Locus 3000

Sequence ID 2R_DroMel_CAF1
Location 10,346,893 – 10,346,987
Length 94
Max. P 0.595582
window4953

overview

Window 3

Location 10,346,893 – 10,346,987
Length 94
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 80.80
Mean single sequence MFE -21.87
Consensus MFE -15.79
Energy contribution -15.85
Covariance contribution 0.06
Combinations/Pair 1.12
Mean z-score -1.27
Structure conservation index 0.72
SVM decision value 0.12
SVM RNA-class probability 0.595582
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10346893 94 - 20766785
UAGG-CGUGCAUUACUAAUUAUUGUAAUGAAAUUAUUUAUGAUAAUUGUCAGAGUCU--------CAGACACUGCACAUUGUUGAUCAUUCGGCGUGUGCACA-----
....-.((((((.((.((((((..(((.........)))..))))))(((((.(((.--------..))).))).))...(((((....))))))))))))).----- ( -23.40)
>DroPse_CAF1 66312 95 - 1
UAAGUUUUGCAUUACUAAUUAUUGUAAUGGAAUUAUUUAUGAUCAUUAUCCGAUUGU--------CAGACACUGCACAUUGUUGUCCAUUCGGCGUGUGCACC-----
(((((.((.((((((........)))))).))..)))))((((.(((....))).))--------)).....(((((((.((((......)))))))))))..----- ( -20.90)
>DroEre_CAF1 61649 94 - 1
UAGG-CGUGCAUUACUAAUUAUUGUAAUGAAAUUAUUUAUGAUAAUUGGCAAAGUUU--------CAGACACUGCACAUUGUUGGGCAUUCGGCGUGUGCACA-----
....-.((((....((((((((..(((.........)))..))))))))........--------...((((.((....((.....))....)))))))))).----- ( -22.10)
>DroMoj_CAF1 87808 105 - 1
UAGG-UAUGCAUUACUAAUUAUUGUAAUGGAAUUAUUUAUGAUUAUUGGCAAAGCCAACGGCGAUUUGACA-UGCACAUUGUUGAUCA-ACAGCUCGUGUAUUUAGCA
((((-((((((((((........)))))...........((((..(((((...)))))(((((((.((...-..)).)))))))))))-.......)))))))))... ( -20.60)
>DroAna_CAF1 65853 94 - 1
UAGA-CGUGCAUUACUAAUCAUUGUAAUGGAAUUAUUUAUGAUAAUUGUCAAAGUCG--------CAGACACUGCACAUUGUUGGGCACUCGGCGUGUGCACA-----
..((-(...((((((........)))))).(((((((...))))))))))...(((.--------..)))..(((((((.(((((....))))))))))))..----- ( -23.30)
>DroPer_CAF1 66668 95 - 1
UAAGUUUUGCAUUACUAAUUAUUGUAAUGGAAUUAUUUAUGAUCAUUAUCCGAUUGU--------CAGACACUGCACAUUGUUGUCCAUUCGGCGUGUGCACC-----
(((((.((.((((((........)))))).))..)))))((((.(((....))).))--------)).....(((((((.((((......)))))))))))..----- ( -20.90)
>consensus
UAGG_CGUGCAUUACUAAUUAUUGUAAUGGAAUUAUUUAUGAUAAUUGUCAAAGUCU________CAGACACUGCACAUUGUUGACCAUUCGGCGUGUGCACA_____
.........((((((........))))))...........................................(((((((.((((......)))))))))))....... (-15.79 = -15.85 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:56 2006