Locus 1069

Sequence ID 3R_DroMel_CAF1
Location 3,292,080 – 3,292,199
Length 119
Max. P 0.778015
window1728

overview

Window 8

Location 3,292,080 – 3,292,199
Length 119
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 78.66
Mean single sequence MFE -26.98
Consensus MFE -17.89
Energy contribution -19.33
Covariance contribution 1.44
Combinations/Pair 1.26
Mean z-score -1.76
Structure conservation index 0.66
SVM decision value 0.55
SVM RNA-class probability 0.778015
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3292080 119 + 27905053
CAAAGCUGCACAGUGGGGAAGAGUAUCUUAUGUUUAAAAUGAGUACGUUUACAUAAAGUAUUUGAUUUCACUUUGCUUGCUGUUGACACAAAGCAGUAUUAGAAGGUAUAUAGUACAAA
((((((.(((.((((..(..(((((..((((((...(((((....)))))))))))..)))))..)..)))).)))..))).)))..........((((((.........))))))... ( -28.80)
>DroSec_CAF1 44995 119 + 1
CAAAGCUGCACAGUGGGCAAGAGUAUCUUAUGUUUAAAAUGAGUAGAUUUACAUAUAAUAUUUUAUUUCACUUUGCUUACUGUUGACACAAAGCAGUGUUGGAAGGUAUAUAGUACAAA
(((.((((((((((((((((((((((..(((((...((((......)))))))))..)))))).........))))))))))).........))))).)))....((((...))))... ( -25.80)
>DroSim_CAF1 46169 119 + 1
CAAAGCUGCACAGUGGGCAAGAGUAUCUUAUGUUUACAAUGAGUAGAUUUACAUAUAAUAUUUGAUUUCACUUUGCUUACUGUUGACACAAAGCAGUGUUGGGAGGUAUAUAGUACAAA
....((((((.((((((...((((((..(((((((((.....))))....)))))..))))))...)))))).)))...((.(..((((......))))..).))......)))..... ( -28.40)
>DroEre_CAF1 46772 117 + 1
CAAAGCUGCACAGUGUCAAAGAGCAUCUUGUGUAAAG--AAGGAAAGUUCGCAAAAAGUAUUUGAUUUCGCUUUGCUUACAGUUGACUCAAAGCUGUAUUAGAUGGUUUACAAUGCAAA
......((((...(((...(((.(((((...((((((--...((((.....((((.....)))).)))).)))))).(((((((.......)))))))..))))).)))))).)))).. ( -24.80)
>DroYak_CAF1 64379 110 + 1
CAAAGCUGCACAGUGGAGAAGAGUAUAUUAGGUUAAGUUUAGAAAACUUUACAAAAAGUACUUGAUUUCACUUUGCCUUUUGUUGACAAAAA---------GAAGGUGUGUAAUACAAA
......((((((((((((..((((((.((..((.(((((.....))))).))..)).))))))..)))))))..(((((((.((....)).)---------)))))))))))....... ( -27.10)
>consensus
CAAAGCUGCACAGUGGGCAAGAGUAUCUUAUGUUUAAAAUGAGUAAAUUUACAUAAAGUAUUUGAUUUCACUUUGCUUACUGUUGACACAAAGCAGUAUUAGAAGGUAUAUAGUACAAA
....((((((.((((((...((((((.((((((.................)))))).))))))...)))))).))).(((((((.......)))))))......)))............ (-17.89 = -19.33 +   1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:45 2006