Locus 1490

Sequence ID 2L_DroMel_CAF1
Location 4,000,112 – 4,000,232
Length 120
Max. P 0.799283
window2420

overview

Window 0

Location 4,000,112 – 4,000,232
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 80.17
Mean single sequence MFE -33.71
Consensus MFE -19.12
Energy contribution -19.32
Covariance contribution 0.20
Combinations/Pair 1.26
Mean z-score -2.09
Structure conservation index 0.57
SVM decision value 0.61
SVM RNA-class probability 0.799283
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4000112 120 + 22407834
GGAUGAAAAAGAUUCAGAGUGCGUCCUGACGGAUGCGCCCAAUCAAUGUGGGGCAUUCUGUAUGUCCGCUCAAAGGCCACUCUUCGAACACAAUCGCAUUAUUCAGAAUCAAAUAUAUGA
..........(((((.(.((((((((....)))))))).)....((((((((((((.....))))))(.((.((((....)))).)).).....)))))).....))))).......... ( -33.20)
>DroSec_CAF1 133251 120 + 1
GGAUGGAAAAAAUUCAGAGUGCGUCCUGACGGAUGCGCCUAAUCAAUGUGGGGCAUUCUGUAUGUCCGCUCAAAGGCCACUCUUUGAACACAAUCGCAUUAUUCAGAAUCAGAUAAAUCA
.(((.......((((((.((((((((....))))))))))....((((((((((((.....))))))(.(((((((....))))))).).....)))))).....)))).......))). ( -35.54)
>DroSim_CAF1 137830 120 + 1
GGAUGGAAAAGAUUCAGAGUGCGUCCUGACGGAUGCGCCCAAUCAAUGUGGGGCAUUCUGUAUGUCCGCUCAAAGGCCACUCUUUGAACACAAUCGCAUUAUUCAGAAUCAGAUAAAUCA
.(((......(((((.(.((((((((....)))))))).)....((((((((((((.....))))))(.(((((((....))))))).).....)))))).....)))))......))). ( -38.30)
>DroEre_CAF1 138809 100 + 1
----------GAUUCAGAUUGCGUCCUAAACGAUGCCCCCAAUAAAUGUGGGGCGUUUUGACU----------UGGCCUCUCUUCGUUCACAAUCGCAAUAUUCAGGAACAAUUAAAUAA
----------((.....((((((.....(((((.(((((((.....)).)))))(((......----------.)))......)))))......))))))..))................ ( -21.50)
>DroYak_CAF1 142377 120 + 1
GGAUGAAAACGAUUCCGGCUACGUCCUGAAAGAUGCCCCCAAUCAAUGUGGGGCAUUUUGUUUGGCCGCUCAACGGCCACUCUUCGUUCACAAUCGCAAUAUUCAGGAUCAGUUAAACAA
(((..........)))((((..(((((((((((((((((((.....)).))))))))))(..((((((.....))))))..)....................))))))).))))...... ( -40.00)
>consensus
GGAUGAAAAAGAUUCAGAGUGCGUCCUGACGGAUGCGCCCAAUCAAUGUGGGGCAUUCUGUAUGUCCGCUCAAAGGCCACUCUUCGAACACAAUCGCAUUAUUCAGAAUCAGAUAAAUAA
..........(((((..((((((.......((((((.((((.......)))))))))).........((......)).................)))))).....))))).......... (-19.12 = -19.32 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:54 2006