Locus 661

Sequence ID 3L_DroMel_CAF1
Location 1,962,253 – 1,962,352
Length 99
Max. P 0.888855
window1010

overview

Window 0

Location 1,962,253 – 1,962,352
Length 99
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 72.07
Mean single sequence MFE -23.54
Consensus MFE -12.68
Energy contribution -13.52
Covariance contribution 0.84
Combinations/Pair 1.17
Mean z-score -1.86
Structure conservation index 0.54
SVM decision value 0.95
SVM RNA-class probability 0.888855
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1962253 99 - 23771897
AACGCUCAAAACAUGGAUUUUAAACACCACCCUUUGAUAAAGUCCAUCCUUAUUGGCUUGCCAUUUUAGUUGGUUCC-----------UAGAAAUCAUUGUUUCUGGUGC
..((((..(((((..((((((....((((..((..(((.(((.(((.......))))))...)))..)).))))...-----------..))))))..)))))..)))). ( -19.70)
>DroSec_CAF1 13413 96 - 1
---GCUCAAAACAUUAACUUUAAACACCACCCGAUGAUGAAGUCCAUCAUUAUUGGCUUGCCAUGUUGGUUCUUCAC-----------UAGAAAACAUUGUUUCUGGUGC
---...........................((((((((((......))))))))))...(((.....)))....(((-----------((((((......))))))))). ( -21.50)
>DroSim_CAF1 27080 89 - 1
---GUUGGACA-----A--CUAAACAUCACCCGAUGAUGAAGUCCAUCAUUAUUGGCUUGCCAUGAUAGUUCUCCAC-----------UAGAAAACAUUGUUUCUGGUGC
---...(((.(-----(--(((..(((((.((((((((((......))))))))))..))..))).))))).)))((-----------((((((......)))))))).. ( -24.90)
>DroEre_CAF1 13216 99 - 1
GAAACCAAAGACAUGAAUUUUUAACACCAGCCAGUGAUGGAGUCCAACAUUAUUGGCUUGCCAUCUUGGAAGUUUCC-----------UAGAAAAUAUUGUUUCUGGUGC
...((((.(((((...............(((((((((((........))))))))))).....(((.(((....)))-----------.)))......))))).)))).. ( -27.80)
>DroYak_CAF1 13511 110 - 1
GAAACGAAAAACUUGAACUUUAAACACCGCCCGUUGAUGGUGUUCAACAUUAUUGGCUUUUCAUGUUAGAUGUUUUCUAUAUGCUUCCAAGAAAAGAUUGUUUGUGGUGC
........................((((((..((..((((((.....))))))..))(((((.((..((((((.....)))).))..)).)))))........)))))). ( -23.80)
>consensus
_A_GCUAAAAACAUGAACUUUAAACACCACCCGAUGAUGAAGUCCAUCAUUAUUGGCUUGCCAUGUUAGUUGUUUAC___________UAGAAAACAUUGUUUCUGGUGC
........................((((..(((((((((........))))))))).................................(((((......))))))))). (-12.68 = -13.52 +   0.84) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:54 2006