Locus 6663

Sequence ID X_DroMel_CAF1
Location 16,619,711 – 16,619,831
Length 120
Max. P 0.551746
window10882

overview

Window 2

Location 16,619,711 – 16,619,831
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.89
Mean single sequence MFE -46.53
Consensus MFE -26.59
Energy contribution -26.18
Covariance contribution -0.41
Combinations/Pair 1.41
Mean z-score -1.58
Structure conservation index 0.57
SVM decision value 0.04
SVM RNA-class probability 0.551746
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16619711 120 - 22224390
GGAAUCUACGCCAGCACAUGCUCACCGCCCACUCGGGCAGGCGUUUCGAGUGCCAGGCCUUGGACUGCGGCCGCUGUUUCAGCAGUGCGCAGAAUCUGGCGAGACAUCUGCUCAGGGAUC
...((((((((((((....)))....((((....)))).)))))...(((((((((((....).(((((..((((((....)))))))))))..))))))((....)).))))..)))). ( -46.40)
>DroVir_CAF1 1889 120 - 1
GCAAUUUGCGACAGCACGUCUUGUCCGCGCACUCGGGCAGGCGCUUUGAGUGCCUGGCCGUUGAUUGUCAGCGCUGUUUCAGCAGCGCCCAGAAUCUCAGCAAGCAUUUGCUGCGCGACC
.....(((((.(((((.(((((((.........(((.(((((((.....))))))).)))..((((.(..(((((((....)))))))..).))))...))))).)).)))))))))).. ( -53.60)
>DroEre_CAF1 1869 120 - 1
GAAAUCUCCGGCAGCACAUGCUCACCGCCCACUCGGGCAGACGUUUCGAAUGCCAGGCCUUGGACUGCGGCCGCUGCUUCAGCAGCGCACAGAAUCUUGCCAAGCAUCUGCUCAGGGGUC
.....((((.(.((((.(((((....((((....))))....(.(((...(((..((((.........))))(((((....))))))))..))).)......))))).))))).)))).. ( -43.50)
>DroYak_CAF1 1670 120 - 1
GGAAUCUCCGUCAGCACAUGCUCACCGCCCACUCGGGCAGGCGUUUCGAGUGCCAGGCCUUGGACUGUGGCCGCUGCUUCAGCAGCGCACAGAAUCUUUCCAAGCAUCUGCUCAGGGAUC
......(((.(.((((.(((((....((((....)))).((...(((..((((..((((.........))))(((((....))))))))).))).....)).))))).)))).).))).. ( -48.00)
>DroMoj_CAF1 1991 120 - 1
GUAAUUUGCGUCAGCAUAUCCUGACCAGUCACACGGGCAGGCGCUUUGAGUGCCUGGCCGUUAAUUGCCAGCGCUGUUUUAGCAGUGCCCAAAAUCUAAGCAAACAUUUGCAGCGCGAUC
((...(((.(((((......))))))))..))((((.(((((((.....))))))).))))..((((((.(((((((....)))))))...........((((....)))).).))))). ( -44.90)
>DroAna_CAF1 1923 120 - 1
GGAAUCUCCGCCAGCACGUGCUCACCGCUCAUUCCGGUCGGCGUUUCGAGUGCCAGGCUCUGGACUGUGGUCGCUGCUUCAGCAGUGCCCAGAACCUAUCGAAGCAUGUUUUACGGGAUC
...(((.(((..((((...(((.((((.......)))).)))(((((((...((((...)))).(((.((.((((((....)))))))))))......))))))).))))...)))))). ( -42.80)
>consensus
GGAAUCUCCGCCAGCACAUGCUCACCGCCCACUCGGGCAGGCGUUUCGAGUGCCAGGCCUUGGACUGCGGCCGCUGCUUCAGCAGCGCCCAGAAUCUAACCAAGCAUCUGCUCAGGGAUC
......(((...((((.(((((..((((((....)))).(((((.....))))).)).......(((....((((((....))))))..)))..........))))).))))..)))... (-26.59 = -26.18 +  -0.41)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:29 2006