Assignment: GS 540 HW2
Name: Dani Faivre
Email: dfaivre@uw.edu
Language: C++
Runtime: 22.1 sec

Fasta 1: CP003913.fna
>gi|440453185|gb|CP003913.1| Mycoplasma pneumoniae M129-B7, complete genome
*=816373
A=249201
C=162924
G=163697
T=240551
N=0

Background Frequency:
A=0.3000
C=0.2000
G=0.2000
T=0.3000

Fasta 2: CP001872.fna
>gi|284930242|gb|CP001872.1| Mycoplasma gallisepticum str. R(high), complete genome
*=1012027
A=349322
C=159094
G=159365
T=344246
N=0

Background Frequency:
A=0.3427
C=0.1573
G=0.1573
T=0.3427

Match Length Histogram:
1 {match count}
2 {match count}
3 {match count}
.
.
.
list all the match length counts
(only first/last 3 shown here)
.
.
.
120 {match count}
121 {match count}
122 {match count}


Fasta 1: CP003913.fna
>gi|440453185|gb|CP003913.1| Mycoplasma pneumoniae M129-B7, complete genome
*=816373
A=249201
C=162924
G=163697
T=240551
N=0

Background Frequency:
A=0.3000
C=0.2000
G=0.2000
T=0.3000

Fasta 2: sim2.fna
>Simulated with gi|284930242|gb|CP001872.1| Mycoplasma gallisepticum str. R(high), complete genome
*=1012027
A=346465
C=159438
G=158617
T=347507
N=0

Background Frequency:
A=0.3429
C=0.1571
G=0.1571
T=0.3429

Match Length Histogram:
1 {match count}
2 {match count}
3 {match count}
.
.
list all the match length counts
(only first/last 3 shown here)
.
.
20 {match count}
21 {match count}
22 {match count}


Comments about the statistical significance of the matches between the two genomes.



Program 1:

Include your FASTA generating program here.


Program 2:

Include your match length histogram program here.