Locus 9620

Sequence ID 3R_DroMel_CAF1
Location 25,405,657 – 25,405,751
Length 94
Max. P 0.500000
window15375

overview

Window 5

Location 25,405,657 – 25,405,751
Length 94
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 84.08
Mean single sequence MFE -23.65
Consensus MFE -19.12
Energy contribution -19.07
Covariance contribution -0.05
Combinations/Pair 1.05
Mean z-score -1.45
Structure conservation index 0.81
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25405657 94 + 27905053
------CAAUCGCGCAUAUCCAAUCCCCAGAAGACGCCAUCGAUGGCUAACAAUCU----UGGCCUGAUGAAUGCAUUCUGUGCAUGCUGCCAUCAAAUUGGCA
------.......((((....................(((((..((((((.....)----))))))))))...((((...)))))))).((((......)))). ( -23.00)
>DroSec_CAF1 89624 94 + 1
------CAAUCGCGCAUACCCAAUCCCCAGAAGACGCCAUCGAUGGCUAACAAUCU----UGGCCUGAUGAAUGCAUUCUGUGCAUGCUGCCAUCAAAUUGGCA
------.......((((....................(((((..((((((.....)----))))))))))...((((...)))))))).((((......)))). ( -23.00)
>DroSim_CAF1 90013 94 + 1
------CAAUCGCGCAUAUCCAAUCCCCAGAAGACGCCAUCGAUGGCUAACAAUCU----UGGCCUGAUGAAUGCAUUCUGUGCAUGCUGCCAUCAAAUUGGCA
------.......((((....................(((((..((((((.....)----))))))))))...((((...)))))))).((((......)))). ( -23.00)
>DroEre_CAF1 93654 75 + 1
-------------------------CCCAGAAGACGCCAUCGAUGGCUAACAAUCC----UGGCCUGAUGAAUGCAUUCUGUGCAUGCUGCCAUCAAAUUGGCA
-------------------------..........(((((((..(((((.......----)))))))))).((((((...)))))))).((((......)))). ( -21.20)
>DroYak_CAF1 97138 100 + 1
AACAUCCAAUCGGGCAUAUCCAAUCCCCAGAAGACGCCAUCGAUGGCUAACAAUCU----UGGCCUGAUGAAUGCAUUCUGUGCAUGCUGCCAUCAAAUUGGCA
...........(((.((.....)).))).......(((((((..((((((.....)----)))))))))).((((((...)))))))).((((......)))). ( -25.60)
>DroPer_CAF1 96915 95 + 1
------GAAUGGCA---GCCCAAACCCCACCAGGCUCCAUCGAUGGCCAACAAUCCAAUCCGGCUUGAUAAAUGCAUUCUGUGCAUGCUGCCAUCAAAUUGGCA
------((.(((.(---(((............)))))))))((((((...(((.((.....)).)))....((((((...))))))...))))))......... ( -26.10)
>consensus
______CAAUCGCGCAUAUCCAAUCCCCAGAAGACGCCAUCGAUGGCUAACAAUCU____UGGCCUGAUGAAUGCAUUCUGUGCAUGCUGCCAUCAAAUUGGCA
...................................((((..((((((...((..((.....))..))....((((((...))))))...))))))....)))). (-19.12 = -19.07 +  -0.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:38:24 2006