Locus 7895

Sequence ID X_DroMel_CAF1
Location 19,676,261 – 19,676,351
Length 90
Max. P 0.535351
window12952

overview

Window 2

Location 19,676,261 – 19,676,351
Length 90
Sequences 5
Columns 102
Reading direction reverse
Mean pairwise identity 74.23
Mean single sequence MFE -18.25
Consensus MFE -3.66
Energy contribution -4.02
Covariance contribution 0.36
Combinations/Pair 1.10
Mean z-score -1.54
Structure conservation index 0.20
SVM decision value 0.00
SVM RNA-class probability 0.535351
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19676261 90 - 22224390
CACAAC--AGCAAAAAGAAAGGAAAU-----UAAGAAAAAGGAGCAGAGAACGGUCUUCGUUCUUCGGUCAACAGCGCAGAUUUCUUCGACUUGCU-----G
.....(--(((((...((..((((((-----(.........((.(..((((((.....))))))..).)).........)))))))))...)))))-----) ( -23.47)
>DroSec_CAF1 50242 76 - 1
CACAAC--AGCAACAAGAAAGGAAGU-----UAAGAAAAAGGAGCGGAGAACGG--------------UCAACAGCGCAGAUUUCUUCGACUUGCU-----G
.....(--(((((...((..((((((-----(.........((.((.....)).--------------)).........)))))))))...)))))-----) ( -16.67)
>DroSim_CAF1 37759 81 - 1
CACAAC--AGCAACAAGAAACGAAGU-----UAAGAAAAAGGAGCGGAGAACGG--------------UCAACAGCGCAGAUUUCUGCGACUUGCUUCAUGG
......--.............(((((-----.(((......((.((.....)).--------------)).....(((((....))))).)))))))).... ( -19.20)
>DroEre_CAF1 61455 86 - 1
CACAAC--AACAAAA-------UAAUAAGAAUAAGAAAAGGAAGCGGAGAACGGUCUUCGUUCUUCGGUCAACAACGCAGAUUUCUUCGACUUGC-------
......--.......-------.........((((.....((..(((((((((.....))))))))).)).....((.((....)).)).)))).------- ( -16.10)
>DroYak_CAF1 63524 95 - 1
CACAACACAACAAAAAAAAACAAAAUAAGAAUAAGAAAAGGAAGCGGAGAACGGUCUUCGUUCUUCGGUCAACAACGCAGAUUUCUUCAACUUGC-------
.........................((((...((((((..((..(((((((((.....))))))))).))..(......).))))))...)))).------- ( -15.80)
>consensus
CACAAC__AGCAAAAAGAAACGAAAU_____UAAGAAAAAGGAGCGGAGAACGGUCUUCGUUCUUCGGUCAACAGCGCAGAUUUCUUCGACUUGCU_____G
.........................................((((((((((...............................))))))).)))......... ( -3.66 =  -4.02 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:12 2006