Locus 3388

Sequence ID 3L_DroMel_CAF1
Location 9,919,677 – 9,919,770
Length 93
Max. P 0.726255
window5296

overview

Window 6

Location 9,919,677 – 9,919,770
Length 93
Sequences 3
Columns 118
Reading direction forward
Mean pairwise identity 71.55
Mean single sequence MFE -23.20
Consensus MFE -13.34
Energy contribution -14.80
Covariance contribution 1.46
Combinations/Pair 1.22
Mean z-score -1.60
Structure conservation index 0.58
SVM decision value 0.41
SVM RNA-class probability 0.726255
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9919677 93 + 23771897
-----GCAAG--------------------UUGAUUCGAAUAGGCCAAAUUUUUCGAAUUAGAAAAAUAAAAGUACUCGCUACUUUCCAAUACUUUUUGAUUCAAGUUUCAGGACGUU
-----(.((.--------------------((((.(((((.((.....(((((((......))))))).((((((.....))))))......)).))))).)))).)).)........ ( -16.20)
>DroEre_CAF1 74082 115 + 1
---UUUCAAGUACAAGGAUGUCACAUAUUUUUGAUUCUCAUAAGCCAAGUUUGUGGAGCUAAGAAAGUAAAAGUUCCUGCUACUUUCAAAUACACUUUGAUUCAAGUUUCAGGACGUA
---((((.....(((((((((...))))))))).(((.(((((((...))))))))))....))))......((.((((..(((((((((.....)))))...))))..))))))... ( -22.80)
>DroYak_CAF1 74613 115 + 1
AGCUUUCAAGUG---GGAUAUCCCAGAUUUUUGAUUCUCAUAAGCCAAGCUUGUGGAAUUAAAAAUAUAAAAGUUCAUGCCACUUUCAAAUACUUUUUGAUUCAAGUUUCAGGACGUA
..........((---((....)))).(((((((((((.(((((((...))))))))))))))))))......((((.((..(((((((((.....)))))...))))..))))))... ( -30.60)
>consensus
___UUUCAAGU____GGAU_UC_CA_AUUUUUGAUUCUCAUAAGCCAAGUUUGUGGAAUUAAAAAAAUAAAAGUUCAUGCUACUUUCAAAUACUUUUUGAUUCAAGUUUCAGGACGUA
...........................(((((((((((.((((((...))))))))))))))))).......((.((((..(((((((((.....)))))...))))..))))))... (-13.34 = -14.80 +   1.46)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:55 2006