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 |
1,427,002 |
T→C |
40.8% |
P43P (CCA→CCG) |
napH ← |
ferredoxin‑type protein essential for electron transfer from ubiquinol to periplasmic nitrate reductase (NapAB) |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,427,002 | 0 | T | C | 40.8%
| 47.0
/ 88.5
| 120 | P43P (CCA→CCG) | napH | ferredoxin‑type protein essential for electron transfer from ubiquinol to periplasmic nitrate reductase (NapAB) |
| Reads supporting (aligned to +/- strand): ref base T (41/30); new base C (36/13); total (77/43) |
| Fisher's exact test for biased strand distribution p-value = 8.52e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.65e-01 |
Only 100 of 120 total aligned reads displayed.
CAGCGGAACGGTGTCGAATAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGACGTAACACCAGCCAACGGTG > minE/1426936‑1427067
|
cAGCGGAACGGTGTCGAATAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCATgg < 1:3414711/69‑1 (MQ=255)
cAGCGGAACGGTGTCGAATAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCATgg < 1:12005/69‑1 (MQ=255)
cAGCGGAACGGTGTCGAATAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCACgg > 1:396357/1‑69 (MQ=255)
cAGCGGAACGGTGTCGAATAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCACgg > 1:1618660/1‑69 (MQ=255)
cAGCGGAACGGTGTCGAATAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCACgg > 1:1858616/1‑69 (MQ=255)
cAGCGGAACGGTGTCGAATAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCACgg > 1:1571212/1‑69 (MQ=255)
cAGCGGAACGGTGTCGAATAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCACgg > 1:2058534/1‑69 (MQ=255)
cAGCGGAACGGTGTCGAATAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCACgg > 1:2195516/1‑69 (MQ=255)
cAGCGGAACGGTGTCGAATAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCACgg > 1:2447567/1‑69 (MQ=255)
cAGCGGAACGGTGTCGAATAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCACgg > 1:3296939/1‑69 (MQ=255)
cAGCGGAACGGTGTCGAATAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCACgg > 1:855048/1‑69 (MQ=255)
cAGCGGAACGGTGTCGAATAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCACgg > 1:1206254/1‑69 (MQ=255)
cAGCGGAACGGTGTCGAATAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCACgg > 1:2988252/1‑69 (MQ=255)
cAGCGGAACGGTGTCGAATAACAGGCTACTGCTGTAGTTGCCGTGCAAGAT‑‑ACACACCAAACCACGGAc > 1:499244/1‑69 (MQ=255)
ggAACGGTGTCGAATAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCATGGACCg > 1:2116412/1‑69 (MQ=255)
ggAACGGTGTCGAATAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCATGGACCg > 1:1802801/1‑69 (MQ=255)
ggAACGGTGTCGAATAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCATGGACCg > 1:3131140/1‑69 (MQ=255)
ggAACGGTGTCGAATAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCATGGACCg > 1:841984/1‑69 (MQ=255)
ggAACGGTGTCGAATAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCATGGACCg > 1:2925460/1‑69 (MQ=255)
ggAACGGTGTCGAATAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCATGGACCg > 1:2751928/1‑69 (MQ=255)
gtgtCGAATAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCATGGACCGCTCaaa < 1:603468/69‑1 (MQ=255)
gtgtCGAATAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCATGGACCGCTCaaa < 1:2839182/69‑1 (MQ=255)
aTAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCATGGACCGGTCaaaaa > 1:3372778/1‑64 (MQ=255)
aTAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCATGGACCGCTCaaaaa > 1:2102315/1‑64 (MQ=255)
aTAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCATGGACCGCTCaaaaa > 1:2163519/1‑64 (MQ=255)
aTAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCATGGACCGCTCaaaaa > 1:574883/1‑64 (MQ=255)
aTAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCATGGACCGCTCaaaaa > 1:2858439/1‑64 (MQ=255)
aTAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCATGGACCGCTCaaaaa > 1:1016566/1‑64 (MQ=255)
gCTACTGCTGTAGTTGCCGTGCTAGATCCACACACCAAACCACGGACCGCTCAAAAACa < 1:2262109/59‑1 (MQ=255)
gCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCACGGACCGCTCAAAAACa < 1:2902253/59‑1 (MQ=255)
gCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCACGGACCGCTCAAAAACa < 1:100765/59‑1 (MQ=255)
gCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCACGGACCGCTCAAAAACa < 1:1367264/59‑1 (MQ=255)
gCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCACGGACCGCTCAAAAACa < 1:2423308/59‑1 (MQ=255)
gCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCACGGACCGCTCAAAAACa < 1:1360793/59‑1 (MQ=255)
gCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCACGGACCGCTCAAAAACa < 1:2643150/59‑1 (MQ=255)
gCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCACGGACCGCTCAAAAACa < 1:1405542/59‑1 (MQ=255)
gCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCACGGACCGCTCAAAAACa < 1:1359936/59‑1 (MQ=255)
gCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCACGGACCGCTCAAAAACa < 1:1296887/59‑1 (MQ=255)
gCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCACGGACCGCTCAAAAACa < 1:2975016/59‑1 (MQ=255)
gCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCACGGACCGCTCAAAAACa < 1:1172381/59‑1 (MQ=255)
gCTACTCCTGTAGTTGCCGTGCAAGATCCACACACCAAACCACGGACCGCTCAAAAACa < 1:2187376/59‑1 (MQ=255)
tACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCATGGACCGCTCAAAAACATCCCCAGCa > 1:3097697/1‑66 (MQ=255)
gctgTAGTTGCCGTGCAAGATCCACACACCAAACCATGGACCGCTCAAAAACATCCCCAGCACgaagaa > 1:1032624/1‑69 (MQ=255)
gctgTAGTTGCCGTGCAAGATCCACACACCAAACCATGGACCGCTCAAAAACATCCCCAGCACgaagaa > 1:3177635/1‑69 (MQ=255)
gctgTAGTTGCCGTGCAAGATCCACACACCAAACCATGGACCGCTCAAAAACATCCCCAGCACgaag < 1:3135057/67‑1 (MQ=255)
gctgTAGTTGCCGTGCAAGATCCACACACCAAACCATGGACCGCTCAAAAACATCCCCAGCACgaag < 1:883134/67‑1 (MQ=255)
gTTGCCGTGCAAGATCCACACACCAAACCATGGACCGCTCAAAAACATCCCCAGCACgaag > 1:1220856/1‑61 (MQ=255)
gTTGCCGTGCAAGATCCACACACCAAACCATGGACCGCTCAAAAACATCCCCAGCACgaag > 1:1581693/1‑61 (MQ=255)
gCCGTGCAAGATCCACACACCAAACCATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAg > 1:1663183/1‑69 (MQ=255)
gCCGTGCAAGATCCACACACCAAACCATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAg > 1:2544453/1‑69 (MQ=255)
gCCGTGCAAGATCCACACACCAAACCATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAg > 1:812097/1‑69 (MQ=255)
gCCGTGCAAGATCCACACACCAAACCATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAg > 1:234239/1‑69 (MQ=255)
gCCGTGCAAGATCCACACACCAAACCATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAg > 1:2227735/1‑69 (MQ=255)
gCCGTGCAAGATCCACACACCAAACCATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAg > 1:623348/1‑69 (MQ=255)
gCCGTGCAAGATCCACACACCAAACCATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAg > 1:1957289/1‑69 (MQ=255)
gCCGTGCAAGATCCACACACCAAACCATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAg > 1:2096536/1‑69 (MQ=255)
cAAGATCCACACACCAAACCATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGAc > 1:2250371/1‑68 (MQ=255)
cAAGATCCACACACCAAACCACGGCCCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGAc > 1:2991918/1‑68 (MQ=255)
cAAGATCCACACACCAAACCACGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGAc > 1:847207/1‑68 (MQ=255)
cAAGATCCACACACCAAACCACGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGAc > 1:770200/1‑68 (MQ=255)
cAAGATCCACACACCAAACCACGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGAc > 1:1559395/1‑68 (MQ=255)
cAAGATCCACACACCAAACCACGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGAc > 1:3371997/1‑68 (MQ=255)
cAAGATCCACACACCAAACCACGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGAc > 1:3376058/1‑68 (MQ=255)
cAAGATCCACACACCAAACCACGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGAc > 1:1124429/1‑68 (MQ=255)
cAAGATCCACACACCAAACCACGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGAc > 1:1551537/1‑68 (MQ=255)
cAAGATCCACACACCAAACCACGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGAc > 1:2352664/1‑68 (MQ=255)
cAAGATCCACACACCAAACCACGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGAc > 1:596736/1‑68 (MQ=255)
cAAGATCCACACACCAAACCACGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGAc > 1:2821139/1‑68 (MQ=255)
cAAGATCCACACACCAAACCACGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGAc > 1:1412585/1‑68 (MQ=255)
cAAGATCCACACACCAAACCACGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGAc > 1:43583/1‑68 (MQ=255)
cAAGATCCACACACCAAACCACGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGAc > 1:2569452/1‑68 (MQ=255)
cAAGATCCACACACCAAACCACGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGAc > 1:2508537/1‑68 (MQ=255)
aGATCCACACACCAAACGATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGACGt < 1:3149329/68‑1 (MQ=255)
aGATCCACACACCAAACCATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGACGt < 1:1264179/68‑1 (MQ=255)
aGATCCACACACCAAACCATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGACGt < 1:1289544/68‑1 (MQ=255)
aGATCCACACACCAAACCATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGACGt < 1:2992638/68‑1 (MQ=255)
aGATCCACACACCAAACCATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGACGt < 1:1607539/68‑1 (MQ=255)
aGATCCACACACCAAACCATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGACGt < 1:2395253/68‑1 (MQ=255)
gATCCACACACCAAACGATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGACGt < 1:3145478/67‑1 (MQ=255)
tCCACACACCAAACCATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGACGTAac > 1:139928/1‑68 (MQ=255)
ccACACACCAAACCACGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACa > 1:2380955/1‑54 (MQ=255)
ccACACACCAAACCACGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACa > 1:2112996/1‑54 (MQ=255)
ccACACACCAAACCACGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACa > 1:1013008/1‑54 (MQ=255)
ccACACACCAAACCACGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACa > 1:1940734/1‑54 (MQ=255)
ccACACACCAAACCACGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACa > 1:3297865/1‑54 (MQ=255)
ccACACACCAAACCACGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACa > 1:2594787/1‑54 (MQ=255)
cacacaCCAAACCATGGACCGCTCAAAAACATCCCCAGCACgaag < 1:3077129/45‑1 (MQ=255)
cacacaCCAAACCATGGACCGCTCAAAAACATCCCCAGCACgaag < 1:3082228/45‑1 (MQ=255)
cacacaCCAAACCATGGACCGCTCAAAAACATCCCCAGCACgaag < 1:1820844/45‑1 (MQ=255)
cacacaCCAAACCATGGACCGCTCAAAAACATCCCCAGCACgaag < 1:161900/45‑1 (MQ=255)
cacacaCCAAACCATGGACCGCTCAAAAACATCCCCAGCACgaag < 1:1535434/45‑1 (MQ=255)
cacacaCCAAACCATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGACGt > 1:1432207/1‑63 (MQ=255)
aCCATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGACGTAACACCAGCCAACGGt < 1:1671268/69‑1 (MQ=255)
aCCATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGACGTAACACCAGCCAACGGt < 1:3092577/69‑1 (MQ=255)
ccATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTTACAAAGGCGACGTAACACCAGCCAACGGTg < 1:1156867/69‑1 (MQ=255)
ccATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGACGTAACACCAGCCAACGGTg < 1:2677643/69‑1 (MQ=255)
ccATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGACGTAACACCAGCCAACGGTg < 1:3054565/69‑1 (MQ=255)
ccATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGACGTAACACCAGCCAACGGTg < 1:2343287/69‑1 (MQ=255)
ccATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGACGTAACACCAGCCAACGGTg < 1:2131328/69‑1 (MQ=255)
ccATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGACGTAACACCAGCCAACGGTg < 1:630292/69‑1 (MQ=255)
|
CAGCGGAACGGTGTCGAATAACAGGCTACTGCTGTAGTTGCCGTGCAAGATCCACACACCAAACCATGGACCGCTCAAAAACATCCCCAGCACGAAGAACTGACAAAGGCGACGTAACACCAGCCAACGGTG > minE/1426936‑1427067
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
