Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A5 F28 I2 R2
|
154 |
32.4 |
3140800 |
76.4% |
2399571 |
54.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,389,530 |
C→T |
S52S (AGC→AGT) |
aaeR → |
predicted DNA‑binding transcriptional regulator, efflux system |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,389,530 | 0 | C | T | 88.4%
| 112.2
/ 6.2
| 43 | S52S (AGC→AGT) | aaeR | predicted DNA‑binding transcriptional regulator, efflux system |
| Reads supporting (aligned to +/- strand): ref base C (3/2); new base T (38/0); total (41/2) |
| Fisher's exact test for biased strand distribution p-value = 1.11e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.76e-01 |
TCAGTCAGACGGTATCAAAACTGGAAGATGAGTTGCAGGTAAAGCTGTTAAACCGTAGCACACGCAGCATTGGCCTGACCGAAGCCGG > W3110S.gb/3389472‑3389559
|
tcggtcagACGGTATCAAAACTGGAAGATGAGTTGCAGGTAAAGCTGTTTAACCGTAGcac < 1:980637/58‑1 (MQ=255)
tcagtcagACGGTATCAAAACTGGAAGATGAGTTGCAGGTAAAGCTGTTAAACCGTAGcac < 1:2431595/61‑1 (MQ=255)
tcagtcagACGGTATCAAAACTGGAAGATGAGTTGCAGGTAAAGCTGTTAAACCGTAGcac < 1:3126235/61‑1 (MQ=255)
tcagtcagACGGTATCAAAACTGGAAGATGAGTTGCAGGTAAAGCTGTTAAACCGTAGcac < 1:2504719/61‑1 (MQ=255)
tcagtcagACGGTATCAAAACTGGAAGATGAGTTGCAGGTAAAGCTGTTAAACCGTAGcac < 1:1703125/61‑1 (MQ=255)
tcagtcagACGGTATCAAAACTGGAAGATGAGTTGCAGGTAAAGCTGTTAAACCGTAGcac < 1:2825669/61‑1 (MQ=255)
gACGGTATCAAAACTGGAAGATGAGTTGCAGGTAAAGCTGTTAAACCGTAGCACACgcagca > 1:1683297/1‑62 (MQ=255)
gACGGTATCAAAACTGGAAGATGAGTTGCAGGTAAAGCTGTTAAACCGTAGCACACgcagca > 1:1821296/1‑62 (MQ=255)
gACGGTATCAAAACTGGAAGATGAGTTGCAGGTAAAGCTGTTAAACCGTAGCACACgcagca > 1:67752/1‑62 (MQ=255)
ggAAGATGAGTTGCAGGTAAAGCTGTTAAACCGTAGCACACGCAGCATTGGCCTGACCGAAg < 1:949998/62‑1 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACGCGCAGCATTg > 1:1488433/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCAtt > 1:2150370/1‑48 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCAtag > 1:2127271/1‑47 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:2943336/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:3032542/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:3045633/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:3111358/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:115392/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:2919326/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:37553/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:434518/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:508476/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:559609/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:650524/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:695286/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:761491/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:894010/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:966638/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:978119/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:1974825/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:1052943/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:1158160/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:1614835/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:1631313/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:1684449/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:1746957/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:1761911/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:1882073/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:285164/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:1999287/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:2139493/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:2152367/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:218770/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:2478731/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:255773/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:265561/1‑49 (MQ=255)
gAAGATGAGTTACAGGTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:2812731/1‑49 (MQ=255)
gAAGATCAGTTACAGCTAAAGCTGTTAAACCGTAGTACACGCAGCATTg > 1:97114/1‑49 (MQ=255)
gATGAGTTGCAGGTAAAGCTGTTAAACCGTAGCACACGCAGCATTGGCCTGACCGAAGCCgg < 1:2623298/62‑1 (MQ=255)
|
TCAGTCAGACGGTATCAAAACTGGAAGATGAGTTGCAGGTAAAGCTGTTAAACCGTAGCACACGCAGCATTGGCCTGACCGAAGCCGG > W3110S.gb/3389472‑3389559
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
