Locus 2563

Sequence ID 2R_DroMel_CAF1
Location 9,078,678 – 9,078,793
Length 115
Max. P 0.993414
window4222

overview

Window 2

Location 9,078,678 – 9,078,793
Length 115
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 84.26
Mean single sequence MFE -33.80
Consensus MFE -24.46
Energy contribution -23.90
Covariance contribution -0.56
Combinations/Pair 1.22
Mean z-score -3.26
Structure conservation index 0.72
SVM decision value 2.40
SVM RNA-class probability 0.993414
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9078678 115 + 20766785
AUCUUCAUUAAGGGAAAGGAAAAAUAUUUCCACAACUGAUGCUGCACACCACUCGGCCUGACCUUUGCUUGUUUAGAAAUUAAG-----UCAAAGGUCACAAAAGUGUAGCAUUUGAACA
...((((..........(((((....)))))......((((((((((.((....))..(((((((((((((.........))))-----.))))))))).....)))))))))))))).. ( -34.70)
>DroSec_CAF1 43511 115 + 1
AUCUUUAUGAAAGGGAAGGAAAAAUAUUUCCACAACGGAUGCUGCACACCACUCGGCCUGACCUUAGCUUGUUUAGAAAUUGAG-----UCAAAGGUCACAAAAGUGUAGCAUUUGAACA
.(((((.....))))).(((((....)))))....((((((((((((.((....))..(((((((.(((((.........))))-----)..))))))).....)))))))))))).... ( -33.70)
>DroEre_CAF1 50930 119 + 1
UUCCUAAUCCAAGGGA-GCGGAAAUAUUUCCACAUCUGAUGCUGCACACCUCCCAGCCUGACCUUUGCUUGCUUAGAAAUGUAGAAAUGCCAAAGGUCACGAAAGUGUAGCAUUUUAACA
(((((......)))))-(.((((....)))).)....((((((((..............(((((((((...((((....)).))....).))))))))((....))))))))))...... ( -32.30)
>DroYak_CAF1 48599 115 + 1
UUCUUAAUCCAAGGGAAGGAGAAAUAUUUCCAUGUCUGAUGCUGCACUCCACACAGCCUGACCUUUGCUUAUUUAGAAAUGGAG-----UCAAAGGUCACGAAAGUGUAGCAUUUGAACA
(((((..(((...)))..)))))...........((.(((((((((((........(.(((((((((....((((....)))).-----.))))))))).)..))))))))))).))... ( -34.50)
>consensus
AUCUUAAUCAAAGGGAAGGAAAAAUAUUUCCACAACUGAUGCUGCACACCACUCAGCCUGACCUUUGCUUGUUUAGAAAUGGAG_____UCAAAGGUCACAAAAGUGUAGCAUUUGAACA
.((((......))))..(((((....)))))......((((((((((.(......)..(((((((((....(((.......)))......))))))))).....))))))))))...... (-24.46 = -23.90 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:11 2006