Assignment: GS540 HW8
Name: Anne Clark
Email: aclark4@uw.edu

State Histogram:
1=12340899
2=2304985

Segment Histogram:
1=342
2=341

Transition Probabilities:
1,1=0.99000000
1,2=0.01000000
2,1=0.20000000
2,2=0.80000000

Emission Probabilities:
1,0=0.20000000
1,1=0.20000000
1,2=0.20000000
1,>=3=0.40000000
2,0=0.10000000
2,1=0.30000000
2,2=0.30000000
2,>=3=0.30000000

Score Threshold: 0.5849639

Segment List:
87675 90565 4495.4
117898 117988 3756.5
3468687 4067688 5876.4
3982991 3991181 876.1
4188712 4189811 1200.9
etc..

Annotations:

Start: 87675
End: 90565
Overlaps with exon3 of the protein coding gene cMyc

Start: 117898
End: 117988
Overlaps with exon4 of the protein coding gene cMyc

Start: 3468687 
End: 4067688
Overlaps with exon4 of the protein coding gene cMyc

Read Start Histogram:
0=1775757
1=4676597
2=46546545
>=3=767966

Read Start Histogram for Elevated CN Segments:
0=1775
1=4676
2=46565
>=3=76790


Program:

YOUR CODE HERE