Locus 8394

Sequence ID X_DroMel_CAF1
Location 20,829,156 – 20,829,263
Length 107
Max. P 0.828726
window13784

overview

Window 4

Location 20,829,156 – 20,829,263
Length 107
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 92.89
Mean single sequence MFE -27.52
Consensus MFE -23.45
Energy contribution -23.45
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.86
Structure conservation index 0.85
SVM decision value 0.71
SVM RNA-class probability 0.828726
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20829156 107 + 22224390
AAAUGUCUGCGACUGUAUUUGUGUGUGCAAGUCGAAUAUUUGGCUUGCCUUUCCACAGAUAUCUCUUAUUUCCCCCUGAAAAAAAUUAGGCAAAAGUAUUGC----AAAGG
.......(((((..(((((((((.(.(((((((((....)))))))))....))))))))))....(((((...(((((......)))))...)))))))))----).... ( -27.40)
>DroSec_CAF1 6415 109 + 1
AAAUGUCUGCGACUGUAUUUGUGUGUGCAAGUCGAAUUUUUGGCUUGCCUUU-CACAGAUAUCUCUUAUUUCCCCCUGAAA-AAAUUAGGCAAAAGUAUUGGGUAGUAAGG
....(((...))).(((((((((.(.(((((((((....))))))))))...-)))))))))..((((((.((((((((..-...)))))..........))).)))))). ( -30.80)
>DroEre_CAF1 23000 103 + 1
AAAUGUCUGCGACUGUAUUUGUGUGUGCAAGUCGAAUU-UUGGCUUGCCUUU-CACAGAUAUCUUUUAUUUCCCC-UGAAA-AAAUUAGGCAAAAGUAUGGC----CAAGG
....((((((....(((((((((.(.(((((((((...-))))))))))...-)))))))))......(((..((-(((..-...)))))..)))))).)))----..... ( -26.40)
>DroYak_CAF1 24509 104 + 1
AAAUGUCUGCGACUGUAUUUGUGUGUGCAAGUCGAAUUUUUGGCUUGCCUUU-CACAGAUAUCUUUUAUUUCCCC-CGAAA-AAAUUAGGCAAAAGUAUUGC----AAAGG
...((((((.....(((((((((.(.(((((((((....))))))))))...-)))))))))......((((...-.))))-....))))))..........----..... ( -25.50)
>consensus
AAAUGUCUGCGACUGUAUUUGUGUGUGCAAGUCGAAUUUUUGGCUUGCCUUU_CACAGAUAUCUCUUAUUUCCCC_UGAAA_AAAUUAGGCAAAAGUAUUGC____AAAGG
...((((((.....(((((((((.(.(((((((((....))))))))))....)))))))))......((((.....)))).....))))))................... (-23.45 = -23.45 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:51 2006