Locus 3515

Sequence ID X_DroMel_CAF1
Location 9,430,019 – 9,430,128
Length 109
Max. P 0.942388
window5755

overview

Window 5

Location 9,430,019 – 9,430,128
Length 109
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 81.57
Mean single sequence MFE -23.10
Consensus MFE -15.62
Energy contribution -16.14
Covariance contribution 0.52
Combinations/Pair 1.17
Mean z-score -2.33
Structure conservation index 0.68
SVM decision value 1.33
SVM RNA-class probability 0.942388
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9430019 109 + 22224390
CCAAUACGCAGGCAGCAACGAAAAAUCCUAUUGGCUACUUUUAAAUGCGCUACCGACAUUAAAUGGAUAUAAA--UACAUGUGUCUCUAUCAAAUAAAAA-AAUUUUGCGUA
....(((((((((.(((...((((..((....))....))))...))))))...(((((...(((........--..))))))))...............-.....)))))) ( -18.10)
>DroSec_CAF1 11775 106 + 1
CCAAUACGCAGGCAGCAAAU-AAAAUCCGAUUGGCGACUUUCAAAUGCGCUACCAUCAUUAAAUGGAUAUAAA--UACAUUUGUCUCUAUCAAAUAA--A-AGUGUUGCCUA
.........((((((((...-.......((((((((.(........))))))..)))(((..(((((.(((((--....))))).)))))..)))..--.-..)))))))). ( -23.10)
>DroSim_CAF1 12488 108 + 1
CCAAUACGCAGGCAGCAAAU-AAAAUCCGAUUGGCGACUUUCAAAUGCGCUACCAUCAUUAAAUGGAUAUAAA--UACAUUUAUCUCUAUCAAAUAAAAA-AGUGUUGCCUA
.........((((((((...-.......((((((((.(........))))))..)))(((..(((((.(((((--....))))).)))))..))).....-..)))))))). ( -23.10)
>DroEre_CAF1 11923 112 + 1
CCAACACGCAGGCAGCAACGAAAAGUCCGAUUGGCGACUUUUAGAUGCGCUACCAUCGUUAAAUGGUUAUAAAAGAAAACAUGCCUCUAAUAAAUAAAUUAAUUGUUGCCUA
.........(((((((((..((((((((.....).)))))))(((.(((..(((((......)))))..............))).)))..............))))))))). ( -24.09)
>DroYak_CAF1 12411 109 + 1
CCAACACGCAGGCAGCAACGAAAAAUCCAAUUGGCGACUAUUAAGUGCGCUAUCAUCAUUAAAUGGUUAUA---GCAAAUAUUUCUCUGAUAAAAAUAGAAAUGGCUGCCUA
.........(((((((.................((.(((....)))))(((((.(((((...))))).)))---))...(((((((.(.......).)))))))))))))). ( -27.10)
>consensus
CCAAUACGCAGGCAGCAACGAAAAAUCCGAUUGGCGACUUUUAAAUGCGCUACCAUCAUUAAAUGGAUAUAAA__UACAUAUGUCUCUAUCAAAUAAAAA_AGUGUUGCCUA
.........((((((((..............(((((.(........))))))((((......)))).....................................)))))))). (-15.62 = -16.14 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:19 2006