No. words: 1548; after pruning: 1522


Histogram of relative pair offsets, for read pairs with multiple alignments:

Pass 1
             Gap  Score    

Pass: 1
#reads  #contigs (not counting singlets)
    1      2

N.B. Following not based on all pairs!!

Lowest   # merges  # failures
LLR score

Gap   # merges  # failures
 size

Offset

Pass 3
             Gap  Score    

Pass: 3
#reads  #contigs (not counting singlets)
    1      2

N.B. Following not based on all pairs!!

Lowest   # merges  # failures
LLR score

Gap   # merges  # failures
 size

Offset

Pass 4
             Gap  Score    
Merge:(0)    0   -3.6 -3.6 (1,1:978)  433  7.03 0.00 0.00  (UMN172F)_G04_BE500510Tu01P176A03P176B061F1_020.ab1      176   744 (0)  C (UMN172R)_G04_BE500510Tu01P176A03P176B061R1_020.ab1   (0)   804   236 *
  Worst pair: offset 0 
LLR breakdown: discreps: -15.4 (<20 part: -15.4 (#=40), >20:0.0 (#=0); in HQ: -15.4, out HQ 0.0), match: 11.8  total: -3.6  433  7.03 0.00 0.00  (UMN172F)_G04_BE500510Tu01P176A03P176B061F1_020.ab1      176   744 (0)  C (UMN172R)_G04_BE500510Tu01P176A03P176B061R1_020.ab1   (0)   804   236 *

Pass: 4
#reads  #contigs (not counting singlets)
    2      1

N.B. Following not based on all pairs!!

Lowest   # merges  # failures
LLR score
-3.6       1        0

Gap   # merges  # failures
 size
 0       1        0

Offset
  0       1 

Read equivalence class histogram:
    1    2

Chimera merges: 


Contig 1:  174 nodes

 89 str. conn. components

Path
    1    (UMN172F)_G04_BE500510Tu01P176A03P176B061F1_020.ab1     1 
  205  C (UMN172R)_G04_BE500510Tu01P176A03P176B061R1_020.ab1   775 
  246    (UMN172F)_G04_BE500510Tu01P176A03P176B061F1_020.ab1   246 
  279  C (UMN172R)_G04_BE500510Tu01P176A03P176B061R1_020.ab1   701 
  283    (UMN172F)_G04_BE500510Tu01P176A03P176B061F1_020.ab1   283 
  287  C (UMN172R)_G04_BE500510Tu01P176A03P176B061R1_020.ab1   693 
  296    (UMN172F)_G04_BE500510Tu01P176A03P176B061F1_020.ab1   296 
  304  C (UMN172R)_G04_BE500510Tu01P176A03P176B061R1_020.ab1   676 
  322    (UMN172F)_G04_BE500510Tu01P176A03P176B061F1_020.ab1   322 
  326  C (UMN172R)_G04_BE500510Tu01P176A03P176B061R1_020.ab1   654 
  392    (UMN172F)_G04_BE500510Tu01P176A03P176B061F1_020.ab1   392 
  396  C (UMN172R)_G04_BE500510Tu01P176A03P176B061R1_020.ab1   584 
  426    (UMN172F)_G04_BE500510Tu01P176A03P176B061F1_020.ab1   426 
  430  C (UMN172R)_G04_BE500510Tu01P176A03P176B061R1_020.ab1   550 
Contig length: old 979, new 979

Contig length: old 979, new 979
New start: 0 
S Change at: 187; seg lengths: entry 1, contig 1
S Change at: 252; seg lengths: entry 1, contig 1
S Change at: 256; seg lengths: entry 1, contig 1
S Change at: 270; seg lengths: entry 1, contig 1