Locus 1906

Sequence ID 2R_DroMel_CAF1
Location 7,179,693 – 7,179,798
Length 105
Max. P 0.656961
window3158

overview

Window 8

Location 7,179,693 – 7,179,798
Length 105
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 83.36
Mean single sequence MFE -20.40
Consensus MFE -13.91
Energy contribution -14.47
Covariance contribution 0.56
Combinations/Pair 1.05
Mean z-score -1.72
Structure conservation index 0.68
SVM decision value 0.26
SVM RNA-class probability 0.656961
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7179693 105 + 20766785
AAAAAUUCACAAAAAAAAAAAACAAGAACAACACCAGAUACU-----AUACGAACCGAUCGCAACUUCGAGU-CGAGGGCAAAUGACGGUCGAUGUGGUGGAAAUGGAAAU
.................................(((..((((-----((((((.(((.(((...(((((...-))))).....))))))))).)))))))....))).... ( -21.90)
>DroSec_CAF1 12999 110 + 1
AAAAAACAAAAUUAAAAAAAAACAAGAACAACACCAGAUACAAUCCGAUACGAACCGAUCACAACUUCGAGU-CGAGGGCAAAUGACGGUCGAUGUGGUGGAAAUGGAAUU
...............................(((((.((.(.....)...(((.(((.(((...(((((...-))))).....))))))))))).)))))........... ( -18.80)
>DroEre_CAF1 10515 96 + 1
--------------AAAAAAAGCAAGAACAACACCAUAUUCAAUCCGAUACGAACCGAUCGCAACUUCGAGU-CGAGGGCAAAUGAGGGUCGAUGUGGUGGAAAUGGAAAU
--------------.................(((((((((..(((((((.((...)))))((..(((((...-)))))))......)))).)))))))))........... ( -21.30)
>DroYak_CAF1 11654 97 + 1
--------------AAAAAAAGCAAGAACAACACCAGAUACAAUCCAAUACGAAACGAUCGCAACUUCGAGUCCGAGGGCAAAUGAGGGUCGAUGUGGUGGAAAUGGAAAU
--------------.................(((((.((.(.((((....(((.....)))...(((((....)))))........)))).))).)))))........... ( -19.60)
>consensus
______________AAAAAAAACAAGAACAACACCAGAUACAAUCCGAUACGAACCGAUCGCAACUUCGAGU_CGAGGGCAAAUGACGGUCGAUGUGGUGGAAAUGGAAAU
...............................(((((.((...........(((.(((.(((...(((((....))))).....))))))))))).)))))........... (-13.91 = -14.47 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:05 2006