Locus 3126

Sequence ID 3R_DroMel_CAF1
Location 8,235,081 – 8,235,189
Length 108
Max. P 0.660369
window5066

overview

Window 6

Location 8,235,081 – 8,235,189
Length 108
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 75.86
Mean single sequence MFE -29.85
Consensus MFE -17.33
Energy contribution -17.66
Covariance contribution 0.33
Combinations/Pair 1.11
Mean z-score -1.54
Structure conservation index 0.58
SVM decision value 0.27
SVM RNA-class probability 0.660369
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8235081 108 + 27905053
UUUCCACGCUGGCCACAUUCAAUUACGUCAUGGCCACUUUGACUGGUCCCGGACUGAUGCCAAAACAGUGGCAUCCCAAGGUAACCGGAG----AA-CCA---GAAGCGCACGGCA
...((.(((((((((....(......)...))))).......((((((((((((((((((((......)))))))....)))..)))).)----.)-)))---).))))...)).. ( -36.70)
>DroVir_CAF1 26712 113 + 1
UCUCCACGUUGGCCACAUUCAAUUACAUCAUGGCCACGGUGACAGGUCCGGGCCUGCUGCCAAAACAAUGGCAGCCAAAGGUAA-ACCAAUACAAA-CGUUGUCCAGCCCC-AAGA
.......((((((.((...............((((.(((........))))))).(((((((......)))))))....((...-.))........-.)).).)))))...-.... ( -33.20)
>DroPse_CAF1 104 102 + 1
UCUCCACGCUGGCCACAUUCAAUUACGUCAUGGCCACGCUGACAGGUCCCGGCCUACUGCCAAGACAAUGGCAGCCAAAGGUAAAUAACG--C-AA-GUA---GAAGC-C------
....((.((((((((....(......)...)))))).))))..((((....)))).((((((......)))))).....(((.....((.--.-..-)).---...))-)------ ( -27.90)
>DroMoj_CAF1 4187 112 + 1
UCUCCACGCUGGCCACAUUCAAUUACAUCAUGGCCACGCUGACAGGUCCGGGUCUACUGCCCAAACAAUGGCAGCCAAAGGUAACAGCAAUACAAA-CGA---CAAUCCCUCGGAA
..(((..(.((((((...............)))))))((((......((.((....(((((........)))))))...))...))))........-...---.........))). ( -26.26)
>DroAna_CAF1 2866 98 + 1
UCUCCACUUUGGCCACUUUCAAUUACGUCAUGGCCACGCUGACAGGUCCCGGCCUGAUGCCCAAACAGUGGCAACCGAAGGUAACAGAGG----AAGCCA---GA-----------
......(((((((((((........(((((.((((..(((....)))...))))))))).......)))))).(((...)))..))))).----......---..----------- ( -28.46)
>DroPer_CAF1 104 95 + 1
UCUCCACGCUGGCCACAUUCAAUUACGUCAUGGCCACGCUGACAGGUCCCGGCCUACUGCCAAGACAAUGGCAGCCAAAGGUAAAUAACG--C-AA-GU-----------------
...((..((((((((....(......)...)))))).))....((((....)))).((((((......)))))).....))......((.--.-..-))----------------- ( -26.60)
>consensus
UCUCCACGCUGGCCACAUUCAAUUACGUCAUGGCCACGCUGACAGGUCCCGGCCUACUGCCAAAACAAUGGCAGCCAAAGGUAACAGAAG__C_AA_CCA___GAAGC_C______
....((((.((((((...............)))))))).))..........((((.(((((........)))))....)))).................................. (-17.33 = -17.66 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:40 2006