Locus 2979

Sequence ID X_DroMel_CAF1
Location 7,924,399 – 7,924,519
Length 120
Max. P 0.693065
window4888

overview

Window 8

Location 7,924,399 – 7,924,519
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.06
Mean single sequence MFE -43.46
Consensus MFE -29.45
Energy contribution -29.23
Covariance contribution -0.22
Combinations/Pair 1.41
Mean z-score -1.49
Structure conservation index 0.68
SVM decision value 0.33
SVM RNA-class probability 0.693065
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7924399 120 - 22224390
GCCGGACUCUUUGGACUGAUCAAUCUGGUGCCCUAUUGCGGCACCAAGUUCGCCGUUCGUGGCUACAUGGCCGCCCUCGUUGAGGAGCUGCGUCAGAAGAACCCACAGAACAACGUAAGU
...((..(((((.(((.....((..((((((((....).)))))))..)).((.((((((((((....)))))).(((...))))))).))))).)))))..))........((....)) ( -40.90)
>DroVir_CAF1 325 120 - 1
GCCGGACUCUUUGGCCUGCCCAAUCUGGUGCCCUACUGCGGCACCAAAUUUGCCGUGCGCGGCUAUAUGGCUGCCCUGGCCGAGGAGCUGCGCCAAAAGAAUCCACAGAACAAUGUAAGC
...(((.(((((((((.((((....((((((((....).))))))).....((((.(.((((((....))))))).))))...)).)).).))).))))).)))(((......))).... ( -47.70)
>DroGri_CAF1 1535 120 - 1
GCAGGACUCUUUGGCCUGCCCAAUCUCGUCCCGUACUGCGGCACCAAGUUCGCCGUUCGCGGCUACAUGUCUUCCCUGGCCGAGGAGCUCCGCCUGAAGAAUCCUCAGACCAAUGUAAGU
((.(((((((((((((........(..((.((((...(((((.........)))))..))))..))..)........)))))))))).)))))((((.......))))............ ( -38.09)
>DroWil_CAF1 318 120 - 1
GCUGGACUCUUUGGCCUGGCCAAUCUGGUGCCCUAUUGUGGUACCAAAUUCGCUGUUCGUGGAUAUAUGCUGGCCCUGGCCGAGGAAUUGCGUCAUGCCAAUCCCAACUCAAAUGUGAGU
..(((..(((((((((.(((((...((((((((....).))))))).((((((.....))))))......)))))..)))))))))((((.(.....))))).)))(((((....))))) ( -45.60)
>DroMoj_CAF1 344 120 - 1
GCCGGUCUCUUUGGCCUGGCCAAUUUGGUGCCCUAUUGCGGCACAAAGUUCGCCGUACGUGGCUACAUGGCAGCCCUGGCUGAGGAGCUGCGAAAGCAGAAUCCGCUGUCCAAAGUAAGU
(((((((.....)))).(((.(((((.((((((....).))))).))))).)))......)))(((.(((((((....)))).(((.((((....))))..))).....)))..)))... ( -47.60)
>DroAna_CAF1 316 120 - 1
GCCGGACUCUUCGGUCUCAUCAACCUGGUGCCCUACUGCGGCACCAAGUUCGCCGUCCGCGGCUACAUGACCGCCCUGGCCGAGGAACUGCGCCAGAAGAACCCCCAAAACAAUGUAAGA
...((..(((((((((.....(((.((((((((....).))))))).))).((((....)))).....))))....((((((......)).)))))))))..))................ ( -40.90)
>consensus
GCCGGACUCUUUGGCCUGACCAAUCUGGUGCCCUACUGCGGCACCAAGUUCGCCGUUCGCGGCUACAUGGCCGCCCUGGCCGAGGAGCUGCGCCAGAAGAAUCCACAGAACAAUGUAAGU
(((((.((((((((((.....(((.(((((((.......))))))).))).((((....))))..............))))))))))))).))........................... (-29.45 = -29.23 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:13 2006