Locus 4930

Sequence ID X_DroMel_CAF1
Location 12,845,311 – 12,845,417
Length 106
Max. P 0.731347
window8043

overview

Window 3

Location 12,845,311 – 12,845,417
Length 106
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 87.71
Mean single sequence MFE -34.36
Consensus MFE -25.30
Energy contribution -25.62
Covariance contribution 0.32
Combinations/Pair 1.17
Mean z-score -1.88
Structure conservation index 0.74
SVM decision value 0.43
SVM RNA-class probability 0.731347
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12845311 106 + 22224390
CUCGGGCCCACAAUUUAAUCCAUGACAACGCAACGAUAUGCUUCUGCAAAGUCAGUCUAAUGAUGGCCACGGCC-GGGGGAAACCUAUUGCCAUGGCCCACACUGUA
...(((((...........((.((((...(((..((......)))))...))))(((....)))))....(((.-.(((....)))...)))..)))))........ ( -30.70)
>DroSec_CAF1 44414 105 + 1
CUCGGGCCCACAAAUUAAACCCUGACAACGCAGCGAUAUGCUUCUGCAAAGUCUGUCUAAUGAUGGCCACGGCC-GG-GGAGACCUAUUGCCAUGGCCGACACUGUA
.(((((..............)))))....((((.....(((....)))..(((.(((....)))(((((.(((.-((-(....)))...))).)))))))).)))). ( -34.34)
>DroSim_CAF1 53377 105 + 1
CUCGGGCCCACAAUUUAAUCCCUGACAACGCAGCGAUAUGCUUCUGCAAAGUCAGUCUAAUGAUGGCCACGGCC-GG-GGAGACCUAUUGCCAUGGCCGACACUGUA
.(((((..............)))))....((((.....(((....)))..(((.(((....)))(((((.(((.-((-(....)))...))).)))))))).)))). ( -34.94)
>DroEre_CAF1 49166 91 + 1
------------AUUUAAUC-CUGGCAACGCAGCGAUAUGC-UCUGCAAAGUCAGUUUGGUGAUGGUCGCGGCC-GG-GGAAACCUACUGCCAUGGCCGACACUGUA
------------........-(((((...((((.(.....)-.))))...)))))...((((.((((((.(((.-((-(....)))...))).)))))).))))... ( -33.60)
>DroYak_CAF1 52193 106 + 1
CUCGGGUCCACAAUUUAAUCCCUGGCAACGCAGCGAUAUGCCUCUGCAAAGUCAGUCUAAUGAUGGCCACGGCCUGG-GGAAACCUAUUGCCAUGGCCGACACUGUA
..((((((.............(((((...((((.(......).))))...))))).........(((((.(((.(((-(....))))..))).)))))))).))).. ( -38.20)
>consensus
CUCGGGCCCACAAUUUAAUCCCUGACAACGCAGCGAUAUGCUUCUGCAAAGUCAGUCUAAUGAUGGCCACGGCC_GG_GGAAACCUAUUGCCAUGGCCGACACUGUA
.....................(((((...((((.(......).))))...))))).....((.((((((.(((..((.(....)))...))).)))))).))..... (-25.30 = -25.62 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:21 2006