Locus 3616

Sequence ID 3L_DroMel_CAF1
Location 10,649,727 – 10,649,825
Length 98
Max. P 0.985100
window5636

overview

Window 6

Location 10,649,727 – 10,649,825
Length 98
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 78.98
Mean single sequence MFE -14.29
Consensus MFE -8.34
Energy contribution -8.88
Covariance contribution 0.54
Combinations/Pair 1.06
Mean z-score -2.58
Structure conservation index 0.58
SVM decision value 2.00
SVM RNA-class probability 0.985100
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10649727 98 + 23771897
AUCAUUUCACUCAAGA-AAAAAAUUAUAAAACAAAAAAACG----AGAAAAAAACAAAAGGCAGGCGGCUAAAA-----AAAGUGGCAAAGCUACUUUUUGUUGUUAU
....((((......))-))......................----.......(((((((((..(((.((((...-----....))))...))).)))))))))..... ( -15.00)
>DroGri_CAF1 11145 77 + 1
---AUUUCACGCAAA-ACA-AAAGCAGCAAAGAGCAAAAUG----AAAAA----------------G--AAAAA----AAAAGUGGCAAAGCUACUUUUUGUUGUUUU
---............-...-((((((((...........(.----...).----------------.--....(----(((((((((...)))))))))))))))))) ( -14.10)
>DroSec_CAF1 12100 98 + 1
AUCAUUUCACUCAAGA-AUAAAAUUAUAAAACAAAAAAACG----AGAAA-AAACAAAAGGCAGACGGCUAAAA----AAAAGUGGCAAAGCUACUUUUUGUUGUUAU
.........(((....-.......................)----))...-.(((((..(((.....)))...(----(((((((((...)))))))))).))))).. ( -13.53)
>DroSim_CAF1 11462 102 + 1
AUCAUUUCACUCAAGA-AAAAAAUUAUAAAACAAAAAAACG----AGAAA-AAACAAAAGGCAGACGGCUAAAAAAAAAAAAGUGGCAAAGCUACUUUUUGUUGUUAU
....((((......))-))......................----.....-.(((((..(((.....))).......((((((((((...)))))))))).))))).. ( -14.40)
>DroEre_CAF1 12537 99 + 1
AUCAUUUCACUCAAGA-AAAAAAUUAUAAAACAAAAA----AAAUACAAA-AAACAAAAGGCAGACGGCUAAAAA---AAAAGUGGCAAAGCUACUUUUUGUUGUUAU
....((((......))-))..................----.........-.(((((..(((.....)))....(---(((((((((...)))))))))).))))).. ( -14.40)
>consensus
AUCAUUUCACUCAAGA_AAAAAAUUAUAAAACAAAAAAACG____AGAAA_AAACAAAAGGCAGACGGCUAAAA____AAAAGUGGCAAAGCUACUUUUUGUUGUUAU
.............................(((((.........................(((.....)))........(((((((((...)))))))))..))))).. ( -8.34 =  -8.88 +   0.54)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:19 2006