Locus 704

Sequence ID 2R_DroMel_CAF1
Location 3,455,338 – 3,455,439
Length 101
Max. P 0.924469
window1235

overview

Window 5

Location 3,455,338 – 3,455,439
Length 101
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 78.69
Mean single sequence MFE -29.58
Consensus MFE -19.16
Energy contribution -20.63
Covariance contribution 1.48
Combinations/Pair 1.30
Mean z-score -2.07
Structure conservation index 0.65
SVM decision value 1.16
SVM RNA-class probability 0.924469
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3455338 101 + 20766785
CAAAGGACCUAUGAAUUCGACAUAGCCGAUGUUGGAAUCCGACGGCGCCUAGUGCGCCGAUUCUACGGCAUAUUAAUCGUAGGUUAUACAGCUU---CCAUUUU
.....(((((((((.......(((((((..(((((...)))))(((((.....))))).......)))).)))...))))))))).........---....... ( -30.80)
>DroVir_CAF1 6576 103 + 1
-GACGCAGCUACGCAUUCGAUAUACCCGACAUAAGGCCAAGGCGUCGGUUGGUGCGUCGUUUUUAUUAUUUGCUAAUGGUAGGUCGUUCAGUUGAAACUAUUUA
-((((((.(..((....))......(((((.....((....)))))))..).))))))(((((.(((((((((.....)))))).....))).)))))...... ( -22.90)
>DroSec_CAF1 6622 101 + 1
CAAAGGACCUAUGAAUUCGACAUAACCGAUGUUGGAAUCCGACGUCGCCUAGUGCGCCGAUUCUACGGCAUACUAAUCGUAGGUUAUUCAGAUU---CCAUUUU
.....(((((((((............(((((((((...)))))))))..(((((.((((......)))).))))).))))))))).........---....... ( -33.50)
>DroSim_CAF1 9421 101 + 1
CAACGAACCUAUGAAUUCGACAUUACCGAUGUUGGAAUCCGACGGCGCCUAGUGCGCCGAUUCUACAGCAUACUAGUCGUAGGUUAUUCAAUUU---CCAUUUU
.....(((((((((.(((((((((...)))))))))......((((((.....)))))).................))))))))).........---....... ( -29.80)
>DroEre_CAF1 6143 101 + 1
CAAAGGACUUAUGAAUUCGACAUAAGCGAUAUUGGCCUACGACGGCGCCUAGUGCGCCGAUUCUAUGGCAUACUAAUUGUAGGUUAUCCAGGUU---CCAUUUU
....(((((((((.......))))))......((((((((((((((((.....))))))......(((....))).))))))))))))).....---....... ( -29.40)
>DroYak_CAF1 6372 101 + 1
CAAAGGACCUAUGAAUUCGACAUAACCGAUAUCGGUCUUCGACGGCGCCUAGUGCGCCGAUUCUAUGGCAUUCUAAUCGUAGGUUAUCCAAGCU---CAAUUUU
.....(((((((((..((((....((((....))))..))))((((((.....)))))).................))))))))).........---....... ( -31.10)
>consensus
CAAAGGACCUAUGAAUUCGACAUAACCGAUAUUGGAAUCCGACGGCGCCUAGUGCGCCGAUUCUACGGCAUACUAAUCGUAGGUUAUUCAGGUU___CCAUUUU
.....(((((((((.((((((((.....))))))))......((((((.....)))))).................)))))))))................... (-19.16 = -20.63 +   1.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:02 2006