Locus 6017

Sequence ID 3R_DroMel_CAF1
Location 15,843,172 – 15,843,292
Length 120
Max. P 0.698414
window9818

overview

Window 8

Location 15,843,172 – 15,843,292
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 71.56
Mean single sequence MFE -46.73
Consensus MFE -20.18
Energy contribution -20.47
Covariance contribution 0.28
Combinations/Pair 1.54
Mean z-score -1.81
Structure conservation index 0.43
SVM decision value 0.35
SVM RNA-class probability 0.698414
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15843172 120 + 27905053
CAAUGUCACGCCCACCAGCAACGUCCUCAUCCUGGGAGCCUGCCCAACGGCUGUGGCGGCCGGCAUAUGCGCAAAGGCCAUCGGGGCCAAGCGUGUGGCCAUUGCCGGAUGUAUGGCUCC
....((((((((.....(((...((((......))))...))).....))).)))))((((.((......))...))))...(((((((.((((.((((....)))).)))).))))))) ( -51.60)
>DroGri_CAF1 11030 120 + 1
GGACAUCUCGCCCACGAGCAAUGUGCUAAUUAUUGGCACCACUCCAACGGCCGUUUCGGCCGCGAUGUGCGCGAUGGCAAUCGGUGCUAAAAAGGUGACCAUCGCUGGCACCAUGGAAAG
(.((((((((....))))..)))).)......((((((((.......((((((...)))))).(((.(((......))))))))))))))...((((.(((....)))))))........ ( -43.20)
>DroEre_CAF1 5722 120 + 1
CAACGUCACGCCCACCAGCAAUGUCCUCAUCCUGGGAUCCUGCCCAACGGCAGUGGCGGCCGGCAUAUGCGCGAAGGCCAUCGGAGCCAAGCGUGUGGCCAUAGCCGGAUGUAUGGCUCC
....((((((((.....(((..(((((......)))))..))).....))).)))))((((.((......))...))))...(((((((.((((.((((....)))).)))).))))))) ( -54.40)
>DroWil_CAF1 7896 120 + 1
UAAUAUUACGCCAACCAGUAGUGUCCUCAUUAUUGGAUCUUGUCCAACGGCAGUGGCUGCCGCCAUGUGCUCAACAGCAAUUGGUUGUAAACAGGUGGUCAUAGCUAGCACCAUGAACUC
.........((...(((((((((....)))))))))............(((.(((((..((((((..((((....))))..))))((....))))..))))).))).))........... ( -36.10)
>DroYak_CAF1 7254 120 + 1
CAACGUCACGCCCACCAGUAAUGUACUCAUCCUGGGAUCCUGCCCAACGGCAGUGGCGGCCGGCAUAUGCGCAAAGGCCAUCGGAGCCAAGCGUGUGGCCAUAGCCGGAUGUAUGGCUCC
....(((((.....((((..(((....))).)))).....((((....)))))))))((((.((......))...))))...(((((((.((((.((((....)))).)))).))))))) ( -52.60)
>DroMoj_CAF1 93591 120 + 1
CCAAGUAUCGCCCACAAGCAAUAUACUAAUCAUUGGGUCAACCCCCACGGCUGUGGCGGCUGCACUAUGCGCCAGAGCGAUUGGCGCUCGGAAGGUAACCAUUGCUGGGAGCAUGCGCUC
....((((.((((...((((((...((((((..((((......))))..(((.(((((.(........)))))).))))))))).((.(....)))....)))))).)).)))))).... ( -42.50)
>consensus
CAACGUCACGCCCACCAGCAAUGUCCUCAUCAUGGGAUCCUGCCCAACGGCAGUGGCGGCCGCCAUAUGCGCAAAGGCCAUCGGAGCCAAGCAGGUGGCCAUAGCCGGAAGCAUGGCUCC
.........(((.....(((..............((.......))..((((((...)))))).....))).....)))....(((((((....(.((((....)))).)....))))))) (-20.18 = -20.47 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:32 2006