Locus 601

Sequence ID 3R_DroMel_CAF1
Location 2,228,970 – 2,229,060
Length 90
Max. P 0.902422
window954

overview

Window 4

Location 2,228,970 – 2,229,060
Length 90
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 90.88
Mean single sequence MFE -14.62
Consensus MFE -12.14
Energy contribution -12.34
Covariance contribution 0.20
Combinations/Pair 1.11
Mean z-score -1.71
Structure conservation index 0.83
SVM decision value 1.02
SVM RNA-class probability 0.902422
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2228970 90 - 27905053
CCAAAUCCAUUAAUCUCCGAAUUUUGUGCAUUAUGCAAUACAAUCGAAGCAUAAA--AAAGAGCACGAAAGCACGCAAAUUAUUUGCAUAUU
.....................((((((((.((((((............)))))).--.....))))))))....((((.....))))..... ( -14.10)
>DroSec_CAF1 18209 92 - 1
CCAAAUCUAUUAAUCUCCGAAUUUUGUGCAUUAUGCAAUACAAUCGAAGCAUAAAAAAAAGAGCACGAAAGCACGCAAAUUAUUUGCAUAUU
.....................((((((((.((((((............))))))........))))))))....((((.....))))..... ( -13.40)
>DroSim_CAF1 18484 90 - 1
CCAAAUCCAUUAAUCUCCGAAUUUUGUGCAUUAUGCAAUACAGUCGA-GCAUAAAA-AAAGAGCACGAAAGCACGCAAAUUAUUUGCAUAUU
.....................((((((((.((((((...........-))))))..-.....))))))))....((((.....))))..... ( -13.60)
>DroEre_CAF1 18168 89 - 1
CCAAACGCAUUAAUCUCCGAAAUUCGUGCAUUAUGCAAUACAAUCGAAGCAUAAA---ACGAGCACGAAAGCACGCCAAUUAUUUGCAUAUU
......(((.((((...((...(((((((.((((((............)))))).---....)))))))....))...))))..)))..... ( -16.70)
>DroYak_CAF1 17096 89 - 1
CCAAAACCAUUAAUAUACAAAUUUCGUGCAUUAUGCAAUAUAAUCGAAGCAUAAA---AAGAGCACGAAAGCACGUCAAUUAUUUGCACAUU
.....................((((((((.((((((............)))))).---....))))))))(((.((.....)).)))..... ( -15.30)
>consensus
CCAAAUCCAUUAAUCUCCGAAUUUUGUGCAUUAUGCAAUACAAUCGAAGCAUAAA__AAAGAGCACGAAAGCACGCAAAUUAUUUGCAUAUU
.....................((((((((.((((((............))))))........))))))))....((((.....))))..... (-12.14 = -12.34 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:06 2006