Locus 1271

Sequence ID X_DroMel_CAF1
Location 3,803,940 – 3,804,043
Length 103
Max. P 0.606438
window2039

overview

Window 9

Location 3,803,940 – 3,804,043
Length 103
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 81.78
Mean single sequence MFE -38.17
Consensus MFE -23.74
Energy contribution -26.05
Covariance contribution 2.31
Combinations/Pair 1.20
Mean z-score -1.87
Structure conservation index 0.62
SVM decision value 0.15
SVM RNA-class probability 0.606438
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3803940 103 - 22224390
GGCAGAGGAAACAGUGCCCGAUGCUGUU---A---GUCACCAUUUGGAUUUGGGUCUGCCCCAAACGGAGCCAGUGGUGGAACCACUGAUCCAGCCCAAAAAGGCAUAU
(((((((....)....((((((......---.---))).((....))....)))))))))......(((..((((((.....)))))).))).(((......))).... ( -36.60)
>DroVir_CAF1 4786 103 - 1
------CGAGACGGUGCCGGAUGCAGCCGUUGCCAGCUUCCAGCAGGAGCUGGGUCUGCCGCAGAGCGAGCCCGUCGUCGAGCCGCUGAUAACGCCAAAGAAGGCGUAU
------((((((((.((((..(((.((.(...((((((((.....))))))))..).)).)))...)).))))))).)))...........(((((......))))).. ( -43.00)
>DroSec_CAF1 2809 103 - 1
AGCGGAGGAAACAGUGCCCGAUGCUGUU---A---GUCACCAUUUGGAUUUGGGUCUGCCGCAAACGGAGCCAGUGGUGGAACCACUGAUCCAGCCCAAAAAGGCAUAC
.((((.(((..(((..((.((((.((..---.---..)).)))).))..)))..))).))))....(((..((((((.....)))))).))).(((......))).... ( -38.90)
>DroSim_CAF1 2807 101 - 1
AGCGGAGGAAACAGUGCCCGAUGCUGU----A---GUCAC-AUUUGGAUUUGGGUCUGCCGCAAACGGAGCCAGUGGUGGAACCACUGAUCCAGCCCAAAAAGGCAUAC
.((((.(((..(((..((.((((.((.----.---..)))-))).))..)))..))).))))....(((..((((((.....)))))).))).(((......))).... ( -38.40)
>DroEre_CAF1 2749 103 - 1
UGCGGAGGAAACAGUGCCCGAUGCCGUG---A---GUCACCACUUGGAUUUGGGUCUGCCGCAGACGGAACCAGUGGAGGAACCACUGAUCCAGCCCAAAAAGGCAUAU
(((((.(....)((.((((((..(((((---.---.....)))..))..)))))))).)))))...(((..((((((.....)))))).))).(((......))).... ( -37.60)
>DroYak_CAF1 2809 103 - 1
AGCGGAGGAAACAGUGCCCGAUGCCGUG---A---GUCACCAUUUGGAUUUGGGCCUGCCGCAAACGGAGCCUGUGGAGGAACCACUGAUCCAUCCCAAAAAGGCAUAU
.((((.(....)((.((((((((.(...---.---).))((....))..)))))))).)))).......((((.(((.(((........)))...)))...)))).... ( -34.50)
>consensus
AGCGGAGGAAACAGUGCCCGAUGCUGUG___A___GUCACCAUUUGGAUUUGGGUCUGCCGCAAACGGAGCCAGUGGUGGAACCACUGAUCCAGCCCAAAAAGGCAUAU
.((((.(((..(((..((.((((.((...........)).)))).))..)))..))).))))....(((..((((((.....)))))).))).(((......))).... (-23.74 = -26.05 +   2.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:27 2006