Locus 8448

Sequence ID X_DroMel_CAF1
Location 21,006,982 – 21,007,080
Length 98
Max. P 0.644978
window13879

overview

Window 9

Location 21,006,982 – 21,007,080
Length 98
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.00
Mean single sequence MFE -38.66
Consensus MFE -25.22
Energy contribution -26.42
Covariance contribution 1.20
Combinations/Pair 1.07
Mean z-score -1.92
Structure conservation index 0.65
SVM decision value 0.23
SVM RNA-class probability 0.644978
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21006982 98 + 22224390
CA----AAAGGCAUGUGCGGUUCCCCUUUGGAAGCCACCAAAGGGGGUCGCAUCUUCGGCUCGGCCAAAUGGACUCACGGUCGAUGACG------------------CUGCCUUUCAAAA
..----(((((((.(((((((.(((((((((......)))))))))))))).((.(((((.((.((....)).....))))))).)).)------------------))))))))..... ( -39.60)
>DroSec_CAF1 88758 96 + 1
CA----AAAGGCAUGUGCGGUUCCCCUUUGGAAGCCACCG--GGGGGUCGCAUCUUCGGCUCGGCCAAAUGGACUCACGGUCGAUGACG------------------CUGCCUUUCAAAA
..----(((((((.((((((..((((..(((...)))..)--)))..)))).((.(((((.((.((....)).....))))))).)).)------------------))))))))..... ( -39.20)
>DroSim_CAF1 104274 91 + 1
CA----AAAGGCAUGUGCGGUUCCCCUUUGGAAGCCACCG--GGGGGUCGCAUCUUCGGCUCGGCCAAAUGGACUCACGGUCGAUGACG------------------C-----UUCAAAA
..----..((((...(((((..((((..(((...)))..)--)))..)))))((.(((((.((.((....)).....))))))).)).)------------------)-----))..... ( -34.00)
>DroEre_CAF1 29465 99 + 1
AAUUCCAAAGGCAUAUGCGGUUCCUCUUUGGAAGCCACCA--GGGGGUCGCUCC-UGGGCUCGGCCAAAUGGACUCACGGUCGAUGACG------------------CCACGUUUCAAAA
.........(((....((((((((.....)).)))).(((--((((....))))-)))))((((((............))))))....)------------------))........... ( -33.50)
>DroYak_CAF1 34889 113 + 1
GA----AAAGGCAUGUGCGGU-CCCCUUUGGAAGCCACCG--GGGGGUCGCUUCUUCGGCUCGGCCAAAUGGACUCACGGUCGAUGACGCUGACGCUGACGCUGAUGCCGCCUUUCAAAA
((----((.(((((..(((..-(((((.(((...)))..)--))))..)))....((((((((((...((.(((.....))).))...))))).))))).....)))))...)))).... ( -47.00)
>consensus
CA____AAAGGCAUGUGCGGUUCCCCUUUGGAAGCCACCG__GGGGGUCGCAUCUUCGGCUCGGCCAAAUGGACUCACGGUCGAUGACG__________________CCGCCUUUCAAAA
......((((((....((((..(((...(((......)))..)))..)))).((.(((((.((.((....)).....))))))).))......................))))))..... (-25.22 = -26.42 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:04:16 2006