Locus 8180

Sequence ID 3L_DroMel_CAF1
Location 21,526,241 – 21,526,352
Length 111
Max. P 0.568291
window13385 window13386

overview

Window 5

Location 21,526,241 – 21,526,352
Length 111
Sequences 3
Columns 111
Reading direction forward
Mean pairwise identity 83.38
Mean single sequence MFE -19.83
Consensus MFE -16.93
Energy contribution -16.93
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.22
Structure conservation index 0.85
SVM decision value -0.05
SVM RNA-class probability 0.509210
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21526241 111 + 23771897
CUACCAGGCCAAUCCCCGACUCCACAGUCGAAGUCCACCAGCGGAUACCGUUCCGCGCCAUCUCGCCAUCUAGCCACCUAGCCACCUAGCCACCUAGCCAUCUCGCCCUCU
......(((.......(((((....)))))..........(((((......))))))))..........((((....((((....))))....)))).............. ( -23.50)
>DroSec_CAF1 31636 103 + 1
CUGCCAGGCCAAUCCCCGACUCCACAGUCUAAGUCCACCAGCGGAUACCGUUCCGCGCCAUCUCGCCAUCUAGCCAUCUA--------GCCACCUAGCCAUCUCGCCCUCU
..((..(((........((((....))))...........(((((......))))))))..................(((--------(....)))).......))..... ( -18.70)
>DroSim_CAF1 31709 87 + 1
CUGCCAGGCCAAUCCCCGACUCCACAGUCCAAGUCCACCAGCGGAUACCGUUCCGCGCCAUCUCGCCAUCUAGC------------------------CAUCUCGCCCUCU
..((..(((........((((....))))...........(((((......)))))))).....((......))------------------------......))..... ( -17.30)
>consensus
CUGCCAGGCCAAUCCCCGACUCCACAGUCCAAGUCCACCAGCGGAUACCGUUCCGCGCCAUCUCGCCAUCUAGCCA_CUA________GCCACCUAGCCAUCUCGCCCUCU
......(((........((((....))))...........(((((......)))))))).................................................... (-16.93 = -16.93 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 21,526,241 – 21,526,352
Length 111
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 83.38
Mean single sequence MFE -35.13
Consensus MFE -27.29
Energy contribution -28.90
Covariance contribution 1.61
Combinations/Pair 1.03
Mean z-score -1.62
Structure conservation index 0.78
SVM decision value 0.07
SVM RNA-class probability 0.568291
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21526241 111 - 23771897
AGAGGGCGAGAUGGCUAGGUGGCUAGGUGGCUAGGUGGCUAGAUGGCGAGAUGGCGCGGAACGGUAUCCGCUGGUGGACUUCGACUGUGGAGUCGGGGAUUGGCCUGGUAG
...((((.((...((((..(.((((..(((((....)))))..)))).)..))))(((((......))))).......((((((((....)))))))).)).))))..... ( -41.90)
>DroSec_CAF1 31636 103 - 1
AGAGGGCGAGAUGGCUAGGUGGC--------UAGAUGGCUAGAUGGCGAGAUGGCGCGGAACGGUAUCCGCUGGUGGACUUAGACUGUGGAGUCGGGGAUUGGCCUGGCAG
...(.((.(..(.((((..((((--------(....)))))..)))).)..).)).)(((......)))((((((.((((..((((....))))..)).)).))).))).. ( -35.40)
>DroSim_CAF1 31709 87 - 1
AGAGGGCGAGAUG------------------------GCUAGAUGGCGAGAUGGCGCGGAACGGUAUCCGCUGGUGGACUUGGACUGUGGAGUCGGGGAUUGGCCUGGCAG
...(.((.(..(.------------------------(((....))).)..).)).)(((......)))((((((.(((((.((((....)))).))).)).))).))).. ( -28.10)
>consensus
AGAGGGCGAGAUGGCUAGGUGGC________UAG_UGGCUAGAUGGCGAGAUGGCGCGGAACGGUAUCCGCUGGUGGACUUAGACUGUGGAGUCGGGGAUUGGCCUGGCAG
.....((.(..((((((..((((......))))..))))))..).))......(((((((......))))).(((.(((((.((((....)))).))).)).)))..)).. (-27.29 = -28.90 +   1.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:08:46 2006