Locus 5482

Sequence ID 3L_DroMel_CAF1
Location 14,989,462 – 14,989,559
Length 97
Max. P 0.792115
window8671

overview

Window 1

Location 14,989,462 – 14,989,559
Length 97
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 77.10
Mean single sequence MFE -21.56
Consensus MFE -12.96
Energy contribution -12.60
Covariance contribution -0.36
Combinations/Pair 1.23
Mean z-score -1.83
Structure conservation index 0.60
SVM decision value 0.59
SVM RNA-class probability 0.792115
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14989462 97 + 23771897
GACUUUGAAGUAUUCCAUUAAACUUGUUACCGCACUCCGCGAAAACCCAUUACACUUUACA---------------UGUCUGCAGUUGAAUCCUUUUGCGGAUAUGAA--------UGUC
(((..((((((....((.......))....(((.....)))............))))))((---------------(((((((((..(....)..)))))))))))..--------.))) ( -21.10)
>DroSec_CAF1 7783 97 + 1
GACUUUCAAGUAUUCUAUUAAACUUGUUACCGCACUCCGCGAAAAUCCAUUACACUUUACA---------------UAUCUGCAGUUGAAUCCUUUUGCGGGUAUGAA--------UGUC
(((...(((((..........)))))....(((.....)))..................((---------------(((((((((..(....)..)))))))))))..--------.))) ( -20.30)
>DroSim_CAF1 6750 97 + 1
GACUUUCAAGUAUUCCAUUAAACUUGUUACCGCACUCCGCGAAAAUCCAUUACACUUUACA---------------UAUCUGCAGUUGAAUCCUUUUGCGGGUAUGAA--------UGUC
(((...(((((..........)))))....(((.....)))..................((---------------(((((((((..(....)..)))))))))))..--------.))) ( -20.30)
>DroEre_CAF1 6810 89 + 1
--------------CCACUAAACUUUUAACCGCACUCCGCGAAAACCCAUUACACUUUGC---------UGUUCUACAUCUGCAGUUGAAUCCGCUUGCGGGUGUGAA--------UGUA
--------------................(((.....)))................(((---------.((((.((((((((((.((....)).)))))))))))))--------)))) ( -19.30)
>DroYak_CAF1 8025 120 + 1
GACUUUCAAAAAUUCCAUUCAACUUUUUACCGCUCUCCGCGAAAACCCAUUACACUUUACAUACGCGGAUGCACUACAUCUGCAGUUGAAUCCUUUUGCGGGUUUGAAUCUACGUAUGUA
..............................(((.....)))................((((((((((((((.....)))))))..(..(((((......)))))..)......))))))) ( -26.80)
>consensus
GACUUUCAAGUAUUCCAUUAAACUUGUUACCGCACUCCGCGAAAACCCAUUACACUUUACA_______________UAUCUGCAGUUGAAUCCUUUUGCGGGUAUGAA________UGUC
..............................(((.....)))...................................(((((((((..(....)..)))))))))................ (-12.96 = -12.60 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:26 2006