Locus 2817

Sequence ID 3R_DroMel_CAF1
Location 7,536,698 – 7,536,791
Length 93
Max. P 0.901061
window4555

overview

Window 5

Location 7,536,698 – 7,536,791
Length 93
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 66.89
Mean single sequence MFE -25.93
Consensus MFE -14.42
Energy contribution -13.95
Covariance contribution -0.47
Combinations/Pair 1.33
Mean z-score -1.63
Structure conservation index 0.56
SVM decision value 1.02
SVM RNA-class probability 0.901061
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7536698 93 - 27905053
AAAUG-------CGGGAUGAGCUCUGAA---------AGGGCGUAGCCCGGGACUUCUGGAUAAAAAA------AAAAAAAACAAAACAGCUCGCC-GGGAUGUGAAAGCUCUUGG
....(-------((((.((.((((....---------.)))).....((((.....))))........------.............)).)))))(-((((.((....))))))). ( -23.00)
>DroSec_CAF1 32024 70 - 1
AAAUG-------CGGGAUGAGCUCUGAA---------AGGGCGUAGCCCGGGA-----------------------------CAAAACAGCUCGCC-GGGAUGUGAAAGCUCUUGG
...(.-------((((....((((....---------.))))....)))).).-----------------------------............((-((((.((....)))))))) ( -21.50)
>DroSim_CAF1 32939 70 - 1
AAAUG-------CGGGAUGAGCUCUGAA---------AGGGCGUAGCCCGGGA-----------------------------CAAAACAGCUCGCC-GGGAUGUGAAAGCUCUUGG
...(.-------((((....((((....---------.))))....)))).).-----------------------------............((-((((.((....)))))))) ( -21.50)
>DroEre_CAF1 33907 86 - 1
AAAUG-------CGGGAUGAGCCCUGAA---------AGGGCGUAGCCCGGGACUUGAGGA-------------AAAAAAAACAAAACAUCUCCCC-GGGAUGUGAAAGCCCUUGG
.....-------((((......)))).(---------(((((.((.((((((....((((.-------------...............)))))))-)))...))...)))))).. ( -25.99)
>DroYak_CAF1 32048 100 - 1
AAAUG-------CGGGAUGAGCUCUGAA---------AGGGCGUAGCCCGGGACUUGAGAACUAAAAAAAAAAUAAAAAAAACAAAACAGCUCCCGAGGGAUGUGAAAGCACUUGG
...(.-------((((....((((....---------.))))....)))).)..(..((................................(((....)))(((....)))))..) ( -20.50)
>DroAna_CAF1 39907 110 - 1
AAAUGCGGAAAGCGGGAUGAGCUGCAAACUCAUCCCAGGCGCUUAGUCUGAAACUUUUUGCAAGGGAG-----CAGUCUAUCCGAGACGUCUCUCC-GGGAUGUGCAUCCCCUCGA
...(((((((((.((((((((.......))))))))((((.....))))....))))))))).(((((-----..((((.....))))..))).))-(((((....)))))..... ( -43.10)
>consensus
AAAUG_______CGGGAUGAGCUCUGAA_________AGGGCGUAGCCCGGGACUU__GGA_____________AAAAAAAACAAAACAGCUCGCC_GGGAUGUGAAAGCUCUUGG
............((((....(((((............)))))....))))....................................(((.(((....))).)))............ (-14.42 = -13.95 +  -0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:23 2006