Locus 2073

Sequence ID 3R_DroMel_CAF1
Location 5,894,651 – 5,894,761
Length 110
Max. P 0.640482
window3384

overview

Window 4

Location 5,894,651 – 5,894,761
Length 110
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 86.35
Mean single sequence MFE -30.75
Consensus MFE -21.61
Energy contribution -22.17
Covariance contribution 0.56
Combinations/Pair 1.07
Mean z-score -1.66
Structure conservation index 0.70
SVM decision value 0.22
SVM RNA-class probability 0.640482
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5894651 110 + 27905053
CCAUUACCCAACCCUCGCUGAGUAAACAGACACCGUCGACCGCAAGUCAACCAA----CCAACCAAACUCGUGAAUCAACCCUCUUCAGAGU--GACGGCUACGA-GGGGA---UGGGCU
......((((.(((((((((......)))...(((((((.(....)))......----........((((.((((.........))))))))--)))))...)))-)))..---)))).. ( -34.30)
>DroSim_CAF1 19239 105 + 1
CCAUUACCCAACCCUCGCUGAGUAAACAGACACCGUCGACCGCAAGUCAAC------------CAAACUCAUGAAUCAACCCUCUUCAGAGA--GUCGGCUACGA-GGGGAGGGUGGGCU
...((((((..(((((((((......))).....(((((((....).....------------....(((.((((.........))))))).--))))))..)))-)))..))))))... ( -35.30)
>DroEre_CAF1 19318 113 + 1
CCAUUACCCAACCCUCGCUGAGUAAACAGACACCGUCGACCGCAAGUCAACCAA----ACCAGCAAACUCGUGAAUCCACCCUCUUUAGAGACUGUAGGCUACAAAGGGGA---UGGGCG
......((((.((((.((((.((.....(((...)))((.(....)))......----))))))......(((...((((.(((....)))...)).)).)))...)))).---)))).. ( -26.40)
>DroYak_CAF1 18442 117 + 1
CCAUUACCCAACCCUCGCUGCGUAAACAGACACCGUCGACCGCAAGUCAACCAACCAACCAAGCAAACUCGUGAAUCCACCCUCUUUAGAGACUGCAGGCUACGAAGGGGA---UGGGCU
......((((.((((((..((.......(((...)))((.(....)))..............(((.....(((....))).(((....)))..)))..))..)).))))..---)))).. ( -27.00)
>consensus
CCAUUACCCAACCCUCGCUGAGUAAACAGACACCGUCGACCGCAAGUCAACCAA____CCAAGCAAACUCGUGAAUCAACCCUCUUCAGAGA__GUAGGCUACGA_GGGGA___UGGGCU
......((((....((((.((((.....(((...)))((.(....)))..................))))))))......(((((((..((........))..)))))))....)))).. (-21.61 = -22.17 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:37 2006