Locus 1199

Sequence ID X_DroMel_CAF1
Location 3,580,024 – 3,580,133
Length 109
Max. P 0.995588
window1925

overview

Window 5

Location 3,580,024 – 3,580,133
Length 109
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 95.63
Mean single sequence MFE -28.84
Consensus MFE -24.19
Energy contribution -24.23
Covariance contribution 0.04
Combinations/Pair 1.04
Mean z-score -2.64
Structure conservation index 0.84
SVM decision value 2.59
SVM RNA-class probability 0.995588
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3580024 109 - 22224390
GCCACGGAAAGUGAGAAGGUGGAAAAAAUACAGAGGGCGGUGAAAA--CAGAGCUCUCUUGCCAUCAGUUCCUCUUCUAUUUUCACCAAAAUAUAACAAAAGGCAAAAAG-A
(((...((((((.((((((.((((.......(((((((.((....)--)...))))))).........)))))))))))))))).................)))......-. ( -29.14)
>DroSec_CAF1 38410 109 - 1
GCCACGGAAAGUGAGAAGGUGGAA-AAAUACAGAGGGCGGUGAAAA--CAGAGCUCUCUUGCCAUCAGUUCCUCUUCUAUUUUCACCAAAAUAUAACAAAAGGCAAAAAGGA
(((...((((((.((((((.((((-......(((((((.((....)--)...))))))).........)))))))))))))))).................)))........ ( -28.71)
>DroSim_CAF1 26768 109 - 1
GCCACGGAAAGUGAGAAGGUGGAA-AAAUACAGAGGGCGGUGAAAA--CAGAGCUCUCUUGCCAUCAGUUCCUCUUCUAUUUUCACCAAAAUAUAACAAAAGGCAAAAAGGA
(((...((((((.((((((.((((-......(((((((.((....)--)...))))))).........)))))))))))))))).................)))........ ( -28.71)
>DroEre_CAF1 33324 110 - 1
GCCACGGAAAGUGAGAAGGUGGAA-AAAUGCAGAGGGCGGUGAAAAUACAGAGCUCUCUUUCCAUCAGUUCCUCUUCUAUUUUCACCGAAAUAUAACAAAAGGGAAAAAG-A
..(((.....)))((((((.((((-..(((.(((((((..((......))..)))))))...)))...)))))))))).(((((.((..............)))))))..-. ( -28.94)
>DroYak_CAF1 34540 108 - 1
GCCACGGAAAGUGAGAAGGUGGAA-AAAUACAGAGGGUGGUGAAAA--CAGAGCUCUCUUUCCAUCAGUUCCUCUUGUAUUUUCACCGAAAUAUAACAAAAGGGAAAAAG-A
..(((.....)))....(((((((-......(((((((.((....)--)...))))))))))))))..(((((.(((((((((....)))))))))....))))).....-. ( -28.70)
>consensus
GCCACGGAAAGUGAGAAGGUGGAA_AAAUACAGAGGGCGGUGAAAA__CAGAGCUCUCUUGCCAUCAGUUCCUCUUCUAUUUUCACCAAAAUAUAACAAAAGGCAAAAAG_A
......((((((.((((((.((((.......(((((((..((......))..))))))).........))))))))))))))))............................ (-24.19 = -24.23 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:41 2006