Locus 1140

Sequence ID 2R_DroMel_CAF1
Location 4,541,530 – 4,541,620
Length 90
Max. P 0.671911
window2006

overview

Window 6

Location 4,541,530 – 4,541,620
Length 90
Sequences 5
Columns 90
Reading direction reverse
Mean pairwise identity 89.22
Mean single sequence MFE -26.66
Consensus MFE -19.46
Energy contribution -20.86
Covariance contribution 1.40
Combinations/Pair 1.15
Mean z-score -1.87
Structure conservation index 0.73
SVM decision value 0.29
SVM RNA-class probability 0.671911
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4541530 90 - 20766785
GCCAGAAUCCGGUGUACUAUGUUUUUAAUUGCUCUUGCUGCAUGCAAGUGUAAUUUGGGGCACAGCUGGGUGGCAAAACAGGAAAAUUUC
((((...((((((......(((((..((((((.(((((.....))))).))))))..)))))..))))))))))................ ( -28.80)
>DroSec_CAF1 15109 89 - 1
GCUAGAAUCCGGUGUGCUUUGGUUUUAAUUGCUCUUGCUGCAUGCAAGUGUAAUUUGGGGCACAGCUGGGUGGCAAAACAGGAAAAU-UC
(((...(((((((((((((..(.....(((((.(((((.....))))).))))))..))))))).))))))))).............-.. ( -32.10)
>DroSim_CAF1 15122 90 - 1
GCUAGAAUCCGGUGUGCUUUGGUUUUAAUUGCUCUUGCUGCAUGCAAGUGUAAUUUGGGGCACAGCUGGGUGGCAAAACAGGAAAAUUUC
(((...(((((((((((((..(.....(((((.(((((.....))))).))))))..))))))).)))))))))................ ( -32.10)
>DroEre_CAF1 14803 89 - 1
GCUAGAAUCCGGUGUGGUGUGAUUGUAGUUGCUCUUGCUGCAUGCGAAUAUAAUUUGGGGCACAGCUGGGAAACA-AACAGGAAAGUUUU
.......((((((...(((((((((((.((((...........)))).)))))))....)))).)))))).....-.............. ( -19.20)
>DroYak_CAF1 14915 90 - 1
GCUAGAAUCCGGUGUAAUAUGGUUUUAGUUGCUCUUACUGCAUGCAAAUGUAAUUUGGGGCACAGCUGGCUAGCAAAACAGGAAAAUUUA
(((((...(((((.(((.......)))((.(((((...(((((....)))))....))))))).))))))))))................ ( -21.10)
>consensus
GCUAGAAUCCGGUGUGCUAUGGUUUUAAUUGCUCUUGCUGCAUGCAAGUGUAAUUUGGGGCACAGCUGGGUGGCAAAACAGGAAAAUUUC
((((...(((((((((((........((((((.(((((.....))))).))))))...)))))).)))))))))................ (-19.46 = -20.86 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:28 2006