Locus 1805

Sequence ID 2R_DroMel_CAF1
Location 6,759,195 – 6,759,315
Length 120
Max. P 0.691487
window2995

overview

Window 5

Location 6,759,195 – 6,759,315
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 77.78
Mean single sequence MFE -22.00
Consensus MFE -13.20
Energy contribution -15.60
Covariance contribution 2.40
Combinations/Pair 1.10
Mean z-score -1.77
Structure conservation index 0.60
SVM decision value 0.33
SVM RNA-class probability 0.691487
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6759195 120 + 20766785
UAUAUGUUUAAAAACAAAAAUAGGCGUUUACCCGGUAGCACUGAACCUUGGAAAACCAAUAUAGUUUAGUCUUAAAUUAUAUUGUUUUAAACAAUCGUCUUAUGAUUUGGACAAUCAUUU
....(((((((((............((((.((.(((........)))..)).))))((((((((((((....)))))))))))))))))))))...((((........))))........ ( -24.00)
>DroSec_CAF1 10032 120 + 1
UAUUUGUUUAAAAACAAAAAUAGGUGUUUACCCGGUAGCACUGAACCUUGGAAAACCAAUAUAGUUUAGUCUUAAAUUAUAUUGUUUUAAACAAUCGUUUUAUGUUUUGGACAAUCAUUU
...((((((((((...(((((...((((((((.(((........)))..)).....((((((((((((....))))))))))))...))))))...)))))...))))))))))...... ( -24.60)
>DroSim_CAF1 12735 120 + 1
UAUUUGUUUCAAAACAAAAAUAGGUGUUUACCCGGUAGCACUGAACCUUGGAAAACCAAUAUAGUUUAGUCUUAAAUUAUAUUGUUUUAAACAAUCGUUUUAUGUUUUGGACAAUUAUUU
...(((((.((((((((((((...((((((((.(((........)))..)).....((((((((((((....))))))))))))...))))))...))))).))))))))))))...... ( -26.60)
>DroEre_CAF1 9650 99 + 1
UCUUUGUUUGAAAACAAAAAGAGCUGUUUU-UCAUUAGCACCGAACCUUGGAAAAGCAAUAUAGUUAAUUCCUAUAAUAUAUUGUUUUGAACAAUCUU--------------------UU
...((((((.(((((((.......((((((-((...((........))..)))))))).(((((.......))))).....)))))))))))))....--------------------.. ( -17.00)
>DroYak_CAF1 12526 99 + 1
UCUUUGUUUAAAAACAAAAAGAGGAGUUUU-UUGUUAGCCCUGAACCUUGGGAAACCAAUAUAGUUAAAUUCUAUAAUUUAUUGUUUUCUACAAUCGU--------------------UU
...((((...(((((((....(((.(((..-.....)))))).....((((....))))(((((.......))))).....)))))))..))))....--------------------.. ( -17.80)
>consensus
UAUUUGUUUAAAAACAAAAAUAGGUGUUUACCCGGUAGCACUGAACCUUGGAAAACCAAUAUAGUUUAGUCUUAAAUUAUAUUGUUUUAAACAAUCGU_UUAUG_UUUGGACAAU_AUUU
...((((((((((.(((.....((((((........)))))).....)))......((((((((((((....)))))))))))))))))))))).......................... (-13.20 = -15.60 +   2.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:32 2006