Homer log odds score calculation

Question

[Aishwarya Kulkarni]

I was trying to figure out the log odds scoring system in homer for a motif, so if say for instance to calculate the log odds score for following pwm(given in homer library):

>NAHCAGCTGD Ap4(bHLH)/AML-Tfap4-ChIP-Seq(GSE45738)/Homer 6.116982 -5669.223213 0T:4676.0(58.38%),B:3979.3(10.04%),P:1e-2462
0.322 0.237 0.217 0.223
0.419 0.250 0.207 0.123
0.330 0.268 0.115 0.287
0.014 0.955 0.014 0.017
0.941 0.017 0.018 0.024
0.020 0.020 0.913 0.047
0.060 0.899 0.021 0.020
0.022 0.019 0.017 0.942
0.017 0.016 0.954 0.013
0.244 0.100 0.288 0.368

would it be ?

A         T         G         C         max      max prob  log of (max prob/0.25)
                                        prob      /0.25
0.322     0.237     0.217     0.223     0.322    1.288     0.109915863
0.419     0.25      0.207     0.123     0.419    1.676     0.224274014
0.33      0.268     0.115     0.287     0.33     1.32      0.120573931
0.014     0.955     0.014     0.017     0.955    3.82      0.582063363
0.941     0.017     0.018     0.024     0.941    3.764     0.575649615
0.02      0.02      0.913     0.047     0.913    3.652     0.562530769
0.06      0.899     0.021     0.02      0.899    3.596     0.555819683
0.022     0.019     0.017     0.942     0.942    3.768     0.576110894
0.017     0.016     0.954     0.013     0.954    3.816     0.581608366
0.244     0.1       0.288     0.368     0.368    1.472     0.16790781
                                sum of max prob/0.25->     4.056454308

Is that how it is calculated? However the score in homer was 6.116982 ,so I wasn't sure if that's the case.

[bsharmi6]

Hey did you figure it out?