Locus 4808

Sequence ID X_DroMel_CAF1
Location 12,496,134 – 12,496,231
Length 97
Max. P 0.512449
window7863

overview

Window 3

Location 12,496,134 – 12,496,231
Length 97
Sequences 4
Columns 103
Reading direction forward
Mean pairwise identity 88.44
Mean single sequence MFE -14.68
Consensus MFE -10.12
Energy contribution -10.62
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.55
Structure conservation index 0.69
SVM decision value -0.04
SVM RNA-class probability 0.512449
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12496134 97 + 22224390
UUUUUUCGCAAAUUUGCGUAAACUAAAAUGCAAAGCCAAAGGGUCAAGUAGAGUCAUAGA---AAGGAA-AAAAUAACAUUGAGCAAGGAGAAAAACAACA--
(((((((.....(((((((........)))))))(((((.((.((.....)).)).....---..(...-.......).))).))...)))))))......-- ( -13.70)
>DroSec_CAF1 25672 100 + 1
UUUUUUCGCAAAUUUGCGUAAACUAAAAUGCAAAGCCAAAGGGUCAAGUAGAGCCAUAGAAUAAAGGAA-AAAAUAACAGUGAGCAAGGAGAAAAACAACA--
(((((((.....(((((((........)))))))((((..((.((.....)).))..........(...-.......)..)).))...)))))))......-- ( -15.10)
>DroEre_CAF1 26633 91 + 1
U-UUUUCGCAAAUUUGCGUAAACUAAAAUGCAAAUCCAAAGGGUCAAGUAGAGU--------AACGGAA-AAAAUAACAGUGUGCAAGGAGAAAAACAACA--
(-((((((((..(((((((........)))))))(((....(.((.....)).)--------...))).-............)))...)))))).......-- ( -12.70)
>DroYak_CAF1 20998 95 + 1
UUUUUUCGCAAAUUUGCGUAAACUAAAAUGCAAAGCCAAAGGGUCAAGUAGAGU--------AAAGAAAAAAAAUAACAGUGAGCGGGGAGAAAAACAACAAU
((((..(((...(((((((........)))))))(((....)))..........--------.....................)))..))))........... ( -17.20)
>consensus
UUUUUUCGCAAAUUUGCGUAAACUAAAAUGCAAAGCCAAAGGGUCAAGUAGAGU________AAAGGAA_AAAAUAACAGUGAGCAAGGAGAAAAACAACA__
(((((((((...(((((((........)))))))(((....))).......................................))...)))))))........ (-10.12 = -10.62 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:36 2006