Locus 5940

Sequence ID 3L_DroMel_CAF1
Location 15,918,668 – 15,918,779
Length 111
Max. P 0.999108
window9486

overview

Window 6

Location 15,918,668 – 15,918,779
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 73.92
Mean single sequence MFE -21.54
Consensus MFE -14.14
Energy contribution -12.90
Covariance contribution -1.24
Combinations/Pair 1.30
Mean z-score -2.73
Structure conservation index 0.66
SVM decision value 3.38
SVM RNA-class probability 0.999108
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15918668 111 + 23771897
UUUGCAGCGACCAAAAUCUACAUACA---------UACAUAUAUAUAUAAUAAUUAAUCUAGAAGAUACAUACAUUGACAAAAAAGUAGAUAUUUUGUCGCUGCGAAGACAAUAAUUUAC
(((((((((((.(((((((((.....---------.....................(((.....))).((.....))........)))))).))).)))))))))))............. ( -25.40)
>DroSec_CAF1 20346 89 + 1
UUUGCAGCGACCAAAGUUU---------------------------AUAAUAAUUAAUCUAGAAGAUA----CAUUGAUAAAAAAGUAGAUAUUUUGUCGCUGCGUAGACAACUUUUUAC
...((((((((.(((((((---------------------------((....((((((.((.....))----.))))))......)))))).))).))))))))(((((......))))) ( -19.30)
>DroSim_CAF1 20653 89 + 1
UUUGCAGCGACCAAAGUGU---------------------------ACAAUAAUUAAUCUAGAAGAUA----CAUUGAUAAAAAAGUAGAUAUUUUGUCGCUGUGUAGACAACAAUUUAC
...((((((((.(((((((---------------------------......((((((.((.....))----.))))))..........)))))))))))))))(((((......))))) ( -17.29)
>DroEre_CAF1 17980 115 + 1
AUUAUAGCGACCAAAAUCUACA-ACAUGUGCUGUACGUAUAUACGAGUAGAAAUUUAUUUAGAAGUUA----CAUAGACAAAAAUGUACUUAUUUUGUCGCUGUGUAGACAACAGUUUAC
...((((((((.(((((((((.-..((((((.....))))))....)))))...........((((.(----(((........)))))))).))))))))))))((((((....)))))) ( -27.20)
>DroYak_CAF1 18339 103 + 1
UUUGCAGCGACCAAAAUCUACA-------------UGCAUAUACAAAUAAUAAUUUAUCUUGAAGAUA----CAUAGACAAAAAUGUACCUAUUUUGUCGCUGUGUAGACAACAAUUUAC
...((((((((.(((((.....-------------........(((((((....)))).))).((.((----(((........))))).)))))))))))))))(((((......))))) ( -18.50)
>consensus
UUUGCAGCGACCAAAAUCUACA________________AUAUA___AUAAUAAUUAAUCUAGAAGAUA____CAUUGACAAAAAAGUAGAUAUUUUGUCGCUGUGUAGACAACAAUUUAC
..(((((((((.(((((.......................................(((.....)))......(((........)))....))))))))))))))............... (-14.14 = -12.90 +  -1.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:38 2006