Locus 5435

Sequence ID 2R_DroMel_CAF1
Location 17,488,797 – 17,488,899
Length 102
Max. P 0.609365
window8671

overview

Window 1

Location 17,488,797 – 17,488,899
Length 102
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 81.47
Mean single sequence MFE -24.09
Consensus MFE -13.81
Energy contribution -16.31
Covariance contribution 2.50
Combinations/Pair 1.06
Mean z-score -2.05
Structure conservation index 0.57
SVM decision value 0.15
SVM RNA-class probability 0.609365
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17488797 102 - 20766785
UCAACAAAUAUUUUCUCUCAGUGUGCACACAUGG----------UG----UACAU----AUGUACAUUUAUUGAAAUUAUUUGUUGCCUAAUUUGAUCCUGCUUCUGGGCGUCAAAAUAU
.(((((((((.((((....((((((((...(((.----------..----..)))----.))))))))....)))).))))))))).....(((((((((......))).)))))).... ( -27.20)
>DroSec_CAF1 16608 112 - 1
UCCACAAAUACUUUCUCUCAGUGUGCACAUACGGUGCUACUUGAUG----UACAU----AUGUACAUUUAUUGAAAUGACUUGUUUCCUAAUUUGAUCCUGCUUCUGGGCGUCAAAAUAU
...((((....((((....((((.((((.....)))))))).((((----(((..----..)))))))....))))....)))).......(((((((((......))).)))))).... ( -22.10)
>DroSim_CAF1 29466 112 - 1
UCCACAAAUACUUUCUCUCAGUGUACACAUAUGGUGCUAUUUGAUG----UACAU----AUGUACAUUUAUUGAAAUGAUUUGUUUCCUAAUUUGAUCCUGCUUCUGGGCGUCAAAAUAU
...((((((..((((....((((((((..((((.(((........)----)))))----)))))))))....))))..)))))).......(((((((((......))).)))))).... ( -24.20)
>DroYak_CAF1 25650 111 - 1
---------GUUUUCUCUCAGUGUGCACAUAUGUUGCCACUUGAUGUAUGUACAUAUUUAUGUACAUUUAUUGAAAUUAUCUGUUGCCUAAUUUGAUCCUGCUCCUGGGCGCCAAAACAU
---------(((((......(((.((((....).))))))(..(((.((((((((....)))))))).)))..)........(.((((((...............)))))).)))))).. ( -22.86)
>consensus
UCCACAAAUACUUUCUCUCAGUGUGCACAUAUGGUGCUACUUGAUG____UACAU____AUGUACAUUUAUUGAAAUGAUUUGUUGCCUAAUUUGAUCCUGCUUCUGGGCGUCAAAAUAU
...(((((((.((((....((((((((...(((...................))).....))))))))....)))).))))))).......(((((((((......))).)))))).... (-13.81 = -16.31 +   2.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:46 2006