Locus 381

Sequence ID 3R_DroMel_CAF1
Location 1,452,467 – 1,452,572
Length 105
Max. P 0.611538
window634

overview

Window 4

Location 1,452,467 – 1,452,572
Length 105
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 79.73
Mean single sequence MFE -37.26
Consensus MFE -25.29
Energy contribution -25.37
Covariance contribution 0.08
Combinations/Pair 1.34
Mean z-score -1.60
Structure conservation index 0.68
SVM decision value 0.16
SVM RNA-class probability 0.611538
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1452467 105 + 27905053
CCAAUACCCACUGUUCCAGUA---------GGUCGGUGGAGAGGUCUCUACGGACUCAUCGGAAU------CAUCUGGCUUUGCCUCGUUCAAAGUGGGAGCCCCUGAAUCCGCUGGGGC
......(((((((((((.((.---------.(((.((((((....)))))).)))..)).)))))------.....(((...)))........)))))).(((((..........))))) ( -42.80)
>DroSec_CAF1 25034 105 + 1
CCAAUACCCACUGCUCCAGUC---------GAUCGGUGGAGAGGUCUCUACGGACUCAUCGGAAU------CCUCUGGAUUUGACUCGUUCAAAGUGAGAGCUCCUGAAUCCGCUGGGGC
............((((((((.---------.....((((((....))))))(((.(((..(((..------.((((.(.(((((.....))))).).)))).)))))).))))))))))) ( -36.00)
>DroSim_CAF1 23342 105 + 1
CCAAUACCCACUGCUCCAGUC---------GAUCGGUGGAGAGGUCUCUACGGACUCAUCGGAAU------CCUCUGGAUUUGACUCGUUCAAAGUGAGAGCUCCUGAAUCCGCUGGGGC
............((((((((.---------.....((((((....))))))(((.(((..(((..------.((((.(.(((((.....))))).).)))).)))))).))))))))))) ( -36.00)
>DroEre_CAF1 26617 111 + 1
CCAAAACUCACUGUUCCAGUC---------GAUUGACGGAGAGGUCUCUACGGACCCAUCGGAACCCUGGCUCUCUGCUUUUGUUUCAUUUAAAGUGGGAGCUCCUGAAUCCAGUGGGGC
......(((((((((((.(((---------....))).((..(((((....)))))..)))))))...(((((.(..((((..........))))..)))))).........)))))).. ( -36.50)
>DroYak_CAF1 25051 114 + 1
CCAAAACUCAUUGUUCCAGUCUAUUGUGUCGACUGGUGUAGAGGUCUCUACGGUCCAAUUGGAAU------UCUCUGGCUUUGCUGUAUUCAAAGUGGGAGCUUCUGAAUUCGUUGGAGU
((.............((((((.........)))))).(((((....)))))))((((((..((((------((...(((((..((........))..).))))...)))))))))))).. ( -35.00)
>consensus
CCAAUACCCACUGUUCCAGUC_________GAUCGGUGGAGAGGUCUCUACGGACUCAUCGGAAU______CCUCUGGAUUUGACUCGUUCAAAGUGGGAGCUCCUGAAUCCGCUGGGGC
............((((((((............((.((((((....)))))).))......(((.........((((.((((((.......)))))).))))........))))))))))) (-25.29 = -25.37 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:53 2006