Locus 2103

Sequence ID X_DroMel_CAF1
Location 5,719,442 – 5,719,551
Length 109
Max. P 0.638184
window3421

overview

Window 1

Location 5,719,442 – 5,719,551
Length 109
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 88.79
Mean single sequence MFE -38.30
Consensus MFE -28.06
Energy contribution -28.12
Covariance contribution 0.06
Combinations/Pair 1.04
Mean z-score -1.68
Structure conservation index 0.73
SVM decision value 0.22
SVM RNA-class probability 0.638184
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5719442 109 + 22224390
UCGU---CAUCGUCAAUAACAAUUAUAUGCGAUGAUAGCAGAACGGGGUCUCCAGGUUCCGUAUGCUAGCCGGAAUUUCCCGGAGCUCUGACCACUGCCGCUGCAGUUUGCG
..((---((((((..(((.....)))..)))))))).(((((.(((((.((((.(((((((.........)))))...)).)))))))))....((((....))))))))). ( -36.80)
>DroSim_CAF1 638 109 + 1
UCGU---CAUCGUCAAUAACAAUUAUAUGCGAUGACAGCAGAACGGGGUCCCCAGGUUCCGUAUGCUAGCCGGAAUUUCCCGGAGCUCUGACCACUGAAGCUGCAUUUUGCG
..((---((((((..(((.....)))..)))))))).(((((((((..((....))..))))((((...((((......))))(((((........).))))))))))))). ( -37.30)
>DroEre_CAF1 1026 112 + 1
UCGUUAUCAUCGUCUAUAACAAUUAUUUGCGAUGACUGCAGGACGGCGUCCCGAGGUUCCGUAUGCUAGCCGGAAAUUCCCGGAGCUUUGGCCACUGCCGCUGCACUGUGCG
.(((..(((((((..(((.....)))..))))))).(((((..(((((..((((((((((((......)).((......))))))))))))....))))))))))....))) ( -37.70)
>DroYak_CAF1 831 112 + 1
UCGUCAUCAUCGUCUAUAACAAUUAUAUGCGAUGAAAGCAGGACGGGAUCCCCGGGUUCCGUAUGCUAGCCGGAAUUUCCCGGAGCUCUGGCCACUGCCGCUGCAUUGUGUG
......(((((((.((((.....)))).))))))).((((..((((((((....)))))))).))))..((((......)))).((..((((....))))..))........ ( -41.40)
>consensus
UCGU___CAUCGUCAAUAACAAUUAUAUGCGAUGACAGCAGAACGGGGUCCCCAGGUUCCGUAUGCUAGCCGGAAUUUCCCGGAGCUCUGACCACUGCCGCUGCAUUGUGCG
.......((((((..(((.....)))..))))))...((((.((((((((....))))))))..(((..((((......)))))))..............))))........ (-28.06 = -28.12 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:20 2006