Locus 8183

Sequence ID 3R_DroMel_CAF1
Location 21,997,592 – 21,997,707
Length 115
Max. P 0.749611
window13163

overview

Window 3

Location 21,997,592 – 21,997,707
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.66
Mean single sequence MFE -19.75
Consensus MFE -14.38
Energy contribution -14.62
Covariance contribution 0.24
Combinations/Pair 1.14
Mean z-score -2.00
Structure conservation index 0.73
SVM decision value 0.47
SVM RNA-class probability 0.749611
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21997592 115 + 27905053
GCUUUUGUUUACCUUUGACGGUGCACUUCGUGCCAAAAAUAAGGGAAAGUGCAUGACCGCACACACA----A-AAAAAAGAAAUAAUGCGGUAAUAAACAAUAAAAAUAAAACAAUAAAA
....(((((((.........((((((((..(.((........)).))))))))).((((((......----.-.............))))))..)))))))................... ( -22.35)
>DroSim_CAF1 33941 114 + 1
GCUUUUGUUUACCUUUGACGGUGCACUUCGUGCAAAAAAUAAGGGAAAGUGCAUGGACGCACACACA----A-AA-AAAGAAAUAAUGUGGUAAUAAACAAUAAAAAUAAAACAAUAAAA
....(((((((((((((....(((((...))))).....))))))...((((......)))).((((----.-..-..........))))....)))))))................... ( -21.72)
>DroEre_CAF1 39637 114 + 1
GCUUUUGAUUACAUUUGACAGUGCACUUCGUGCCAAAAAUGAGGGAAAGUGCAUGGACGCACACAAC----A-AA-AAAGAAAUAAUGCGGUAAUAAACAAUAAAAAUAAAACAAUAAAA
.......(((((........((((((((..(.((........)).)))))))))...((((......----.-..-..........)))))))))......................... ( -16.91)
>DroYak_CAF1 38282 119 + 1
GCUCUUGUUUACCUUUGACAGUGCACUUCGUGCCAAAAAUGAGGGAAAGUGCAUGAACGCACACGAAAAACAAAA-AAAGAAAUAAUGCGGUAAUAAACAAUAAAAAUAAAACAAUAAAA
....(((((((.........((((((((..(.((........)).)))))))))...((((..............-..........))))....)))))))................... ( -17.66)
>DroAna_CAF1 44134 113 + 1
GGUUUUGUUUACCUUUGGCAGUGCAAUUUGCGUCCAACAUAAAGGAAAGUGCAUGAGCGCACACGA-----A-AA-AAAGAAAUAAGGCGGCAAUAAACAAUAAAAAUAAAACAAUAAAA
.(((((((((....(((....(((....(((.(((........)))..((((......))))....-----.-..-...........)))))).....)))...)))))))))....... ( -20.10)
>consensus
GCUUUUGUUUACCUUUGACAGUGCACUUCGUGCCAAAAAUAAGGGAAAGUGCAUGAACGCACACAAA____A_AA_AAAGAAAUAAUGCGGUAAUAAACAAUAAAAAUAAAACAAUAAAA
....(((((((((((((.....((((...))))......))))))...((((......))))................................)))))))................... (-14.38 = -14.62 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:04:36 2006