Locus 1878

Sequence ID 2L_DroMel_CAF1
Location 5,154,767 – 5,154,887
Length 120
Max. P 0.605530
window3018

overview

Window 8

Location 5,154,767 – 5,154,887
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 86.72
Mean single sequence MFE -46.33
Consensus MFE -35.85
Energy contribution -34.72
Covariance contribution -1.13
Combinations/Pair 1.39
Mean z-score -2.30
Structure conservation index 0.77
SVM decision value 0.15
SVM RNA-class probability 0.605530
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5154767 120 + 22407834
UUCACCCUGGUCAAGACCAACGGUCAGCUGAUCAUCGAGAACUGUCGCAACAGCGAGGAGAAGACGCUGGUGCAGACGACCAUCGAUCAGUUGGCCGCAUCGCUGGCCCAGGUACGCGGU
...(((..(((((.((....(((((((((((...((((....(((((((.(((((.........))))).))).))))....)))))))))))))))..))..)))))..)))....... ( -47.10)
>DroVir_CAF1 75308 120 + 1
UUCACGCUGGUCAAGACCAACGGUCAGCUGAUCAUUGAGAACUGUCGCAACAGCGAGGAGAAGACGCUGGUGCAAUCGACCAUUGAUCAGCUGGCCGCGCAGCUAGCCCAAGUUCGUGGC
.((((((((((....)))).((((((((((((((.((.((....))(((.(((((.........))))).))).......)).)))))))))))))).))((((......)))).)))). ( -47.70)
>DroGri_CAF1 65645 120 + 1
UUCACUUUGGUCAAGACCAACGGCCAGCUGAUCAUUGAGAACUGUCGCAACAGCGAGGAGAAGACGCUGGUGCAAUCGACCAUUGAUCAGUUGGCCGCCCAGCUGGCCCAAGUCCGUGGC
...((((.(((((.(.....((((((((((((((.((.((....))(((.(((((.........))))).))).......)).)))))))))))))).....)))))).))))....... ( -47.90)
>DroWil_CAF1 41536 120 + 1
UUUACCCUGGUCAAAACAAAUGGACAGCUAAUUAUUGAGAAUUGUCGCAACAGUGAGGAGAAGACACUGGUGCAGACGACAAUCGAUCAAUUGGCUGCCUCAUUGGCUCAGGUCCGUGGC
.....(((((((((.......((.((((((((((((((...((((((((.(((((.........))))).))).)))))...))))).)))))))))))...))))).))))........ ( -41.80)
>DroMoj_CAF1 94848 120 + 1
UUCACGCUGGUCAAGACCAACGGCCAGCUGAUCAUUGAGAAUUGUCGCAACAGCGAGGAGAAGACGCUGGUGCAGUCGACCAUUGAUCAGUUGGCCGCUCAGCUAGCCCAAGUGCGCGGC
....(((((((....)))).((((((((((((((.((....((.((((....)))).))...(((((....)).)))...)).))))))))))))))....((..........))))).. ( -48.20)
>DroPer_CAF1 46143 120 + 1
UUCACCCUGGUCAAGACCAACGGCCAGCUGAUUAUCGAGAAUUGCCGCAACAGUGAGGAGAAGACACUGGUGCAGACGACCAUCGAUCAGUUGGCCGCUUCCCUGGCCCAAGUUCGGGGC
.......((((....)))).(((((((((((...((((...((((.(((.(((((.........))))).))).).)))...)))))))))))))))...((((((.......)))))). ( -45.30)
>consensus
UUCACCCUGGUCAAGACCAACGGCCAGCUGAUCAUUGAGAACUGUCGCAACAGCGAGGAGAAGACGCUGGUGCAGACGACCAUCGAUCAGUUGGCCGCCCAGCUGGCCCAAGUCCGUGGC
.......((((....)))).(((((((((((((.....(......)(((.(((((.........))))).)))...........)))))))))))))....((.(((....))).))... (-35.85 = -34.72 +  -1.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:33 2006