Locus 4771

Sequence ID 3R_DroMel_CAF1
Location 12,502,422 – 12,502,512
Length 90
Max. P 0.561581
window7823

overview

Window 3

Location 12,502,422 – 12,502,512
Length 90
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 73.99
Mean single sequence MFE -26.26
Consensus MFE -13.68
Energy contribution -13.44
Covariance contribution -0.24
Combinations/Pair 1.26
Mean z-score -1.68
Structure conservation index 0.52
SVM decision value 0.06
SVM RNA-class probability 0.561581
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12502422 90 - 27905053
------CCAGUCGCCCUCUUUUCCCAAAUGCACUGGGGAAAAUAACAAGAUGCAAGUCCUGCAUUUCAGGAGGGAGCCACUU-UCAUACUAUUGCAA------------------
------...(.(.(((((((((((((.......))))))).......(((((((.....)))))))..)))))).).)....-..............------------------ ( -23.00)
>DroSec_CAF1 23916 90 - 1
------CCAGUCGCCCUCUUUUCCCAAAUGCACUGGGGAAAAUAUGAAGAAGUGGGUCCUGCAUUUCAGGAGGGACCCAUUU-UCAUGCCAUUGCAA------------------
------.((((.((....((((((((.......))))))))..((((((..(((((((((.(......)..)))))))))))-)))))).))))...------------------ ( -29.90)
>DroSim_CAF1 23273 90 - 1
------CCAGUCGCCCUCUUUUCCCAAAUGCACUGGGGAAAAUAAGAAGAAGUGGGUCCUGCAUUUCAGGUGGGAGCCAUUU-UCGUGCCAUUGCAA------------------
------.((((.((.(..((((((((.......)))))))).......(((((((.(((..(.......)..))).))))))-).).)).))))...------------------ ( -27.90)
>DroEre_CAF1 24294 114 - 1
CCAGUCCCAGUCGCCCUCUUUUCCGAAAUGCACUGGGAAAAAUAACCAGAAACAGGUGCUGCAUUUCGGCACGGAGCCACAU-UCAUGCAAUUGUCAUACAUACAAGUAUGAUAG
((..(((((((.((..((......))...))))))))).................((((((.....))))))))........-.........((((((((......)))))))). ( -30.70)
>DroYak_CAF1 24397 105 - 1
------CCAGUCGCCCUCUUUUCCCGAAUGCACUGCGGAAAAUAACCAGAAACAUGUCCUGCACUUCAGGACGGAGCCACUUUUCUUAGCAUUCUAAUAUAUAUACCU----UAG
------...................((((((.(((.(........)))).....(((((((.....)))))))...............))))))..............----... ( -19.80)
>consensus
______CCAGUCGCCCUCUUUUCCCAAAUGCACUGGGGAAAAUAACAAGAAGCAGGUCCUGCAUUUCAGGAGGGAGCCACUU_UCAUGCCAUUGCAA__________________
.........((.((((..((((((((.......))))))))...............(((((.....))))).)).)).))................................... (-13.68 = -13.44 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:26 2006