).)))))))...))).)))....))).)))))).... ( -32.00)
>DroYak_CAF1 7647 91 + 1
AUUUAGCCACGCUUGUCUCGCUGUCU------CUCCAAG-----UCUCU----GGGACUUUUCUCGCU----UCUCCGGAGAACCGAGUGAUUCUAAGCUGACAGCAGAU
..........(((.(((..((((((.------(((....-----(((((----((((...........----)).)))))))...))).)))....))).)))))).... ( -25.10)
>DroAna_CAF1 7878 106 + 1
AUUUAGCCACGGCUGUCUGGCUGUCUAGAUGUCUCCCGGCUUUCUCCAU----UCCACUUUUCCAUCUCCAUCGCCCGGUUCUCCAAGUUUCUCUAAGCUGACAGCAGAU
...((((....))))((((.(((((.(((.....((.(((.........----....................))).)).)))...(((((....)))))))))))))). ( -21.35)
>consensus
AUUUAGCCACGGCUGUCUGGCUGUCU______CUCCAAG_____UCCUU____GGGACUUUUCUCGCU____UCUCCGGAGAACCGAGUGAUUCUAAGCUGACAGCAGAU
...((((....))))(((.((((((............................((((....))))(((....((.((((....))).).)).....))).))))))))). (-18.64 = -19.28 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:28 2006