Locus 1853

Sequence ID 3R_DroMel_CAF1
Location 5,324,767 – 5,324,857
Length 90
Max. P 0.999924
window3046 window3047

overview

Window 6

Location 5,324,767 – 5,324,857
Length 90
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 71.21
Mean single sequence MFE -27.03
Consensus MFE -18.51
Energy contribution -18.07
Covariance contribution -0.44
Combinations/Pair 1.12
Mean z-score -2.38
Structure conservation index 0.68
SVM decision value 4.59
SVM RNA-class probability 0.999924
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5324767 90 + 27905053
GUUAGGUAUUCGUAUUCGUAU------------------------------UCAUCUUGUGAGUGGGAAUUCUUGGGGUACCCGUUUAAGCAGAAAACUCAUGCGAAUACCAGGAAUUAU
....(((((((((((((.(((------------------------------((((...))))))).)))((((.(((...)))((....))))))......))))))))))......... ( -25.60)
>DroSim_CAF1 30431 80 + 1
GUUAGGUAUUCGUAUUCGUAU------------------------------UCGUAUUC----------AUCUUGGGGUACCCGCUUAAGCAGAAAACUCAUGCGAAUACCAGGAAUUAU
....(((((((((((..((.(------------------------------((((((((----------......))))))..((....)).))).))..)))))))))))......... ( -24.60)
>DroYak_CAF1 29871 120 + 1
GUUAGGUAUUCGUAUUCAUAUUCGUAUUUGUAUUCGUCUUUGUAUUCGUAUUCAUAUUGCGAGUGGGAAUUCUUGGGGUAUCCGCUUAAGCAGAAAACUCAUGCGAAUACCAGGAAUUAU
....(((((((((((((.((((((((..((....((..........))....))...)))))))).)))....((((...((.((....)).))...))))))))))))))......... ( -30.90)
>consensus
GUUAGGUAUUCGUAUUCGUAU______________________________UCAUAUUG_GAGUGGGAAUUCUUGGGGUACCCGCUUAAGCAGAAAACUCAUGCGAAUACCAGGAAUUAU
....(((((((((((...........................................................(((...)))((....)).........)))))))))))......... (-18.51 = -18.07 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 5,324,767 – 5,324,857
Length 90
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 71.21
Mean single sequence MFE -19.80
Consensus MFE -16.67
Energy contribution -17.00
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.85
Structure conservation index 0.84
SVM decision value 3.87
SVM RNA-class probability 0.999671
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5324767 90 - 27905053
AUAAUUCCUGGUAUUCGCAUGAGUUUUCUGCUUAAACGGGUACCCCAAGAAUUCCCACUCACAAGAUGA------------------------------AUACGAAUACGAAUACCUAAC
.........((((((((.((..((.(((..(((....(((...)))..((........))..)))..))------------------------------).))..)).)))))))).... ( -18.40)
>DroSim_CAF1 30431 80 - 1
AUAAUUCCUGGUAUUCGCAUGAGUUUUCUGCUUAAGCGGGUACCCCAAGAU----------GAAUACGA------------------------------AUACGAAUACGAAUACCUAAC
.........((((((((.((..((.(((.((....))(((...))).....----------......))------------------------------).))..)).)))))))).... ( -19.80)
>DroYak_CAF1 29871 120 - 1
AUAAUUCCUGGUAUUCGCAUGAGUUUUCUGCUUAAGCGGAUACCCCAAGAAUUCCCACUCGCAAUAUGAAUACGAAUACAAAGACGAAUACAAAUACGAAUAUGAAUACGAAUACCUAAC
...((((..(((((((((.(((((.....))))).)))))))))....(.((((....(((..((.((.((.((..........)).)).)).)).)))....)))).)))))....... ( -21.20)
>consensus
AUAAUUCCUGGUAUUCGCAUGAGUUUUCUGCUUAAGCGGGUACCCCAAGAAUUCCCACUC_CAAUAUGA______________________________AUACGAAUACGAAUACCUAAC
.........(((((((((.(((((.....))))).))((.....))...............................................................))))))).... (-16.67 = -17.00 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:07 2006