Locus 3374

Sequence ID X_DroMel_CAF1
Location 8,995,718 – 8,995,838
Length 120
Max. P 0.689211
window5526

overview

Window 6

Location 8,995,718 – 8,995,838
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 87.54
Mean single sequence MFE -52.55
Consensus MFE -38.14
Energy contribution -40.20
Covariance contribution 2.06
Combinations/Pair 1.03
Mean z-score -1.73
Structure conservation index 0.73
SVM decision value 0.32
SVM RNA-class probability 0.689211
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8995718 120 + 22224390
AGCCGCCAACGCAGCCAGGUCAGCCCGCUGCCACACCCGCUGGCCAAGAGCCGGCGUCGGCGGUACCAGCGCCAGCAGCUCCGCCCAAGGAGACACCGCCGGCUGUGAAGCCCGCUACAC
(((.(.(..(((((((.((.(((....))))).....(((((((.....)))))))..((((((....((....)).(((((......)))).))))))))))))))..).).))).... ( -54.80)
>DroSec_CAF1 7493 120 + 1
AGCCGCCAACGCAGCCGGGUCAGCCCGCUGCUACACCCGCUAGCCAAGAGCCGGCGGCGGCGGUACCAGCGCCAGCAGCUCCGCCCAAGGAGACACCGCCGUCUGUGAAGCCCGCUACAC
.((((((...(((((.(((....)))))))).......(((.......))).))))))((((((....((....)).(((((......)))).)))))))....(((.((....)).))) ( -53.30)
>DroEre_CAF1 7641 114 + 1
AGCCGCCAACGCAGCCGGGUCAGCCAGGUGCCACACCCGCUAGCCAAGAGGCGGCGGCAGCGGU------GCCAGCAGCUCCGCCCAAGGAGACUCCGCCGGCUGUGAAGCCAGCCACAC
.((.((...(((((((((....((..((..((.(..(((((.(((....))))))))..).)).------.)).))((((((......)))).))...)))))))))..))..))..... ( -51.70)
>DroYak_CAF1 9253 114 + 1
AGCCGCCAACGCAGCCGGGUCAGCCAGGUGCCACACCCGCUGCUCAAGAGGCGACGGCAGCGGC------UCCAGCAGCUCCGGCCAAGGAGACUCCGCCGGCUGUGAAGCCAACCACAC
.((.(((..(((..(.(((.((((..((((...)))).)))))))..)..)))..))).))(((------(...(((((..((((..((....))..)))))))))..))))........ ( -50.40)
>consensus
AGCCGCCAACGCAGCCGGGUCAGCCAGCUGCCACACCCGCUAGCCAAGAGCCGGCGGCAGCGGU______GCCAGCAGCUCCGCCCAAGGAGACACCGCCGGCUGUGAAGCCAGCCACAC
....((...(((((((.(((((((..((((...)))).))))))).......(((((..(((((......))).))..((((......))))...))))))))))))..))......... (-38.14 = -40.20 +   2.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:48 2006