Information
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COMMAND LINE: /rubens/dsk4/jvanheld/rsa-tools/bin/patser -A a:t c:g -m /rubens/dsk4/jvanheld/rsa-tools/public_html/tmp/patser.2001_09_14.163115.matrix -f /rubens/dsk4/jvanheld/rsa-tools/public_html/tmp/gibbs.2001_09_14.162859.seq.wconsensus -ls 0 -M 0
File containing the matrix: /rubens/dsk4/jvanheld/rsa-tools/public_html/tmp/patser.2001_09_14.163115.matrix
File containing the sequence information: /rubens/dsk4/jvanheld/rsa-tools/public_html/tmp/gibbs.2001_09_14.162859.seq.wconsensus
Type of matrix: alignment
Total pseudo-counts added to the elements of the alignment matrix: 1
Range for approximating a weight matrix with integers: 10000
Minimum score for calculating p-values: 0
Treat unrecognized symbols as discontinuities in the sequence.
Print scores greater than or equal to 0.00
***** Information for the alphabet from the command line. *****
letter 1: A (complement: T) prior frequency = 0.250000
letter 2: C (complement: G) prior frequency = 0.250000
letter 3: G (complement: C) prior frequency = 0.250000
letter 4: T (complement: A) prior frequency = 0.250000
width of the alignment matrix: 10
A | 0 16 1 0 0 7 7 11 1 0
C | 21 0 0 10 0 0 0 0 0 15
G | 0 0 11 0 22 0 3 0 11 0
T | 0 0 0 0 0 0 0 0 0 0
Information content (base e): 12.678
Sample size adjusted information content
(information content minus the average information
expected from an arbitrary alignment of random sequences): 11.293
Information content after adding pseudo-counts: 10.175
maximum score: 12.762
minimum score: -26.322
range of scores: 12.762 - -26.322 = 39.085
minimum score for calculating p-values: 0.000
maximum ln(numerically calculated p-value): -5.304
minimum ln(numerically calculated p-value): -13.863
ln(cutoff p-value) based on sample size adjusted information content: -11.293
numerically calculated cutoff score: 9.396
ln(numerically calculated cutoff p-value): -11.465
average score above numerically calculated cutoff: 10.215
CG12789 position= 490 score= 8.59 ln(p-value)= -10.54
CG3376 position= 393 score= 12.76 ln(p-value)= -13.86
CG3534 position= 324 score= 8.37 ln(p-value)= -10.43
CG3534 position= 357 score= 1.48 ln(p-value)= -6.16
CG3534 position= 399 score= 6.08 ln(p-value)= -9.11
CG7816 position= 126 score= 0.45 ln(p-value)= -5.53
CG7816 position= 303 score= 5.96 ln(p-value)= -8.94
Hrb87F position= 70 score= 5.68 ln(p-value)= -8.83
Hrb87F position= 98 score= 0.75 ln(p-value)= -5.68
Hrb87F position= 124 score= 3.08 ln(p-value)= -7.04
Hrb87F position= 251 score= 1.44 ln(p-value)= -6.12
Hrb87F position= 382 score= 1.87 ln(p-value)= -6.41
grk position= 234 score= 2.74 ln(p-value)= -6.91