No. words: 1795; after pruning: 1743


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

Pass 1
             Gap  Score    

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

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

Lowest   # merges  # failures
LLR score

Gap   # merges  # failures
 size

Offset

Pass 3
             Gap  Score    
Merge:(0)    0    0.0 6.3 (1,1:286)  286  0.00 0.00 0.00  KSU043_D11_BE442631Ld04P006F01F071F2_089.ab1        1   287 (187)  C KSU044_D11_BE442631Ld04P006F01F071R2_089.ab1   (144)   287     1 *
Merge:(0)    0    0.0 6.3 (1,1:288)  283  0.00 0.00 0.35  KSU014_D05_BE442631Ld04P006F01F071F1_041.ab1        1   289 (173)  C KSU015_D05_BE442631Ld04P006F01F071R1_041.ab1   (140)   288     1 *

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

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

Lowest   # merges  # failures
LLR score
0.0       2        0

Gap   # merges  # failures
 size
 0       2        0

Offset
  0       1 
  1       1 

Pass 4
             Gap  Score    
Fail: (1)  172   -9.7 -5.8 (2,2:5)  413  0.70 0.23 0.00  KSU015_D05_BE442631Ld04P006F01F071R1_041.ab1        1   428 (0)    KSU044_D11_BE442631Ld04P006F01F071R2_089.ab1        3   431 (0) *
  Worst pair: offset 0 
LLR breakdown: discreps: -16.2 (<20 part: 0.0 (#=0), >20:-16.2 (#=3); in HQ: -16.2, out HQ 0.0), match: 6.4  total: -9.8  281  1.03 0.00 0.00  KSU014_D05_BE442631Ld04P006F01F071F1_041.ab1        1   291 (171)  C KSU044_D11_BE442631Ld04P006F01F071R2_089.ab1   (140)   291     1 *

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

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

Lowest   # merges  # failures
LLR score
-9.7       0        1

Gap   # merges  # failures
 size
172       0        1

Offset
  0       1 

Read equivalence class histogram:
    2    2

Chimera merges: 


Contig 2:  146 nodes

 75 str. conn. components

Path
    1  C KSU044_D11_BE442631Ld04P006F01F071R2_089.ab1   431 
  364    KSU043_D11_BE442631Ld04P006F01F071F2_089.ab1   220 
  392  C KSU044_D11_BE442631Ld04P006F01F071R2_089.ab1    40 
  396    KSU043_D11_BE442631Ld04P006F01F071F2_089.ab1   252 
Contig length: old 618, new 618

Contig 1:  142 nodes

 73 str. conn. components

Path
    1  C KSU015_D05_BE442631Ld04P006F01F071R1_041.ab1   428 
  288    KSU014_D05_BE442631Ld04P006F01F071F1_041.ab1   148 
Contig length: old 601, new 602

Contig length: old 618, new 618
New start: 0 

Contig length: old 602, new 602
New start: 0