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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,609,051 |
T→C |
53.9% |
S121S (TCA→TCG) |
nikE ← |
nickel transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,609,051 | 0 | T | C | 53.9%
| 11.9
/ 63.7
| 78 | S121S (TCA→TCG) | nikE | nickel transporter subunit |
| Reads supporting (aligned to +/- strand): ref base T (19/17); new base C (13/29); total (32/46) |
| Fisher's exact test for biased strand distribution p-value = 6.61e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.29e-01 |
ACGCTGTCATCGAGATCGACCGCCTTCAGCATTTCGCTGGCGCGCGCCAGTTGTTCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTGCGCGGATTCACGGCGCT > minE/2608983‑2609116
|
aCGCTGTCATCGAGATCGACCGCCTTCAGCATTTCGCTGGCGCGCGCCAGTTGTTCGGATTTTTTCAGt < 1:2794233/69‑1 (MQ=255)
aCGCTGTCATCGAGATCGACCGCCTTCAGCATTTCGCTGGCGCGCGCCAGTTGTTCGGATTTTTTCAGt < 1:2948544/69‑1 (MQ=255)
aCGCTGTCATCGAGATCGACCGCCTTCAGCATTTCGCTGGCGCGCGCCAGTTGTTCGGATTTTTTCAGt < 1:3338458/69‑1 (MQ=255)
aCGCTGTCATCGAGATCGACCGCCTTCAGCATTTCGCTGGCGCGCGCCAGTTGTTCGGATTTTTTCAGt < 1:1987982/69‑1 (MQ=255)
aCGCTGTCATCGAGATCGACCGCCTTCAGCATTTCGCTGGCGCGCGCCAGTTGTTCGGATTTTTTCAGt < 1:1510551/69‑1 (MQ=255)
cGAGATCGACCGCCTTCAGCATTTCACTGGCGCGCGCCAGTTGTTCGGCTTTTTTCAGCGATAGCAGGt < 1:54582/69‑1 (MQ=255)
cGAGATCGACCGCCTTCAGCATTTCACTGGCGCGCGCCAGTTGTTCGGCTTTTTTCAGCGATAGCAGGt < 1:2891543/69‑1 (MQ=255)
cGAGATCGACCGCCTTCAGCATTTCACTGGCGCGCGCCAGTTGTTCGGCTTTTTTCAGCGATAGCAGGt < 1:2519016/69‑1 (MQ=255)
cGAGATCGACCGCCTTCAGCATTTCACTGGCGCGCGCCAGTTGTTCGGCTTTTTTCAGCGATAGCAGGt < 1:2195212/69‑1 (MQ=255)
cGAGATCGACCGCCTTCAGCATTTCACTGGCGCGCGCCAGTTGTTCGGCTTTTTTCAGCGATAGCAGGt < 1:2109396/69‑1 (MQ=255)
cGAGATCGACCGCCTTCAGCATTTCACTGGCGCGCGCCAGTTGTTCGGCTTTTTTCAGCGATAGCAGGt < 1:879539/69‑1 (MQ=255)
gagaTCGACCGCCTTCAGCATTTCACTGGCGCGCGCCAGTTGTTCGGCTTTTTTCAGCGATAGCAGGt < 1:1126324/68‑1 (MQ=255)
gagaTCGACCGCCTTCAGCATTTCACTGGCGCGCGCCAGTTGTTCGGCTTTTTTCAGCGATAGCAGGt < 1:1631808/68‑1 (MQ=255)
ccGCCTTCAGCATTTCACTGGCGCGCGCCAGTTGTTCGGCTTTTTTCAGCGATAGCAGGt < 1:1069421/60‑1 (MQ=255)
cTTCAGCATTTCGCTGGCGCGCGCCAGTTGTTCGGATTTTTTCAGt < 1:2402276/46‑1 (MQ=255)
cAGCATTTCGCTGGCGCGCGCCAGTTGTTCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCa > 1:1526053/1‑67 (MQ=255)
cAGCATTTCGCTGGCGCGCGCCAGTTGTTCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCa > 1:40801/1‑67 (MQ=255)
cAGCATTTCGCTGGCGCGCGCCAGTTGTTCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCa > 1:920148/1‑67 (MQ=255)
cAGCATTTCGCTGGCGCGCGCCAGTTGTTCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCa > 1:1681964/1‑67 (MQ=255)
aGCATTTCGCTGGCGCGCGCCAGTTGTTCGGATTTTTTCAGt < 1:2099985/42‑1 (MQ=255)
tCGCTGGCGCGCGCCAGTTGTTCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAgg < 1:1582782/66‑1 (MQ=255)
tCGCTGGCGCGCGCCAGTTGTTCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAgg < 1:1749744/66‑1 (MQ=255)
tCGCTGGCGCGCGCCAGTTGTTCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAgg < 1:1787739/66‑1 (MQ=255)
tCGCTGGCGCGCGCCAGTTGTTCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAgg < 1:2538344/66‑1 (MQ=255)
tCGCTGGCGCGCGCCAGTTGTTCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAgg < 1:3306171/66‑1 (MQ=255)
tCGCTGGCGCGCGCCAGTTGTTCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAgg < 1:16313/66‑1 (MQ=255)
tCGCTGGCGCGCGCCAGTTGTTCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGAtc > 1:2761785/1‑69 (MQ=255)
tCGCTGGCGCGCGCCAGTTGTTCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGAtc > 1:2635612/1‑69 (MQ=255)
tCGCTGGCGCGCGCCAGTTGTTCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGAt > 1:155804/1‑68 (MQ=255)
aGTTGTTCGGCTTTTTTCAGCGATAGCAGGTGTCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTg < 1:1817470/69‑1 (MQ=255)
aGTTGTTCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTg < 1:2631107/69‑1 (MQ=255)
aGTTGTTCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTg < 1:2692281/69‑1 (MQ=255)
aGTTGTTCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTg < 1:2791509/69‑1 (MQ=255)
aGTTGTTCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTg < 1:933585/69‑1 (MQ=255)
aGTTGTTCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTg < 1:3309871/69‑1 (MQ=255)
aGTTGTTCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTg < 1:1278998/69‑1 (MQ=255)
aGTTGTTCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTg < 1:464259/69‑1 (MQ=255)
aGTTGTTCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTg < 1:1405535/69‑1 (MQ=255)
aGTTGTTCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTg < 1:828141/69‑1 (MQ=255)
aGTTGTTCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTg < 1:708175/69‑1 (MQ=255)
aGTTGTTCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTg < 1:183580/69‑1 (MQ=255)
aGTTGTTCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTg < 1:579620/69‑1 (MQ=255)
aGTTGTTCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTg < 1:1507365/69‑1 (MQ=255)
aGTTGTTCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTg < 1:514779/69‑1 (MQ=255)
aGTTGTTCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTg < 1:910291/69‑1 (MQ=255)
aGTTGTTCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTg < 1:452370/69‑1 (MQ=255)
aGTTGTTCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCAGGAGCTCGCGCACGGTTTTg < 1:2530828/69‑1 (MQ=255)
aGTTGTTCGGCTTTTTTCAGCGACAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTg < 1:3070536/69‑1 (MQ=255)
aGTTGTTCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGtttt > 1:356861/1‑68 (MQ=255)
aGTTGTTCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTg > 1:1880358/1‑69 (MQ=255)
aGTTGTTCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTg > 1:1639663/1‑69 (MQ=255)
gttgttCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTg < 1:2904514/68‑1 (MQ=255)
tgttCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGc > 1:2941500/1‑45 (MQ=255)
tgttCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCa > 1:949112/1‑46 (MQ=255)
tgttCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCa > 1:585741/1‑46 (MQ=255)
tgttCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCa > 1:1021708/1‑46 (MQ=255)
tgttCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCa > 1:1045604/1‑46 (MQ=255)
tgttCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCa > 1:1927292/1‑46 (MQ=255)
tgttCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCa > 1:1952121/1‑46 (MQ=255)
tgttCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCa > 1:2617168/1‑46 (MQ=255)
tgttCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCa > 1:2573225/1‑46 (MQ=255)
tgttCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCa > 1:256523/1‑46 (MQ=255)
tgttCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCa > 1:2013588/1‑46 (MQ=255)
tgttCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCa > 1:237696/1‑46 (MQ=255)
tgttCGGCTTTTTTCAGCGATAGCAGGTGGCGCATCGGTTCACGCa > 1:254982/1‑46 (MQ=255)
gttCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCa > 1:2175930/1‑57 (MQ=255)
gttCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCTCGGt < 1:1538559/61‑1 (MQ=255)
gttCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGt < 1:2398687/61‑1 (MQ=255)
gttCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGt < 1:1056239/61‑1 (MQ=255)
gttCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGt < 1:2870271/61‑1 (MQ=255)
gttCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGt < 1:1575904/61‑1 (MQ=255)
gttCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGt < 1:2938939/61‑1 (MQ=255)
gttCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGt < 1:1687247/61‑1 (MQ=255)
gttCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGt < 1:1722485/61‑1 (MQ=255)
gttCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTGcgcg > 1:3243252/1‑69 (MQ=255)
gttCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTGcgcg > 1:2899730/1‑69 (MQ=255)
gttCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTGcgcg > 1:714885/1‑69 (MQ=255)
gttCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTGcgcg > 1:3237035/1‑69 (MQ=255)
gttCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTGcgcg > 1:2344185/1‑69 (MQ=255)
gttCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTGcgcg > 1:2348755/1‑69 (MQ=255)
ttttCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTGCGCGGATTCACgg > 1:1440534/1‑69 (MQ=255)
ttttCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTGCGCGGATTCACg > 1:278671/1‑68 (MQ=255)
aGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTGCGCGGATTCACGGCGCt < 1:559256/68‑1 (MQ=255)
aGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTGCGCGGATTCACGGCGCt < 1:2148042/68‑1 (MQ=255)
aGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTGCGCGGATTCACGGCGCt < 1:1529797/68‑1 (MQ=255)
|
ACGCTGTCATCGAGATCGACCGCCTTCAGCATTTCGCTGGCGCGCGCCAGTTGTTCGGATTTTTTCAGTGATAGCAGGTGGCGCATCGGTTCACGCAGGATCTCGCGCACGGTTTTGCGCGGATTCACGGCGCT > minE/2608983‑2609116
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
