Locus 3177

Sequence ID 3L_DroMel_CAF1
Location 9,259,335 – 9,259,435
Length 100
Max. P 0.529578
window4954

overview

Window 4

Location 9,259,335 – 9,259,435
Length 100
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 82.01
Mean single sequence MFE -42.67
Consensus MFE -27.77
Energy contribution -27.50
Covariance contribution -0.27
Combinations/Pair 1.19
Mean z-score -1.58
Structure conservation index 0.65
SVM decision value -0.01
SVM RNA-class probability 0.529578
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9259335 100 - 23771897
CCGC------------------CGCCCAUCAUCUUCUCCGUCUCUUGGCGGCUGUUGGCCAUUAUUCGGCGGAUCGUGGGCGCGCAGGGAGUGCGUCAGAGUCGCGACUCCUGCGCAU
....------------------.((((((.((((...(((((....)))))......(((.......))))))).))))))((((((((..((((.......))))..)))))))).. ( -46.90)
>DroVir_CAF1 159399 100 - 1
CAGC------------------CAGCCAACAUUUUUUCCGUCUCCUGGCGGCUAUUUGCCAUUAUUCGUCGUAUGGUUGGCGCGCAGGGUGUGCGUCAGAGACGCGACUCCUGCACGU
..((------------------((((((((.........(((....)))(((.....)))..........)).))))))))(.((((((..((((((...))))))..)))))).).. ( -42.10)
>DroGri_CAF1 107072 100 - 1
CAGC------------------CCGCCAUCAUUUUCUCCGUCUCCUGGCGGCUAUUUGCCAUUAUGCGUCGUAUUGUGGGCGCGCAGGGUGUGCGUCAGAGACGCGACUCCUGCACGU
..((------------------((((.............(((....)))(((.....)))...............))))))(.((((((..((((((...))))))..)))))).).. ( -38.20)
>DroEre_CAF1 128841 118 - 1
CCGCCGUGACCGCCGUGACCACCGCCCAUCAUCUUCUCCGUCUCCUGGCGGCUGUUGGCCAUUAUCCGGCGGAUCGUGGGCGCGCAGGGAGUGCGUCAGAGGCGCGACUCCUGCGCAU
..(((((((((((((.((.....(((...((......(((((....))))).))..))).....)))))))).)))).)))((((((((..(((((.....)))))..)))))))).. ( -53.20)
>DroWil_CAF1 171042 100 - 1
CCAC------------------CGCCCAUCAUCUUUUCGGUCUCCUGGCGACUGUUGGCCAUUAUGCGGCGUAUUGUUGGUGCGCAAGGAGUGCGUCAAAGGCGCGACUCUUGCGCGU
....------------------(((((((.((((...(((((.......)))))..))..)).))).))))..........((((((((..(((((.....)))))..)))))))).. ( -34.80)
>DroMoj_CAF1 124523 100 - 1
CAGC------------------CAGCCAUCAUUUUCUCCGUCUCCUGGCGGCUAUUCGCCAUUAUGCGUCGUAUGGUGGGCGCGCAGGGUGUGCGUCAGAGACGCGACUCCUGCACGU
....------------------...(((((((...(..(((....((((((....))))))....)))..).)))))))(((.((((((..((((((...))))))..)))))).))) ( -40.80)
>consensus
CAGC__________________CGCCCAUCAUCUUCUCCGUCUCCUGGCGGCUAUUGGCCAUUAUGCGGCGUAUCGUGGGCGCGCAGGGAGUGCGUCAGAGACGCGACUCCUGCACGU
.....................................(((((....)))))......(((((.((((...)))).)).)))..((((((..((((((...))))))..)))))).... (-27.77 = -27.50 +  -0.27)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:25 2006