Locus 6238

Sequence ID 3L_DroMel_CAF1
Location 16,597,141 – 16,597,244
Length 103
Max. P 0.544968
window10004

overview

Window 4

Location 16,597,141 – 16,597,244
Length 103
Sequences 5
Columns 103
Reading direction reverse
Mean pairwise identity 81.29
Mean single sequence MFE -18.22
Consensus MFE -8.06
Energy contribution -8.98
Covariance contribution 0.92
Combinations/Pair 1.15
Mean z-score -2.17
Structure conservation index 0.44
SVM decision value 0.02
SVM RNA-class probability 0.544968
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16597141 103 - 23771897
AAAAUAAAACAAUAACACAUCUUUCAGUGUGCACACACACACACACUCGCACUAUGGACUUUCCAGAAUCACUGAGAUACUUUUCACUCGUCUGAGAAAUUAC
..........................(((((......)))))...((((.((..(((.....))).......(((((....)))))...)).))))....... ( -15.60)
>DroSec_CAF1 5179 101 - 1
GAAAUACAACAAUAACACUUCUUUCAGUGUGCACACACACA--CUCGCACACUUUGGAUUUUCCAGAAUCACUGAGAUACUUUUCACUCGUCUGAGAAAUUAC
...................(((...(((((((.........--...)))))))..))).((((((((.....(((((....)))))....)))).)))).... ( -20.00)
>DroSim_CAF1 4817 99 - 1
--AAUACAACAAUAACACUUCUUUCAGUGUGCACACACACA--CUCGCACACUUUGGAUUUUCCAGAAUCACUGAGAUACUUUUCACUCGUCUGAGAAAUUAC
--.................(((...(((((((.........--...)))))))..))).((((((((.....(((((....)))))....)))).)))).... ( -20.00)
>DroEre_CAF1 5135 87 - 1
----UUCGA----CACAUUUCUUUCAGUGUGCACACA------CUCG--CACGUUAGGUAUUCCAGAAUCACUAAGAUACUUUUCACUCGGCUGAAAAAUUAC
----.....----........(((((((((((.....------...)--)))(..(((((((..((.....))..)))))))..).....)))))))...... ( -18.20)
>DroYak_CAF1 5085 95 - 1
AAGCUGCGACAAUCACAUUUCUUUCAGUGUGCACACA------CUCG--CACGUUGGGUAUUCCAGAAUCACCAAGACACUUUUCACUCAGCUGAGAAAUUAC
.(((((.(................((((((((.....------...)--)))))))((((((....))).))).............).))))).......... ( -17.30)
>consensus
_AAAUACAACAAUAACACUUCUUUCAGUGUGCACACACACA__CUCGC_CACUUUGGAUUUUCCAGAAUCACUGAGAUACUUUUCACUCGUCUGAGAAAUUAC
...................((((...((((((..............)))))).((((.....)))).......))))...((((((......))))))..... ( -8.06 =  -8.98 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:26 2006